bioRxiv directory

1 The Antimicrobial Gut Resistome of the Wayampi reveals a shared background of antibiotic and metal resistance genes with industrialised populations, underscoring the robust-yet-fragile architecture of human gut microbiomes.

Billmann, M.; Costanzo, M.; Rahman, M.; Chan, K.; Tong, A.; Ward, H. N.; Hassan, A. Z.; Zhang, X.; Brown, K. R.; Rohde, T.; Shaw, A. H.; Ross, C.; van Leeuwen, J.; Aregger, M.; Lawson, K.; Mair, B.; Mero, P.; Usaj, M.; Andrews, B. J.; Boone, C.; Moffat, J.; Myers, C. L.

10.1101/2025.06.30.662330 — bioinformatics — Posted on 2025-06-30

7 Engineering Versatile Two-Dimensional Nanobody-Origami Architectures for Enhanced Antiviral Activity

Song, T.; Achi, J. G.; Anirudhan, V.; Le, L. T. P.; Morshed, M.; Wang, X.; Rong, L.; Wang, X.

10.1101/2025.06.27.662057 — bioengineering — Posted on 2025-06-30

8 Genetic variation in life-history traits is not correlated with estrogen-receptor positive breast cancer risk

Young, E. A.; Erten, E. Y.; Postma, E.; Lummaa, V.; van der Vegt, B.; de Bock, G.; Dugdale, H. L.

10.1101/2025.06.26.661731 — evolutionary biology — Posted on 2025-06-30

9 SARS-CoV-2 Viral Pseudoparticles Preferentially Infect Ectoderm In Human Embryonic Tissues

Song, A.; Talbot, P.

10.1101/2025.06.27.662024 — cell biology — Posted on 2025-06-30

10 Codon biased translation mediated by Queuosine tRNA modification is essential for the virulence of Leishmania mexicana

Kumar, B.; Boudova, M.; Julie, K.; Kulkarni, S.; Fernandez, T. P.; Satoskar, A.; Paris, Z.

10.1101/2025.06.30.662252 — molecular biology — Posted on 2025-06-30

11 Exploring the bistable equilibrium of methylated CpG DNA recognition by the MBD2 protein

Volkenandt, S.; Belyaeva, J.; Li, T.; Elgeti, M.; Metzler, R.; Imhof, P.; C. Williams, D.; Bagherpoor Helabad, M.

10.1101/2025.06.30.662303 — molecular biology — Posted on 2025-06-30

12 AFM characterization of early P. aeruginosa aggregates highlights emergent mechanical properties

Miller, C. D.; Asgari, M.; Darch, S. E.

10.1101/2025.06.30.662013 — microbiology — Posted on 2025-06-30

13 Distinct functional potential of bacterial extracellular vesicles across biogeographic provinces of the South Pacific Ocean

Fadeev, E.; Orel, N.; Tinta, T.; Afjehi-Sadat, L.; Liu, H.; Browning, T. J.; Yuan, Z.; Achterberg, E. P.; Biller, S.; Sher, D. J.; Herndl, G. J.

10.1101/2025.06.30.662282 — microbiology — Posted on 2025-06-30

14 Guanylate-Binding Proteins Promote Host Defense Against Leishmania major by Balancing iNOS/Arg-1 in Myeloid Cells

Fry, L.; Adhvaryu, H.; Roys, H.; Bowlin, A.; Venugopal, G.; Bird, J.; Washam, C.; Yamamoto, M.; Coers, J.; Byrum, S.; Voth, D. E.; Weinkopff, T.

10.1101/2025.06.26.661809 — immunology — Posted on 2025-06-30

15 TLR2 signaling uniquely destabilizes tumor Tregs to promote cancer immunotherapy

Campbell, T. F.; Castillo, J. G.; Fernandez, S.; Ventura, D. G.; Vickery, J.; Homentcovschi, S.; Hernandez, N. F.; Ybarra, J.; Portnoy, D. A.; DuPage, M.

10.1101/2025.06.26.661786 — immunology — Posted on 2025-06-30

16 Variant characterization in the intrinsically disordered human proteome

Hubrich, D.; Alvarado Valverde, J.; Lee, C. Y.; Djokic, M.; Welzel, M.; Hintz, K.; Luck, K.

10.1101/2025.06.27.661911 — systems biology — Posted on 2025-06-30

17 Molecular signatures of longevity identify compounds that extendmouse lifespan and healthspan

Shindyapina, A. V.; Tyshkovskiy, A.; Bozaykut, P.; Castro, J. P.; Gerashchenko, M. V.; Trapp, A.; Meer, M. V.; Zhang, B.; Poganik, J. R.; Horvath, S.; Miller, R. A.; Gladyshev, V. N.

10.1101/2025.06.26.661776 — systems biology — Posted on 2025-06-30

18 Biosynthesis of lavandulol and lavandulyl acetate in Escherichia coli

Yang, D.; Ma, X.

10.1101/2025.06.28.662091 — synthetic biology — Posted on 2025-06-30

19 GRASP: a modular toolkit for synthetic pentatricopeptide repeat RNA-binding proteins

Dennis, M. L.; Low, S. Y.; Viljoen, A.; Pullakhandam, A.; Colas des Francs-Small, C.; Campbell-Clause, L.; Bond, C. S.; Small, I.; Kwok van der Giezen, F. M.

10.1101/2025.06.29.661641 — synthetic biology — Posted on 2025-06-30

20 Antagonistic properties of 4-(hexyloxy)benzoate derivatives and their N-methyl ammonium salts at muscarinic acetylcholine receptors

Dolejsi, E.; Mezeiova, E.; Blahova, J.; Chetverikov, N.; Janouskova-Randakova, A.; Nelic, D.; Prchal, L.; Svobodova, B.; Boulos, J.; Korabecny, J.; Jakubik, J.

10.1101/2025.06.26.661741 — pharmacology and toxicology — Posted on 2025-06-30

21 Intratumoral Treg ablation is sufficient to mediate tumor control systemically without autoimmunity

Bockman, A.; Gittins, B.; Zhang, C.; Hung, J.; Moreno Ayala, M.; Saddier Axe, D.; Weist, B. M.; DuPage, M.

10.1101/2025.06.26.661765 — cancer biology — Posted on 2025-06-30

22 Decoding Breast Cancer Heterogeneity via Multi-Omics Integration and Language Model-Based Interpretation

Yasrab, R.; Agrawal, R.; Saber-Ayad, M.; El-Hadidi, M.

10.1101/2025.06.26.661832 — cancer biology — Posted on 2025-06-30

23 Replacement of a single residue in an antibody completely abolishes cognate antigen binding, as predicted by theoretical methods

Scherlo, M.; Hoeveler, A.; Mann, M.; Gerwert, G.; Gueldenhaupt, J.; Gerwert, K.; Rudack, T.; Koetting, C.

10.1101/2025.06.26.661714 — biophysics — Posted on 2025-06-30

24 Representation Learning Methods for Single-Cell Microscopy are Confounded by Background Cells

Gupta, A.; Moses, A.; Lu, A. X.

10.1101/2025.06.26.661577 — bioinformatics — Posted on 2025-06-30

25 Alginate hydrogels loaded with pyruvate dehydrogenase enzyme: a novel wound dressing to disassemble Pseudomonas aeruginosa biofilm

Sedighi, O.; Roode, N.; Johnsen, T.; Moses, M.; Sauer, K.; Doiron, A.

10.1101/2025.06.26.661844 — bioengineering — Posted on 2025-06-30

26 Increased rate of de novo single nucleotide mutation in house mice born through assisted reproduction

Blanco-Berdugo, L.; Garretson, A.; Dumont, B. L.

10.1101/2025.06.27.662069 — genomics — Posted on 2025-06-30

27 SARS-CoV-2 infection disrupts syncytial and endothelial integrity and alters PLGF levels in the placenta

Jones, B. R.; Nobrega, G. M.; Kumar, D.; Diveley, E.; Antolini-Tavares, A.; Souza, R. T.; Cecatti, J. G.; Kelly, J. C.; Costa, M. L.; Mysorekar, I. U.

10.1101/2025.06.27.661568 — microbiology — Posted on 2025-06-30

28 Nuclear proteome analysis reveals spatial and temporal compartmentalization of metabolic enzymes during Trypanosoma cruzi cell cycle

Menezes, A. P.; Gachet-Castro, C.; McGill, S.; Burchmore, R.; Silber, A.; Elias, M. C.; da Cunha, J. P.

10.1101/2025.06.30.662266 — microbiology — Posted on 2025-06-30

29 Deep sea anaerobic microbial community couples the degradation of insoluble chitin to extracellular electron transfer

Jangir, Y.; Guo, Y.; Connon, S.; Pontrelli, S.; Wu, F.; Schwartzman, J.; Lim, S.; Sauer, U.; Cordero, O. X.; Orphan, V. J.

10.1101/2025.06.30.662270 — microbiology — Posted on 2025-06-30

30 Long-term euxinia hinders microbial ammonium removal in brackish coastal waters

Dotsios, N.; Piso, L.; Venetz, J.; Zygadłowska, O. M.; van Helmond, N. A. G. M.; Lenstra, W. K.; Frey, C.; Mazzoli, A.; Lehmann, M. F.; Roth, F.; Stranne, C.; Humborg, C.; Berben, T.; Leao, P. E.; van Kessel, M. A. H. J.; Lücker, S.; Jetten, M. S. M.; Slomp, C. P.

10.1101/2025.06.30.662269 — microbiology — Posted on 2025-06-30

31 XoxF and the Calvin-Benson Cycle Mediate Lanthanide-Dependent Growth on Methanol in Bradyrhizobium and Sinorhizobium

Mineo, C. R.; Jiang, J.; Martinez-Gomez, N. C.

10.1101/2025.06.30.662339 — microbiology — Posted on 2025-06-30

32 In-situ calibration of passive samplers for monitoring host-associated fecal markers in an urban river

Liu, Y.; Verhagen, R.; Gebrewold, M.; Smith, W.; Hawker, D. W.; Simpson, S.; Ahmed, W.

10.1101/2025.06.30.662257 — microbiology — Posted on 2025-06-30

33 HIV Infection and Opioid Treatment Enable the Engraftment of Kaposi Sarcoma-like Tumors into Immunocompetent Mice

Naipauer, J.; Lacunza, E.; Ahuja, A.; Rosario, S.; Alvarez Canete, C. A.; Abba, M. C.; Cesarman, E.; Ramakrishnan, S.; Mesri, E.; Roy, S.; Sharma, U.

10.1101/2025.06.30.662265 — microbiology — Posted on 2025-06-30

34 Wolbachia-mediated parthenogenesis induction in the aphid hyperparasitoid Alloxysta brevis (Hymenoptera: Figitidae: Charipinae)

Dregni, J.; Lindsey, A. R. I.; Ferrer-Suay, M.; Celis, S.; Heimpel, G. E.

10.1101/2025.06.30.662338 — microbiology — Posted on 2025-06-30

35 The role and effects of the phage T4 Ac protein on infection

Santamaria, A. A.; Rosvold, S. N.; Orata, F.; Elias, A. L.; Sauvageau, D.

10.1101/2025.06.30.662393 — microbiology — Posted on 2025-06-30

36 Plasmin-Mediated Processing of Clumping Factor A Impacts Bacterial Aggregation and Abscess Formation during Staphylococcus aureus Infection

Turley, M. B.; Hu, Z.; Ward, R. W.; Lavelle, E. C.; Jin, T.; Geoghegan, J. A.

10.1101/2025.06.30.662199 — microbiology — Posted on 2025-06-30

37 Influence of perinatal ampicillin exposure on maternal fecal microbial and metabolic profiles

Zuffa, S.; Thomas, S.; Mohanty, I.; El Abiead, Y.; Deleray, V.; Kvitne, K. E.; Kousha, A.; Suzuki, E.; Tsai, C.-M.; Nguyen, G.; Ho, B.; Liu, G. Y.; Nizet, V.; Dorrestein, P. C.; Askarian, F.; Tsunoda, S. M.

10.1101/2025.06.30.662372 — microbiology — Posted on 2025-06-30

38 Clonal Expansion and Diversification of Germinal Center and Memory B Cell Responses to Booster Immunization in Primates

Deimel, L. P.; Nishimura, Y.; Silva Santos, G. S.; Baharani, V. A.; Hernandez, B.; Oliveira, T. Y.; MacLean, A. J.; Canis, M.; Shawraz, S.; Gazumyan, A.; Hartweger, H.; Bieniasz, P. D.; Hatziioannou, T.; Martin, M. A.; Nussenzweig, M. C.

10.1101/2025.06.27.661994 — immunology — Posted on 2025-06-30

39 Red Blood Cell Transfusion is a Non-Canonical Immune Stimulus Characterized by the Suboptimal Induction of CD4+ T Cell Help

Medved, J.; Arneja, A.; Shah, N.; Hester, B. N.; Burnett, E. D.; Boscia, A. R.; Moscovich, T. C.; Swain, W. R.; Kodali, A. S.; Chandler, A.; Thorkelsdottir, G. A.; Schwartzschild, C. J. W.; Muppidi, R. J.; Cherkaoui, I.; Strand, J. M.; Trubetskoy, M.; Stern-Green, E. A.; Tarrah, S. N.; Li, A.; Niebuhr, C. S.; Salazar, J. E.; Sannthanakrishnan, M.; Zimring, J. C.; Gorham, J. D.; Hudson, K. E.; Hendrickson, J. E.; Luckey, C. J.

10.1101/2025.06.26.661795 — immunology — Posted on 2025-06-30

40 Simple threshold-based Boolean rules fall short in capturing biological regulatory network dynamics

Sil, P.; Martin, O. C.; Samal, A.

10.1101/2025.06.26.661727 — systems biology — Posted on 2025-06-30

41 Recessive antimorph alleles reveal novel functions of the OPAQUE1 myosin XI in maize

Zebosi, B.; Martinez, S. E.; Wimalanathan, K.; Ssengo, J.; Brown, G.; Best, N. B.; Facette, M.; Rasmussen, C. G.; Vollbrecht, E.

10.1101/2025.06.26.661838 — plant biology — Posted on 2025-06-30

42 Zinc deficiency induces spatially distinct responses in roots and impacts ZIP12-dependent zinc homeostasis in Arabidopsis

Thiebaut, N.; Persson, D. P.; Sarthou, M.; Stevenne, P.; Bosman, B.; Carnol, M.; Fanara, S.; Verbruggen, N.; Hanikenne, M.

10.1101/2025.06.26.661794 — plant biology — Posted on 2025-06-30

43 Rhizobial infection-specific accumulation ofphosphatidylinositol 4,5-bisphosphate inhibits the excessive infection of rhizobia in Lotus japonicus

Akamatsu, A.; Ishikawa, T.; Tanaka, H.; Kawano, Y.; Hayashi, M.; Takeda, N.

10.1101/2025.06.26.661640 — plant biology — Posted on 2025-06-30

44 In silico unwinding of Caenorhabditis elegans microRNA duplexes to evaluate thermodynamic end stabilities improves predictions of microRNA strand selection

Medley, J. C.; Zinovyeva, A.

10.1101/2025.06.26.661848 — genetics — Posted on 2025-06-30

45 Chromatin accessibility differences between the hybrids of nasuta-albomicans complex of Drosophila

Padma, R.; Patil, A. B.; Vijay, N.

10.1101/2025.06.26.661782 — evolutionary biology — Posted on 2025-06-30

46 Improved Genotype Inference Reveals Cis- and Trans-Driven Variation in the Loss-of-Heterozygosity Rates in Yeast

Overton, M. S.; Kryazhimskiy, S.

10.1101/2025.06.26.661874 — evolutionary biology — Posted on 2025-06-30

47 Diatoms vs dinoflagellates: a temporal network analysis of bloom impacts on diversity and phytoplankton community structure in French coastal waters

Dias, J.-Y.; Pochic, V.; Chaffron, S.; Gernez, P.

10.1101/2025.06.26.661744 — ecology — Posted on 2025-06-30

48 Honey bee worker jelly, a nutritional secretion fed to offspring, shows high among-nestmate and among-colony variation.

Westwick, R.; Rittchof, C. C.

10.1101/2025.06.26.661879 — ecology — Posted on 2025-06-30

49 Leveraging Light Detection and Ranging (LiDAR) to Elucidate Forest Structural Conditions that Influence Eastern Whip-poor-will Abundance

Larkin, J. T.; Itter, M. S.; Fiss, C. J.; Chronister, L. M.; Kitzes, J.; Larkin, J. L.; Larkin, H. P.; McNeil, D. J.; D'Amato, A. W.; Akresh, M. E.; King, D. I.

10.1101/2025.06.26.661842 — ecology — Posted on 2025-06-30

50 Warming and elevated CO2 cause greater and deeper root growth by shrubs in a boreal bog

Weber, S. E.; Childs, J.; Latimer, J.; Hanson, P.; Salmon, V.; Schwaner, G.; Iversen, C.

10.1101/2025.06.26.661811 — ecology — Posted on 2025-06-30

51 Single-cell RNA sequencing identifies accumulation of Fcgr2b+ virtual memory like CD8 T cells with cytotoxic and inflammatory potential in aged mouse white adipose tissue

Kumar, A.; O'Brien, M.; Young, V. B.; Yung, R.

10.1101/2025.06.27.661935 — immunology — Posted on 2025-06-30

52 FEDRANN: effective long-read overlap detection based on dimensionality reduction and approximate nearest neighbors

Zhang, J.-Y.; Miao, C.; Qiu, T.; Xia, X.; He, L.; He, J.; Yang, C.; Sun, Y.; Zeng, T.; Li, Y.; Xu, X.; Ruan, Y.; Dong, Y.

10.1101/2025.05.30.656979 — bioinformatics — Posted on 2025-06-30

53 Trait matching without traits: using correspondence analysis to investigate the latent structure of interaction networks

Nicvert, L.; Fritz, H.; Dray, S.

10.1101/2024.10.22.619454 — ecology — Posted on 2025-06-30

54 All-Optical Mapping Reveals Distributed Suppression of Cortical Sensory Responses After Optogenetic Silencing

Ambrosone, M.; Montagni, E.; Resta, F.; Ulivi, T.; Curti, L.; Polverini, F.; Mazzamuto, G.; Mannaioni, G.; Masi, A.; Pavone, F. S.; Allegra Mascaro, A. L.

10.1101/2024.12.12.628207 — neuroscience — Posted on 2025-06-30

55 Altered Brain Energy Metabolism in the APPPS1 Alzheimer's Model during anesthesia: Integration of Experimental Data and In Silico Modeling

Schunack, J.; Riepe, G.; Heppner, F. L.; Textoris-Taube, K.; Wallach, I.; Mülleder, M.; Liotta, A.; Jendrach, M.; Berndt, N.

10.1101/2025.06.26.661690 — neuroscience — Posted on 2025-06-30

56 Integrating Load-Cell Lysimetry and Machine Learning for Prediction of Daily Plant Transpiration

Friedman, S.; Averbuch, N.; Nevo, T.; Moshelion, M.

10.1101/2024.11.24.625038 — plant biology — Posted on 2025-06-30

57 Vinorelbine enhances the efficacy of GM-CSF-armed oncolytic vaccinia virus in a preclinical model of ovarian high grade serous carcinoma

Drymiotou, S.; Queval, C. J.; Tyson, K. E.; Sheach, L. A.; Postigo, A.; Rosa, I. D.; Ennis, D. P.; Howell, M.; McNeish, I. A.; Way, M.

10.1101/2025.02.04.636413 — cancer biology — Posted on 2025-06-30

58 Selective Activation of GPCRs: Molecular Dynamics Shows Siponimod Binds but Fails to Activate S1PR2 Unlike S1PR1

Soniya, K.; Avadhani, K.; Nanduru, C.; Halder, A.

10.1101/2024.07.08.602194 — biophysics — Posted on 2025-06-30

59 SNARE disassembly requires Sec18/NSF side-loading

Khan, Y. A.; White, K. I.; Pfuetzner, R. A.; Singal, B.; Esquivies, L.; Mckenzie, G.; Liu, F.; DeLong, K.; Choi, U. B.; Montabana, E.; Mclaughlin, T.; Wickner, W. T.; Brunger, A. T.

10.1101/2024.08.30.610324 — biophysics — Posted on 2025-06-30

60 Engineered and decellularized human cartilage graft exhibits intrinsic immuno-evasive properties and full skeletal repair capacity

Garcia Garcia, A.; Prithiviraj, S.; Raina, D. B.; Schmidt, T.; Baudet-Quintino, A.; Gonzalez Anton, S.; Rabanal Cajal, L.; Gil, D. H.; Kahn, R.; Tagil, M.; Bourgine, P. E.

10.1101/2025.01.10.632347 — bioengineering — Posted on 2025-06-30

61 Social Context Restructures Behavioral Syntax in Mice

Ritter, M.; Shipley, H.; Deiana, S.; Hengerer, B.; Wotjak, C. T.; Brecht, M.; Bogadhi, A. R.

10.1101/2025.04.17.648924 — animal behavior and cognition — Posted on 2025-06-30

62 (De)composing sociality: disentangling individual-specific from dyad-specific propensities to interact

Neumann, C.; Fischer, J.

10.1101/2023.08.15.549768 — animal behavior and cognition — Posted on 2025-06-30

63 Interplay between cohesin and TORC1 links chromosome segregation and gene expression to environmental changes

Besson, D.; Vaur, S.; Vazquez, S.; Tournier, S.; Gachet, Y.; Birot, A.; Claverol, S.; Marston, A.; Damdimopoulos, A.; Ekwall, K.; Javerzat, J.-P.

10.1101/2024.07.24.603895 — molecular biology — Posted on 2025-06-30

64 Longitudinal Proteomic Profiling of T Cell Differentiation In Vivo Reveals Biochemical Remodeling Underlying Exhaustion

Beusch, C. M.; Dawood, A. S.; Ozdilek, A.; Welbourn, S.; Monaco, C. M.; Flegle, A. S.; Malik, S.; Niavi, C.; Akhtar, A.; Roman, C.; Gavora, A. A.; Gordon, D. E.; Abdel-Hakeem, M. S.

10.1101/2024.05.14.593504 — immunology — Posted on 2025-06-30

65 DRP1 depletion protects NK cells against hypoxia-induced dysfunction

Verhezen, T.; Van den Eynde, A.; Verstraelen, P.; Gehrcken, L.; Palmiotto, G.; Lau, H. W.; De Vos, W.; van der Heijden, S.; Brants, L.; Melis, J.; Van Audenaerde, J.; Van Laere, S.; Lardon, F.; Deben, C.; Wouters, A.; Smits, E.; De Waele, J.

10.1101/2025.06.23.661011 — immunology — Posted on 2025-06-30

66 Online reinforcement learning of state representation in recurrent network: the power of random feedback and biological constraints

Tsurumi, T.; Kato, A.; Kumar, A.; Morita, K.

10.1101/2024.08.22.609100 — neuroscience — Posted on 2025-06-30

67 Thermal cycling stimulation via nasal inhalation attenuates Aβ25-35-induced cognitive deficits in C57BL/6 mice

Lin, G.-B.; LIU, H.-H.; Kuo, Y.-Y.; CHEN, Y.-M.; Hsu, F.-T.; Wang, Y.-W.; Kung, Y.; Ching, C.; Chao, C.-Y.

10.1101/2025.05.08.652792 — neuroscience — Posted on 2025-06-30

68 Odors drive feeding through gustatory receptor neurons in Drosophila

Wei, H.-p.; Lam, T. K. C.; Kazama, H.

10.1101/2022.03.09.483541 — neuroscience — Posted on 2025-06-30

69 Are we conscious at all times? Neural evidence for a two-stage model of visual processing

Menetrey, M. Q.; Herzog, M. H.; Pascucci, D.

10.1101/2024.11.15.623853 — neuroscience — Posted on 2025-06-30

70 Inferring and simulating a gene regulatory network for the sympathoadrenal differentiation from single-cell transcriptomics in human.

Gandrillon, O.

10.1101/2025.03.21.644507 — systems biology — Posted on 2025-06-30

71 Gene Expression Plasticity Is Associated with Regulatory Complexity but Not with Specific Network Motifs

Petit, A. J. R.; Genissel, A.; Le Rouzic, A.

10.1101/2024.03.11.584403 — systems biology — Posted on 2025-06-30

72 Disruption of the mRNA m6A writer complex triggers autoimmunity in Arabidopsis

Metheringham, C. L.; Srivastava, A. K.; Thorpe, P.; Maji, A.; Parker, M.; Barton, G. J.; Simpson, G. G.

10.1101/2025.02.18.638636 — plant biology — Posted on 2025-06-30

73 NK cell co-localization with epithelial cells in pancreatic cancer is influenced by fibroblasts and ECM components

Malchiodi, Z. X.; Lekan, A. A.; Suter, R. K.; Deshpande, A.; Peran, I.; Harris, B. T.; Duttargi, A.; Chien, M.-J.; Hariharan, S.; Wetherill, L.; Arslan, S.; Maynard, R.; Lee, A. J.; Zuo, A.; Jablonski, S. A.; Ho, W. J.; Afifi, M.; Fertig, E. J.; Weiner, L. M.

10.1101/2024.05.23.593868 — cancer biology — Posted on 2025-06-30

74 scHDeepInsight: A Hierarchical Deep Learning Framework for Precise Immune Cell Annotation in Single-Cell RNA-seq Data

JIA, S.; Lysenko, A.; Boroevich, K. A.; Sharma, A.; Tsunoda, T.

10.1101/2025.06.23.661045 — bioinformatics — Posted on 2025-06-30

75 STORIES: learning cell fate landscapes from spatial transcriptomics

Huizing, G.-J.; Samaran, J.; Capocefalo, D.; Audit, A.; Peyre, G.; Cantini, L.

10.1101/2024.07.26.605241 — bioinformatics — Posted on 2025-06-30

76 Sodium Butyrate Rescues Neurodevelopmental Deficits Following Perinatal Methadone Exposure

Williams, I. A. R.; van Dorst, J.; Leigh, S.-J.; Baracz, S. J.; Marcus, A.; McCaffrey, D.; Walker, A.; Ooi, C. Y.; Ward, M. C.; Oei, J.-L.; Clemens, K. J.

10.1101/2025.06.26.661851 — animal behavior and cognition — Posted on 2025-06-30

77 Early experience affects foraging behavior of wild fruit-bats more than their original behavioral predispositions

Rachum, A.; Harten, L. M.; Assa, R.; Goldshtein, A.; Chen, X.; Gonceer, N.; Yovel, Y.

10.1101/2024.10.10.617636 — animal behavior and cognition — Posted on 2025-06-30

78 Key link between iron and the size structure of three main mesoplanktonic groups (Crustaceans, Rhizarians, and colonial N2-fixers) in the Upper Ocean

Dugenne, M.; Corrales-Ugalde, M.; Luo, J.; Stemmann, L.; Irisson, J.-O.; Lombard, F.; O'Brien, T.; Stock, C.; Kiko, R.

10.1101/2024.03.08.584097 — ecology — Posted on 2025-06-30

79 Early exercise disrupts a pro-repair extracellular matrix program during zebrafish fin regeneration

Lewis, V. M.; Fernandez, R. A.; Horst, S. G.; Gonzalez, C. A.; Stankunas, K.

10.1101/2024.11.15.623835 — developmental biology — Posted on 2025-06-30

80 Synchronization between chloroplastic and cytosolic protein synthesis for photosynthesis complex assembly

Wakigawa, T.; Fujita, T.; Kawamoto, N.; Kurihara, Y.; Hirose, Y.; Hirayama, T.; Toh, H.; Kuriyama, T.; Hashimoto, A.; Matsuura-Suzuki, E.; Mochida, K.; Yoshida, M.; Matsui, M.; Iwasaki, S.

10.1101/2024.05.03.592458 — molecular biology — Posted on 2025-06-30

81 Detecting, mapping, and suppressing the spread of a decade-long Pseudomonas aeruginosa nosocomial outbreak with genomics

Stribling, W.; Hall, L. R.; Powell, A.; Harless, C.; Martin, M. J.; Corey, B. W.; Snesrud, E.; Ong, A.; Maybank, R.; Stam, J.; Bartlett, K.; Jones, B. T.; Preston, L. N.; Lane, K. F.; Thompson, B.; Young, L. M.; Kwak, Y. I.; Barsoumian, A. E.; Markelz, A.-E.; Kiley, J. L.; Cybulski, R. J.; Bennett, J. W.; Mc Gann, P. T.; Lebreton, F.

10.1101/2023.07.24.550326 — microbiology — Posted on 2025-06-30

82 Progressive overfilling of readily releasable pool underlies short-term facilitation at recurrent excitatory synapses in layer 2/3 of the rat prefrontal cortex

Shin, J.; Lee, S. Y.; Kim, Y.; Lee, S.-H.

10.1101/2024.09.10.612266 — neuroscience — Posted on 2025-06-30

83 Basal forebrain volume is associated with cortical amyloid burden in cognitively unimpaired older adults at varying genetic risk for Alzheimers disease

Cho, G.; Kelly, K.; Toyonaga, T.; Carson, R. E.; Miner, B.; Gelernter, J.; Varma, P.; Van Dyck, C.; Mecca, A. P.; O'Dell, R.

10.1101/2025.05.28.656557 — neuroscience — Posted on 2025-06-30

84 How spatial attention alters visual cortical representation during target anticipation

Tüncok, E.; Carrasco, M.; Winawer, J.

10.1101/2024.03.02.583127 — neuroscience — Posted on 2025-06-30

85 Disturbed engram network caused by NPTXs downregulation underlies aging-related memory deficits

Jin, T.; Yang, Y.; Guo, Y.; Zhang, Y.; Le, Q.; Huang, N.; Liu, X.; Yu, J.; Ma, L.; Wang, F.

10.1101/2025.05.19.654996 — neuroscience — Posted on 2025-06-30

86 Static Three-Dimensional Structures Determine Fast Dynamics Between Distal Loci Pairs in Interphase Chromosomes

Shi, G.; Shin, S.; Thirumalai, D.

10.1101/2025.01.16.633484 — biophysics — Posted on 2025-06-30

87 Pentose Sugars Encode Sequence-Dependent DNA-RNA Segregation for Biomimetic Multiphase Condensates

Guo, W.; Chen, F.; Kinghorn, A. B.; Li, X.; Pan, Y.; Luo, R.; Wang, Y.; Lau, K. K.; Mao, T.; Wang, F.; Yang, Z.; Li, X.; Chen, Y.; Liu, S.; Zhang, Y.; Song, Y.; Zeng, X.; Shum, H. C.

10.1101/2025.06.23.656378 — biophysics — Posted on 2025-06-30

88 Electron diffraction captures high-resolution structures from in vivo protein nanocrystals of Bacillus thuringiensis

Gallagher-Jones, M.; Buecker, R.; Delaunay, Q.; Coquelle, N.; Andreeva, E.; Smith, A.; Zala, N.; Montmayeul, P.; Miller, R. J. D.; Kim, J. S.; Kirkland, A. I.; Colletier, J.-P.

10.1101/2025.06.24.661318 — biophysics — Posted on 2025-06-30

89 Learning decouples accuracy and reaction time for rapid decisions in a transitive inference task

Silva, F. A. M.; Jensen, G.; Shinn, M.; Alkan, Y.; Murray, J.; Terrace, H.; Ferrera, V. P.

10.1101/2025.02.11.636952 — animal behavior and cognition — Posted on 2025-06-30

90 DNA virus infections shape transposable elements activity in vitro and in vivo

Tan, J.; Franke, V.; Neugebauer, E.; Pennisi, S.; Schaechtle, M. A.; Lagisquet, J.; Kuderna, A. K.; Walter, S.; Welker, I.; Ensser, A.; Landthaler, M.; Stamminger, T.; Gramberg, T.; Akalin, A.; Wyler, E.; Full, F.

10.1101/2024.04.18.589901 — genomics — Posted on 2025-06-30

91 Multiplexed Targeted Spatial Mass Spectrometry Imaging Assays to monitor lipids and NAD+ metabolites in CD38 knockout mice exhibiting improved metabolism.

Schurman, C. A.; Bons, J.; Kumaar, P. V.; Fang, J.; Hormazabal, G. V.; Roberts, A.; Riley, R. R.; Tao, N.; Verdin, E.; Schilling, B.

10.1101/2025.05.25.655991 — cell biology — Posted on 2025-06-30

92 Maintenance of neuronal TDP-43 expression requires axonal lysosome transport

Ryan, V. H.; Lawton, S.; Reyes, J. F.; Hawrot, J.; Frankenfield, A. M.; Seddighi, S.; Ramos, D. M.; Epstein, J.; Faghri, F.; Johnson, N. L.; Zou, J.; Kampmann, M.; Replogle, J.; Qi, Y. A.; Yuan, H.; Johnson, K. R.; Maric, D.; Hao, L.; Nalls, M. A.; Ward, M.

10.1101/2024.09.30.615241 — neuroscience — Posted on 2025-06-30

93 Emergence of specific binding and catalysis from a designed generalist binding protein

Chen, Y.; Bhattacharya, S.; Bergmann, L.; Correy, G. J.; Tan, S.; Hou, K.; Biel, J.; Lu, L.; Bakanas, I.; Volkov, A. N.; Korendovych, I. V.; Polizzi, N. F.; Fraser, J. S.; DeGrado, W. F.

10.1101/2025.01.30.635804 — biophysics — Posted on 2025-06-30

94 A Systematic Benchmark of High-Accuracy PacBio Long-Read RNA Sequencing for Transcript-Level Quantification

Wissel, D.; Mehlferber, M. M.; Nguyen, K. M.; Pavelko, V.; Tseng, E.; Robinson, M. D.; Sheynkman, G. M.

10.1101/2025.05.30.656561 — bioinformatics — Posted on 2025-06-30

95 Identifying Optimal Machine Learning Approaches for Microbiome-Metabolomics Integration with Stable Feature Selection

Palmer, S. N.; Mishra, A. A.; Gan, S.; Liu, D.; Koh, A.; Zhan, X.

10.1101/2025.06.21.660858 — bioinformatics — Posted on 2025-06-30

96 Automated muscle path calibration with gradient-specified optimization based on moment arm

Chen, Z.; Hu, T.; Haddadin, S.; Franklin, D.

10.1101/2024.05.09.593463 — bioengineering — Posted on 2025-06-30

97 NewtCap: an efficient target capture approach to boost genomic studies in Salamandridae (True Salamanders and Newts)

de Visser, M. C.; France, J.; McCartney-Melstad, E.; Bucciarelli, G. M.; Theodoropoulos, A.; Shaffer, H. B.; Wielstra, B.

10.1101/2024.10.25.620290 — genomics — Posted on 2025-06-30

98 Phylogenomics supports island contribution to metapopulation dynamics in a predominantly continental bird species

Aoki, D.; Senzaki, M.; Ando, H.; Odaya, Y.; Heim, W.; Kitazawa, M.; Tom, W.; Trense, D.; Bastardot, M.; Fukuda, A.; Takahashi, M.; Kondo, N.

10.1101/2023.09.27.559751 — evolutionary biology — Posted on 2025-06-30

99 Super-silencers are crucial for development and carcinogenesis in B cells.

Huang, D.; M Petrykowska, H. M.; Kumar, D.; Kardava, L.; Susan Moir, S.; Elnitski, L. L.; Ovcharenko, I.

10.1101/2025.06.27.662063 — genomics — Posted on 2025-06-30

100 Oncogenic virus hijacks SOX18 pioneer function to enhance viral persistence

Tuohinto, K.; Graus, M. S.; Staab, P.; Tiusanen, V.; Pradhan, S.; Wong, Y. Y.; Weissmann, S.; Lou, J.; Hinde, E.; Wong, J.; Lee, Q.; Terskikh, A.; Alvarez-Kuglen, M.; Karnezis, T.; Gunther, T.; Grundhoff, A.; Sahu, B.; Francois, M.; Ojala, P. M.

10.1101/2025.06.28.662102 — molecular biology — Posted on 2025-06-30

101 Disrupted resting-state fMRI coherence at vasomotor frequency links carotid artery stenosis to functional connectivity loss

Choi, S.; Hoffmann, G.; Schneider, S.; Kaczmarz, S.; Yu, X.; Sorg, C.; Preibisch, C.

10.1101/2025.06.12.659378 — neuroscience — Posted on 2025-06-30

102 Computational Design of Next-Gen Peptide Biopesticides: Targeting the Nicotinic Acetylcholine Receptor in Rice Pests

Chen, X.; Zhou, H.; He, X.; Wang, J.

10.1101/2025.06.25.661460 — plant biology — Posted on 2025-06-30

103 Targeting breast cancer senescence in 3D models of bone metastasis

Hamburger, E. C. B.; Mohseni Garakani, M.; Alfaisali, S.; Ouellet, J. A.; Weber, M. H.; Garzia, L.; Haglund, L.; Rosenzweig, D. H.

10.1101/2025.06.26.661856 — cancer biology — Posted on 2025-06-30

104 Temporal regularities of vocal exchange in Java sparrows

Kikuchi, S.; Kondo, N.; Koda, H.

10.1101/2024.06.15.598771 — animal behavior and cognition — Posted on 2025-06-30

105 Simultaneous epigenomic profiling and regulatory activity measurement using e2MPRA

Zhang, Z.; Georgakopoulos Soares, I.; Bourque, G.; Ahituv, N.; Inoue, F.

10.1101/2025.06.26.661849 — genomics — Posted on 2025-06-30

106 Temperature and pH universally govern protein diversity in hydrothermal spring communities, but they do so differently

Rivas-Santisteban, J.; Alcorta, J.; Diez, B.; Tamames, J.; Pedros-Alio, C.

10.1101/2025.06.12.659262 — evolutionary biology — Posted on 2025-06-30

107 Reduced regulatory complexity associated with the evolutionary transition to sociality from cockroaches to termites despite evolutionary parallels with Hymenoptera

Jones, A.; Dohmen, E.; Berger, J.; Legendre, F.; Harrison, M.; Bornberg-Bauer, E.

10.1101/2024.11.25.625201 — evolutionary biology — Posted on 2025-06-30

108 Navigating the Landscape of Fear

Gee, M.; Gonzalez-Granda, N.; Joshi, S.; Rudrapatna, N.; Somalwar, A.; Ellner, S.; Vladimirsky, A.

10.1101/2024.08.15.608007 — ecology — Posted on 2025-06-30

109 Genome-wide extraction of differentially methylated DNA regions using adapter-anchored proximity primers

Darbeheshti, F.; Zeggar, H. R.; Salmani, H.; Liu, Y.; Liu, R.; Adalsteinsson, V. A.; Makrigiorgos, G. M.

10.1101/2025.06.29.660377 — molecular biology — Posted on 2025-06-30

110 SETD6 Mediates Selective Interaction and Genomic Occupancy of BRD4 and MITF in Melanoma cells

Levy, D.; Biton, T. E.; Feldman, M.; Davidy, T.; Moskovitz, N. T.; Levin, L.; Sevilla, D.; Goding, C.; Bernstein, E.

10.1101/2025.06.29.662016 — molecular biology — Posted on 2025-06-30

111 Human ribomes reveal DNA-embedded ribonucleotides as a new type of epigenetic mark

Kundnani, D. L.; Yang, T.; Channagiri, T.; Xu, P.; Lee, Y.; Sun, M.; Martinez-Figueroa, F.; Randhawa, S.; Gogate, A.; Jeon, Y.; Marsili, S.; Newnam, G.; Lu, Y.; Park, V.; Tao, S.; Ling, J.; Schinazi, R.; Pursell, Z.; Mohammed, A.; Opresko, P.; Freudenthal, B.; Kim, B.; Yi, S.; Jonoska, N.; Storici, F.

10.1101/2025.06.27.661996 — molecular biology — Posted on 2025-06-30

112 MORC2 directs transcription-dependent CpG methylation of human LINE-1 transposons in early neurodevelopment

Dorazehi, F.; Francesconi, C.; Pandiloski, N.; Castilla-Vallmanya, L.; Albecka, A.; Koutounidou, S.; Mohan, S. B.; Adami, A.; Katsikas, A.; Matijevic, J.; Karlsson, O.; Davis-Hansson, C.; Johansson, J. G.; Modis, Y.; Jakobsson, J.; Douse, C. H.

10.1101/2025.06.11.658943 — molecular biology — Posted on 2025-06-30

113 Endophilin A1 facilitates organization of the GABAergic postsynaptic machinery to maintain excitation-inhibition balance

Chen, X.; Pan, D.; Liu, J.-J.; Yang, Y.

10.1101/2024.09.07.611815 — neuroscience — Posted on 2025-06-30

114 Whisker stimulation reinforces a resting-state network in the barrel cortex: nested oscillations and avalanches

Mariani, B.; Guevara, R.; Tambaro, M.; Maschietto, M.; Leparulo, A.; Vassanelli, S.; Suweis, S.

10.1101/2025.06.06.658305 — neuroscience — Posted on 2025-06-30

115 Age and Generation Based Model of Metastatic Cancer

Gavriliadis, P.; Lolas, G.; Matsoukas, T.

10.1101/2025.06.26.661673 — systems biology — Posted on 2025-06-30

116 Impaired trap closure in the counting-deficient Venus flytrap mutant DYSCALCULIA is caused by cell wall biomechanics

Trebing, S.; Freund, M.; Iosip, A. L.; Diblasi, C.; Krennerich, V.; Kirshner, J.; Sato, M. P.; Marques, A.; Saitou, M.; Becker, D.; Albert, V. A.; Tessmer, I.; Fukushima, K.; Hedrich, R.; Kreuzer, I.

10.1101/2025.06.26.661685 — plant biology — Posted on 2025-06-30

117 CD47 blockade enhances immunoradiotherapy response in head and neck squamous cell carcinoma

Monther, A.; Al-Msari, R.; Saddawi-Konefka, R.; Fassardi, S.; Tang, C.; Philips, C.; Sen, P.; Mohammadzadeh, P.; Decker, K.; Miyauchi, S.; Roy, S.; Jones, R.; Gutkind, S.; Sharabi, A.; Califano, J.

10.1101/2025.06.29.662015 — cancer biology — Posted on 2025-06-30

118 Reprogramming of Osimertinib-Resistant EGFR-mutant NSCLC: The Pyruvate-Acetaldehyde-Acetate Pathway As a Key Driver of Resistance

Maroni, G.; Cabrera San Millan, E.; Mercatelli, R.; Chiodi, A.; Campanella, B.; Onor, M.; Modeo, L.; Braccini, G.; Cercignani, G.; Ali, A.; Mosca, E.; Bramanti, E.; Levantini, E.

10.1101/2025.06.27.661913 — cancer biology — Posted on 2025-06-30

119 Pan-cancer prediction of tumor immune activation and response to immune checkpoint blockade from tumor transcriptomics and histopathology

Mukherjee, S.; Patiyal, S.; Pal, L. R.; Chang, T.; Biswas, S.; Dhruba, S. R.; Stemmer, A.; Singh, A.; Yousefi-Rad, A.; Chen, T.-H.; Wang, B.; Marino, D.; Shon, W.; Yuan, Y.; Faries, M.; Hamid, O.; Reckamp, K.; Waissengrin, B.; Ornelas, B.; Chu, P.-Y.; Boudjadi, S.; Ley, L.; Akbulut, D.; Ahmar, N. E.; Signoretti, S.; Braun, D. A.; Joo, H.; Kim, H.; Osipov, A.; Figlin, R. A.; Bar, J.; Barshack, I.; Day, C.-P.; Sargsyan, K.; Apolo, A. B.; Aldape, K.; Yang, M.-H.; Atkins, M. B.; Ronai, Z. A.; Hoang, D.-T.; Ruppin, E.

10.1101/2025.06.27.661875 — cancer biology — Posted on 2025-06-30

120 reconcILS: A gene tree-species tree reconciliation algorithm that allows for incomplete lineage sorting

Mishra, S.; Smith, M. L.; Hahn, M. W.

10.1101/2023.11.03.565544 — bioinformatics — Posted on 2025-06-30

121 Molecular characterization of unique multi-domain harbouring fungal rhodopsin for establishing their novel opto-synthetic biological usages

Kumari, A.; Kumar, A.; Sharma, K.; Pati, S. R.; Mohanty, S.; KATERIYA, S.

10.1101/2025.06.26.661701 — bioinformatics — Posted on 2025-06-30

122 Comparative regulomics provides novel insight into the evolution of wood formation across dicot and conifer trees

Rodriguez, E.; Birkeland, S.; Chapple, E. D.; Fredriksson, S.; Lorenzo, Z. C.; Kalman, T. A.; Kumar, V.; Hill, J.; Tuominen, H.; Mellerowicz, E. J.; Street, N. R.; Hvidsten, T. R.

10.1101/2025.06.28.661522 — genomics — Posted on 2025-06-30

123 Lifestyles shape genome size and gene content in fungal pathogens

Fijarczyk, A.; Hessenauer, P.; Hamelin, R. C.; Landry, C. R.

10.1101/2022.08.24.505148 — evolutionary biology — Posted on 2025-06-30

124 Developmentally Conserved CDX2 Cells from Human Term Placenta Drive Cardiovascular Regeneration

Vadakke-Madathil, S.; Bouhamida, E.; Wang, B.; Mathiyalagan, P.; Ayyamperumal, P.; Khan, A.; Oniskey, M.; Santos-Gallego, C.; Hadley, M.; Croft, L.; Dekio, F.; Brody, R.; Gelber, S.; Sperling, R.; Chaudhry, H. W.

10.1101/2023.08.02.551028 — cell biology — Posted on 2025-06-30

125 Epimutations driven by RNAi or heterochromatin evoke antifungal drug resistance in human fungal pathogens

Son, Y.-E.; Heitman, J.

10.1101/2025.06.17.660219 — microbiology — Posted on 2025-06-30

126 WITHDRAWN: Humans can walk economically on uneven terrain without deliberative optimization with a Simple Feedback Control Policy

Darici, O.; Kuo, A.

10.1101/2025.01.10.632428 — neuroscience — Posted on 2025-06-30

127 Fine decomposition of rodent behavior via unsupervised segmentation and clustering of inertial signals

Fayat, R.; Sarraudy, M.; Lena, C.; Popa, D.; Latouche, P.; Dugue, G. P.

10.1101/2024.09.20.613901 — animal behavior and cognition — Posted on 2025-06-30

128 Parallel Functional Interrogations of Autism Risk Genes Reveal Drivers of Transcriptomic Convergence and the Female Protective Effect

Andersen, R.; Talukdar, M.; Sakamoto, T.; Exposito-Alonso, D.; Song, J. H.; Qian, X.; Lee, S.; Murugan, N.; Delgado, R. N.; Zhao, S.; Eichfeld, G.; Harms, J.; Page, D. C.; Walsh, C. A.

10.1101/2025.01.20.634000 — genetics — Posted on 2025-06-30

129 Sentinel-2 based estimates of rangeland fractional cover and canopy gap class for the western United States

Allred, B. W.; McCord, S. E.; Assal, T. J.; Bestelmeyer, B. T.; Boyd, C. S.; Brooks, A. C.; Cady, S. M.; Fuhlendorf, S. D.; Green, S. A.; Harrison, G. R.; Jensen, E. R.; Kachergis, E. J.; Mattilio, C. M.; Mealor, B. A.; Naugle, D. E.; O'Leary, D.; Olsoy, P. J.; Peirce, E. S.; Reinhardt, J. R.; Shriver, R. K.; Smith, J. T.; Tack, J. D.; Tanner, A. M.; Tanner, E. P.; Twidwell, D.; Webb, N. P.; Morford, S. L.

10.1101/2025.03.13.643073 — ecology — Posted on 2025-06-30

130 F2,6BP restores mitochondrial genome integrity in Huntingtons Disease

Chakraborty, A.; Mandal, S. M.; Mankevich, M.; Mani, R. S.; Shahabi, S.; Biswas, T.; Kodavati, M.; Sreenivasmurthy, S. G.; Tapryal, N.; Krishnan, B.; Hegde, M.; Weinfeld, M.; Ghosh, G.; Hazra, T.

10.1101/2024.11.04.621834 — neuroscience — Posted on 2025-06-30

131 Relaxation of cardiac pericytes by GLP-1 activating KATP channels mediates remote ischaemic preconditioning cardioprotection

Mastitskaya, S.; Freitas, F.; Evans, L. E.; Attwell, D.

10.1101/2025.06.26.661857 — physiology — Posted on 2025-06-30

132 Cell type-specific functions of nucleic acid-binding proteins revealed by deep learning on co-expression networks

Osato, N.; Sato, K.

10.1101/2025.03.03.641203 — bioinformatics — Posted on 2025-06-30

133 Spectraplakin cooperates with noncentrosomal microtubule regulators to orient dendritic microtubules in Drosophila

Davies, M.; Sanal, N.; Wolterhoff, N.; Gigengack, U.; Shen, Y.; Hahn, I.; Rumpf, S.

10.1101/2025.06.27.661943 — developmental biology — Posted on 2025-06-30

134 M18BP1 valency and a distributed interaction footprint determine epigenetic centromere specification in humans

Walstein, K.; Hill, L.; Vogt, D.; Vetter, I. R.; Pan, D.; Musacchio, A.

10.1101/2025.06.27.661933 — cell biology — Posted on 2025-06-30

135 Quantum analysis of protein-ligand binding by integrating structural resolution, sequence homology, and ligand properties

Roosan, D.; Samrose, S.; Khan, R.; Nirzhor, S.; Provencher, B.

10.1101/2025.06.27.661905 — molecular biology — Posted on 2025-06-30

136 Model substrate particles uncover dynamics of microbial communities associated with particulate organic matter decomposition in soil

Simon, E.; Alteio, L. V.; Konig, A.; Imai, B.; Horak, J.; Wiesenbauer, J.; Seneca Cardoso da Silva, J.; Hausmann, B.; Mussmann, M.; Kitzler, B.; Kaiser, C.

10.1101/2025.06.27.661937 — microbiology — Posted on 2025-06-30

137 Let-them-stick: Increasing biofilm formation by the acetogen Sporomusa ovata through adaptive laboratory evolution

Gron, L. V.; Munoz-Duarte, L.; Marshall, I. P. G.; Johnsen, N. K.; Eser, B. E.; Wegener Kofoed, M. V.; Koren, K.; Philips, J.

10.1101/2025.06.26.661873 — microbiology — Posted on 2025-06-30

138 Power Pixels: a turnkey pipeline for processing of Neuropixel recordings

Meijer, G. T.; Battaglia, F. P.

10.1101/2025.06.27.661890 — neuroscience — Posted on 2025-06-30

139 Longitudinal Imaging of Experimental Intracerebral Hemorrhage Pathology with Iodine-enhanced Micro-CT

Zhang, T.; Xia, F.; Fang, M.; Teng, B. T.; Wang, J.; Wang, Z.; Xia, W.; Wen, D.; Tao, C.; Ma, L.; Hu, X.

10.1101/2025.06.26.661863 — neuroscience — Posted on 2025-06-30

140 Differences in external loads of different pitch types in Chinese male college baseball players

Qin, S.; Ren, D.; Li, Z.; Zhang, B.

10.1101/2025.06.26.661877 — scientific communication and education — Posted on 2025-06-30

141 Population Pharmacokinetics and Probability of Target Attainment Analysis of Vancomycin Following Intermittent and Continuous Infusion in Adults with Cystic Fibrosis

Jain, M.; Hudson, R.; Bhakta, Z. N.; Young, D. C.; Yellepeddi, V.

10.1101/2025.06.26.661675 — pharmacology and toxicology — Posted on 2025-06-30

142 Efficient Recombinant Production and Functional Characterisation of Cytotoxic and Haemotoxic Snake Venom Metalloproteinases

Hall, S.; Cardoso, I. A.; Wilkinson, M. C.; Carretero, M. M.; Lingappa, S.; Rand, B.; Shen, D.; Boldrini-Franca, J.; Stenner, R.; Balchin, G.; Hus, K. K.; Vincentelli, R.; Mumford, A.; Casewell, N. R.; Berger, I.; Schaffitzel, C.

10.1101/2025.06.27.661748 — pharmacology and toxicology — Posted on 2025-06-30

143 Pan-cancer prediction of tumor immune activation and response to immune checkpoint blockade from tumor transcriptomics and histopathology

10.1101/2025.06.27.661875 — cancer biology — Posted on 2025-06-30

144 Structure and iron-transporting mechanism of brain organic cation transporter 1

Chen, L.; Liu, X.; Fan, H.; Chen, J.; Zhang, S.; Wei, W.; Teng, L.; Tao, L.; Gao, K.; Li, B.; Edwards, A.

10.1101/2025.06.28.662014 — biophysics — Posted on 2025-06-30

145 Mechanisms of Ion Permeation in the AMPA Receptor Ion Channel

Montano Romero, A.; Yovanno, R. A.; Lau, A. Y.; Twomey, E. C.

10.1101/2025.06.27.662003 — biophysics — Posted on 2025-06-30

146 Controllable Protein Design by Prefix-Tuning Protein Language Models

Luo, J.; Liu, X.; Li, J.; Zhang, Y.; Chen, Q.; Chen, J.

10.1101/2023.12.03.569747 — bioinformatics — Posted on 2025-06-30

147 Genomic Touchstone: Benchmarking Genomic Language Models in the Context of the Central Dogma

Wang, Y.; Cai, Z.; Zeng, Q.; Gao, Y.; Ouyang, J.; Xu, Y.; Yang, S.; He, S.; Nie, Y.; Cai, Y.; Zhou, F.; Jin, C.; Wang, X.; Xie, Z.; Zhu, D.; Xie, T.; Cheng, K.-T.; Yang, C.; Fu, X.; Wang, J.; Zhang, K.; Yao, J.; Rabadan, R.; Chen, H.

10.1101/2025.06.25.661622 — bioinformatics — Posted on 2025-06-30

148 Recapitulating physiologically relevant oxygen levels and extracellular matrix remodeling in patient-derived tumor-immune tunable models reveal targeting opportunities for immunologically cold high-grade serous tumors

Plesselova, S.; Axemaker, H.; Calar, K.; Isaiah, O.; Wollmann, J.; Bhattacharya, S.; Gnimpieba, E.; Fink, D. M.; Wang, C.; Bell, M.; de la Puente, P.

10.1101/2025.06.23.661098 — bioengineering — Posted on 2025-06-30

149 Light-orchestrated multi-step solid-phase picodroplet reactors

Wu, M.; Zaman, M. A.; Jensen, M. A.; Padhy, P.; Ren, W.; Davis, R. W.; Hesselink, L.

10.1101/2025.06.23.660884 — bioengineering — Posted on 2025-06-30

150 Sp8 and Sp6 regulatory functions in the limb bud ectoderm

Castilla-Ibeas, A.; Moreu-Sobera, S.; Perez-Gomez, R.; Galan, L.; Campa, V.; Lopez-Gimenez, J. F.; Rada-Iglesias, A.; Ros, M. A.

10.1101/2020.02.26.965178 — developmental biology — Posted on 2025-06-30

151 ISME - Incoherent Sampling of Multi-Echo data to minimize cardiac-induced noise in brain maps of R2* and magnetic susceptibility

Raynaud, Q.; Oliveira, R.; Corbin, N.; Balbastre, Y.; van Heeswijk, R. B.; Lutti, A.

10.1101/2025.02.05.636576 — neuroscience — Posted on 2025-06-30

152 Luminal Vascular Dysfunction Drives Rapid Blood Brain Barrier Injury in Hyperglycemic Stroke: Key Roles for Luminal Glycocalyx and Complement

Chen, H.; Frank, J. A.; Tan, C.; Lee, A. G.; Kopchock, R.; Chiang, T.; Kim, A.; Galvan, M.; Fraser, J. F.; Dornbos, D.; Aboul-Nour, H.; Millson, N.; Tomlinson, S.; McCullough, L. D.; Pennypacker, K.; Cheng, M. Y.; Bliss, T.; Steinberg, G. K.

10.1101/2025.06.26.661858 — neuroscience — Posted on 2025-06-30

153 Sephin1 alleviates white matter injury by protecting oligodendrocyte after intracerebral hemorrhage

Liu, F.; Ma, Q.; Li, X.; Li, Z.-Q.; Wang, P.; Yang, W.-S.; Shen, Y.-Q.; Li, P.; Pu, M.-J.; Xiao, Z.-S.; Xie, P.; Li, Q.

10.1101/2025.06.26.661862 — neuroscience — Posted on 2025-06-30

154 One-Pot Isothermal Linear Amplification and Cas12a-based Nucleic Acid Detection

Sinan, S.; Kooistra, R.; Rajaraman, K.; Islam, Z.; Madan, D.; Nalefski, E.; Finkelstein, I. J.

10.1101/2025.06.27.661965 — biochemistry — Posted on 2025-06-29

155 The human transcription factor occupancy landscape viewed using high-resolution in situ base-conversion strand-specific single-molecule chromatin accessibility mapping

Marinov, G. K.; Doughty, B. R.; Schaepe, J. M.; Wang, T.; Smith, M. M.; Chen, M.; Kundaje, A.; Sun, Z.; Greenleaf, W.

10.1101/2025.06.27.662080 — genomics — Posted on 2025-06-29

156 Barriers Broken: Genetic Swamping in Restored Brook Trout Populations

Smith, R.; Fitzpatrick, B.; Kulp, M.

10.1101/2025.06.25.661651 — evolutionary biology — Posted on 2025-06-29

157 Ecosystems as adaptive living circuits

Dhanuka, A.; Flamholz, A. I.; Murugan, A.; Goyal, A.

10.1101/2025.06.27.661910 — ecology — Posted on 2025-06-29

158 Interaction of Wnt and SHH gradients synchronizes cell cycle 1 exit and differentiation

Li, R.; Jiang, Y.; Platt, S.; Peterson, K. A.; Lam, H.; Van, S.; Lim, C. H.; Levinsohn, J.; Barber, E.-L.; Wang, D.; Taketo, M. M.; Kluger, Y.; Myung, P. S.

10.1101/2025.06.29.660399 — developmental biology — Posted on 2025-06-29

159 Precision culturomics enabled by unlabeled single-cell morphology and Raman spectra

Liang, Q.; Lan, X.; Wu, J.; Wei, W.; Li, L.; Tang, X.; Zhao, G.; Guo, R.; Jia, H.

10.1101/2025.06.27.661433 — microbiology — Posted on 2025-06-29

160 Targeting the translation machinery: The RNase Y specificity factor Y-complex coordinates ribosome degradation

Cornejo, F. A.; Driller, K.; Ahmed-Begrich, R.; Schmidt, K.; Jahn, M.; Shanmuganathan, V.; Hahnke, K.; Kondrot, F.; Wulff, T. F.; Rämisch, S.; Alagesan, K.; Charpentier, E.; Turgay, K.

10.1101/2025.06.27.661978 — microbiology — Posted on 2025-06-29

161 Mechanistic insights into the allosteric regulation of cell wall hydrolase RipA in Mycobacterium tuberculosis.

Carloni, G.; Gaday, Q.; Petit, J.; Martinez, M.; Megrian, D.; Sogues, A.; Ben Assaya, M.; Kakonyi, M.; Haouz, A.; Alzari, P. M.; Wehenkel, A. M.

10.1101/2025.06.28.662095 — microbiology — Posted on 2025-06-29

162 Seasonal dynamics of nitrification in the water column of marine Lake Grevelingen

Dotsios, N.; Venetz, J.; Zygadlowska, O. M.; Lenstra, W. K.; van Helmond, N. A. G. M.; Wallenius, A. J.; Klomp, R.; Slomp, C. P.; Jetten, M. S. M.; van Kessel, M. A. H. J.; Lucker, S.

10.1101/2025.06.29.662106 — microbiology — Posted on 2025-06-29

163 Regulation of multiple paralogs of a small subunit ribosomal protein in Francisella tularensis

Schmidt, S. S.; Farah, A. R.; Macaraeg, A.; Floyd, D.; Trautmann, H. S.; Ramsey, K. M.

10.1101/2025.06.29.662229 — microbiology — Posted on 2025-06-29

164 Switches in Orientation Coding by Mouse Primary Visual Cortex Neurons Depend on Stimulus Predictability.

van Daatselaar, J.; Sikkens, T.; Müller, M. A.; Pennartz, C. M. A.; Olcese, U. A.; Vittini, C. A. B.

10.1101/2025.06.29.662227 — neuroscience — Posted on 2025-06-29

165 Constant-pH simulation of the human β2 adrenergic receptor inactivation

Ballabio, F.; Capelli, R.

10.1101/2025.06.26.661669 — biophysics — Posted on 2025-06-29

166 The mechanism of oncogenic PI3K lipid kinase variants at the membrane and their cryptic pockets

Jang, H.; yavuz, b. R.; Zhang, M.; Liu, Y.; Nussinov, R.

10.1101/2025.06.26.661751 — biophysics — Posted on 2025-06-29

167 MetaNet: a scalable and integrated tool for reproducible omics network analysis

Peng, C.; Huang, Z.; Wei, X.; Jiang, L.; Zhu, X.; Liu, Z.; Chen, Q.; Shen, X.; Gao, P.; Jiang, C.

10.1101/2025.06.26.661636 — bioinformatics — Posted on 2025-06-29

168 Haplomatic: A Deep-Learning Tool for Adaptively Scaling Resolution in Genetic Mapping Studies

Douglas, T.; Tarvin, R.; Long, A. D.

10.1101/2025.06.25.661582 — bioinformatics — Posted on 2025-06-29

169 Strategies to improve the efficiency of homing gene drives with multiplexed gRNAs

Chen, W.; Wu, P.; Champer, J.

10.1101/2025.06.28.662113 — genetics — Posted on 2025-06-29

170 Differences between human and rodent nitric oxide production dictate susceptibility to tick-borne Rickettsia.

Luu, A. P.; Guzman, A. A.; Bouin, A.; Drayman, N.; Burke, T. P.

10.1101/2025.06.27.661835 — microbiology — Posted on 2025-06-29

171 Mesophilic compostability of polylactic acid and the associated microbiome as revealed by metagenomics

Hsueh, S. W.; Kurniadi, A. C.; Amelia, T. S. M.; Lee, C.-F.; Fugmann, S. D.; Yang, S. Y.

10.1101/2025.06.29.662191 — microbiology — Posted on 2025-06-29

172 Internal DNA standards for Isopycnic Centrifugation of Environmental DNA in Quantitative Stable Isotope Probing

Schwartz, E.; Hayer, M.; Mau, R.; Hungate, B. A.; Blazewicz, S. J.; Allen, M.; Morrissey, E. M.; Tripathi, B.; Pett-Ridge, J.

10.1101/2025.06.27.661829 — microbiology — Posted on 2025-06-29

173 Polygenetic Determinants of Azole Resistance, Tolerance, and Heteroresistance in Candida albicans

Schutz, K.; Gautier, C.; Maufrais, C.; Sertour, N.; Bougnoux, M.-E.; D'Enfert, C.; Evans, L. M.; Smith, S. D.; Ene, I. V.

10.1101/2025.06.29.662174 — microbiology — Posted on 2025-06-29

174 Intrinsic mechanisms contributing to the biophysical signature of mouse gamma motoneurons

Sharples, S. A.; Nisbet, S. J.; Broadhead, M. J.; Jensen, D. B.; Sorrell, F. L.; Meehan, C. F.; Miles, G. B.

10.1101/2025.06.29.661254 — neuroscience — Posted on 2025-06-29

175 CRISPR/Cas9 editing of the wheat iron sensor TaHRZ1 confirms its conserved role in iron homeostasis and allocation in grains

Tyagi, D.; Banoo, H.; Meena, V.; Joon, R.; Agrwal, K.; Kumar, A.; Satbhai, S. B.; Long, T.; Pandey, A. K.

10.1101/2025.06.29.662202 — plant biology — Posted on 2025-06-29

176 Modulating Brain Perfusion, Functional Connectivity, and Metabolite Patterns through Theta Burst Transcranial Focused Ultrasound Stimulation

Keeser, D.; Roell, L.; Meedt, V.; Hasslberger, M.; Korman, M.; Schulz, E.; Lueckel, M.; Karsli, B.; Hasanaj, G.; Faessler, T.; Vural, G.; Chang, K.-Y.; Bulubas, L.; Padberg, F.; Raabe, F.; Falkai, P.; Bergmann, T. O.; Rauchmann, B. S.

10.1101/2025.06.25.661571 — physiology — Posted on 2025-06-29

177 RIPOR2 promotes multinucleation of melanoma cells downstream of the RAS/ERK oncogenic pathway

Wilmerding, A.; Richard, A.; Macagno, N.; Hirsinger, E.; Gharsalli, T.; Bellenger, L.; Naouar, N.; Gaudy, C.; Mallet, S.; Degardin, N.; Bouteille, L.; Caruso, N.; DUPREZ, D.; Graba, Y.; Medjkane, S.; Etchevers, H. C.; DELFINI, M.-C.

10.1101/2025.06.26.661696 — cancer biology — Posted on 2025-06-29

178 Riboflavin drives nucleotide biosynthesis and iron-sulfur metabolism to promote acute myeloid leukemia

Bjelosevic, S.; Fauth, R.; Do, B. T.; Alexe, G.; Merickel, L. A.; Jackson, T. D.; Basanthakumar, A. T.; Taillon, A.; Salhotra, S.; Ryback, B.; Schneider, C.; DiGiovanni, G.; Elbashir, R.; Burger, N.; Bin Munim, M.; Lin, S.; Puigserver, P.; Root, D. E.; Vander Heiden, M. G.; Stegmaier, K.

10.1101/2025.06.26.661633 — cancer biology — Posted on 2025-06-29

179 DiPPER2 - a user-friendly pipeline for picking and evaluating taxon-specific PCR primers

Wacker, T.; Studholme, D. J.

10.1101/2025.06.26.661695 — bioinformatics — Posted on 2025-06-29

180 OocystMeter, a machine-learning algorithm to count and measure Plasmodium oocysts, reveals clustering patterns in the Anopheles midgut

Peng, D.; Marrogi, E.; Nelson, E.; Liu, Q.; Rinvee, T. A.; de Vries, L. E.; Thornburg, K.; Singh, N.; Shaw, W. R.; Catteruccia, F.

10.1101/2025.06.28.662088 — bioinformatics — Posted on 2025-06-29

181 Design and Optimization of Multifunctional Peptide Candidates for Cosmeceutical Applications: Combining Anti-Inflammatory and Collagen-Boosting Properties

Natarajan, A.; Javvadi, A.; Kolli, S.

10.1101/2025.06.26.661667 — bioinformatics — Posted on 2025-06-29

182 Bioconvergence of sound-guided and supramolecular assembly strategies to create peptide-protein composite hydrogels with predictable shape-to-function features

Ligorio, C.; Cianciosi, A. R.; Tognato, R.; Natta, M.; Parolini, R.; Ardicli, S.; Babayev, H.; Sapjanskaite, I.; Kilgour, S.; Homer, R.; Zhou, Z.; Malandrino, A.; Priglinger, E.; Akdis, C.; Stoddart, M. J.; Mata, A.; Serra, T.

10.1101/2025.06.26.661668 — bioengineering — Posted on 2025-06-29

183 Inhibition of Chikungunya virus nsP2 protease in vitro by pantinin-1 isolated from scorpion venom

Mastalipour, M.; Coronado, M. A.; Gonzalez, J. E. H.; Willbold, D.; Eberle, R. J.

10.1101/2025.06.29.662183 — biochemistry — Posted on 2025-06-29

184 Learning and Increased Effort Affect Lipid Gene Expression in the Mushroom Bodies of Bombus terrestris; A Possible Model for Flower Handling?

Carvalho Couto, K.; F. da Silva, R.; A. M. Erlingsson, L.; Sovik, E.; Gjerstad, J.

10.1101/2025.06.25.661662 — ecology — Posted on 2025-06-29

185 Metabolic overflow prevents ecological collapse in microbial populations

Arias, C. F.; Acosta, F. J.; Bertocchini, F.; Fernandez-Arias, C.

10.1101/2025.06.26.661698 — ecology — Posted on 2025-06-29

186 Seasonal dynamics of mixotrophic phytoplankton in a freshwater habitat revealed by single-cell sorting

Li, Q.; Wang, Y.

10.1101/2025.06.29.662170 — microbiology — Posted on 2025-06-29

187 Evolutionary repurposing of a DNA segregation machinery into a cytoskeletal system controlling cyanobacterial cell shape

Springstein, B. L.; Javoor, M. G.; Megrian, D.; Hajdu, R.; Hanke, D. M.; Loose, M.; Schur, F. K.

10.1101/2025.06.27.661541 — microbiology — Posted on 2025-06-29

188 AI-Based Detection of Coliform Colonies Using CNN Transfer Learning for Application to Cultured Plate Analysis in Water Quality Research

Mallela, S.; Gates, A.; Bhattacharya, S.; Okeke, B.; Kursun, O.

10.1101/2025.06.29.662231 — microbiology — Posted on 2025-06-29

189 The role of the L421P mutation in Penicillin-Binding Protein 1 (PBP1) in the evolution of chromosomally mediated penicillin resistance in Neisseria gonorrhoeae

Gentile, G.; Guzman, B. B.; Le Van, A.; Jerse, A. E.; Grad, Y. H.; Dominguez, D.; Mortimer, T. D.; Nicholas, R. A.

10.1101/2025.06.27.662027 — microbiology — Posted on 2025-06-29

190 Peering Inside the Black Box: Explainable AI to Interpret Advanced Computer Vision Fungal Pathogen Prediction

Guthrie, J. D.; Shankarnarayan, S. A.; Charlebois, D. A.

10.1101/2025.06.27.662051 — microbiology — Posted on 2025-06-29

191 Characterisation of a temperate phage induced from Alicyclobacillus acidoterrestris DSM 3922T: the Alicyclobacillus phage MMB025

Leonardo, I. C.; Ferreira, H.; Quendera, A. P.; Crespo, M. T. B.; Sao-Jose, C.; GASPAR, F. B.

10.1101/2025.06.28.662109 — microbiology — Posted on 2025-06-29

192 Dynamic Bacterial Growth Modulation in Structurally Distinct and Functionally Tuneable Agarose Hydrogels

Dsouza, A.; Taylor, D.; Parmenter, C.; Hand, R. A.; Brettschneider, J.; Unnikrishnan, M.; Constantinidou, C.; Charmet, J.

10.1101/2025.06.28.662093 — microbiology — Posted on 2025-06-29

193 Bacterial Ribonucleoprotein bodies maintain an acidic pH environment as a mechanism of enzyme regulation

Schnorr, W. E.; Sasazawa, M.; Dzurik, K. G.; Cho, R.; Millheim, S. L.; Millstone, J. E.; Saurabh, S.; Childers, W. S.

10.1101/2025.06.27.661991 — microbiology — Posted on 2025-06-29

194 The VapBC Toxin Antitoxin System Enhances Shigella flexneri Fitness Through Coordination of Metabolic Stress Adaptation and Virulence

Saifi, E.; Ageron, E.; egger, K.; Reisacher, C.; Frapy, E.; lamberioux, M.; Payne, S. M.; Enninga, J.; Arbibe, L.

10.1101/2025.06.29.662172 — microbiology — Posted on 2025-06-29

195 Characterization of ORF19.7608 (PPP1), a Biofilm-induced Gene of Candida albicans

Iwuchukwu, N. C.; Costa, A. C. B. P.; Law, C.; Kim, M.-J.; Mitchell, A. P.; Whiteway, M.

10.1101/2025.06.28.660404 — microbiology — Posted on 2025-06-29

196 Spatial Reorganization of Object Representations in High-Level Visual Cortex Distinguishes Working Memory from Perception

Li, W.; Yang, J.; Bao, P.

10.1101/2025.06.29.662186 — neuroscience — Posted on 2025-06-29

197 IP3-mediated Ca2+ transfer from ER to mitochondria stimulates ATP synthesis in primary hippocampal neurons

Dhoundiyal, A.; Goeschl, V.; Kubista, H.; Boehm, S.; Hotka, M.

10.1101/2025.06.28.661766 — neuroscience — Posted on 2025-06-29

198 Early postnatal CA3 hyperexcitability drives hippocampal development and epileptogenesis in SCN2A developmental and epileptic encephalopathy

Reva, Y.; Ulrich, K.; Xin, X.; Liu, Y.; Barboni, M.; Kirianov, D.; Mojtahedi, N.; Schoeb, S.; Oelssner, H.; Savitska, D.; Samehni, M.; Xompero, F.; Schulze, E.; Beck, H.; Morellini, F.; Engeland, B.; Stockebrand, M.; Marguet, S. L.; Khodosevich, K.; Garaschuk, O.; Kelly, T.; Fazeli, W.; Lerche, H.; Isbrandt, D.

10.1101/2025.06.29.661458 — neuroscience — Posted on 2025-06-29

199 Interleaved Replay of Novel and Familiar Memory Traces During Slow-Wave Sleep Prevents Catastrophic Forgetting

Golden, R.; Saxena, R.; Gonzalez, O. C.; Delanois, J. E.; Kilianski, S.; McNaughton, B. L.; Bazhenov, M.

10.1101/2025.06.25.661579 — neuroscience — Posted on 2025-06-29

200 Altered Brain Energy Metabolism in the APPPS1 Alzheimer's Model during anesthesia: Integration of Experimental Data and In Silico Modeling

Schunack, J.; Riepe, G.; Heppner, F. L.; Textoris-Taube, K.; Wallach, I.; Mülleder, M.; Liotta, A.; Jendrach, M.; Berndt, N.

10.1101/2025.06.26.661690 — neuroscience — Posted on 2025-06-29

201 Non-equilibrium Thermodynamics Modulate TRPV1 Channel Activation via Tissue Entropy Production

Lyoubi-Idrissi, A.

10.1101/2025.06.26.661663 — neuroscience — Posted on 2025-06-29

202 Forgetting in Drosophila consists of an increase in uncertainty rather than a stochastic loss of memory

Horiuchi, J.; Uemura, N.; Horiuchi, S.; Saitoe, M.

10.1101/2025.06.26.661725 — neuroscience — Posted on 2025-06-29

203 TRPML3 regulates neuronal gene expression in an in vitro model of autophagy and may act as a genetic marker of familial neurodegenerative disorders

Adusumilli, S.; Mathe, M. M.; Shandilya, J.; Nayak, T. K.

10.1101/2025.06.28.662125 — neuroscience — Posted on 2025-06-29

204 The microcephaly protein Abnormal Spindle has an essential role in symmetrically dividing neural precursors to promote brain growth and development

Chakraborty, S.; Govaerts, J.; Hawke, A.; Werbelow, M.; Schoborg, T.

10.1101/2025.06.27.662046 — developmental biology — Posted on 2025-06-29

205 Modeling Post-Gastrula Development via Bidirectional Pluripotent Stem Cells

liu, k.; Yan, Z.; Bai, D.; Jiang, R.; Bi, Y.; Ma, X.; Xiang, J.; Sheng, Y.; Dong, B.; Ning, Z.; Yi, S.; Liu, Y.; Lei, X.; Jia, Y.; Zhang, Y.; Zhang, Y.; Li, Y.; Xi, C.; Liu, S.; Liu, S.; Chen, J.; Yin, J.; Kou, X.; Zhao, Y.; Wang, H.; Wang, Y.; Wei, K.; Liu, W.; Gao, S.

10.1101/2025.06.28.662107 — developmental biology — Posted on 2025-06-29

206 The Vomeronasal System of Talpa occidentalis: A Combined Histological, Immunohistochemical, and Lectin-Binding Approach

Hernando, G. G.; Antonio, A. M.; Elsayed, M. G. A.; Castineira, A. V.; Sanchez-Quinteiro, P.; Leal, I. O.

10.1101/2025.06.26.661819 — neuroscience — Posted on 2025-06-29

207 Identification of Small Molecule Dimethyoxyphenyl Piperazine Inhibitors of Alpha-Synuclein Fibril Growth

Hwang, H.; Dhavale, D. D.; Wang, S. J.; Beale, J. M.; Cairns, N. J.; Kotzbauer, P. T.

10.1101/2025.06.26.661821 — neuroscience — Posted on 2025-06-29

208 Identifying out-of-voxel echoes in edited MRS with phase cycle inversion

Shams, Z.; Gad, A.; Gudmundson, A. T.; Murali-Manohar, S.; Davies-Jenkins, C. W.; Simegn, G. L.; Simicic, D.; Song, Y.; Yedavalli, V.; Zöllner, H. J.; Oeltzschner, G.; Edden, R. A. E.

10.1101/2025.06.26.661810 — neuroscience — Posted on 2025-06-29

209 Stretching of the insect mechanoreceptor evokes mechano-electrical transduction in auditory chordotonal neurons

Chaiyasitdhi, A.; Nowotny, M.; van der Heijden, M.; Warren, B.

10.1101/2025.06.27.662008 — neuroscience — Posted on 2025-06-29

210 Triceps Surae Muscle Ia Proprioceptive Weighting During Quiet Stance with Vision Occlusion

Chalmers, G.

10.1101/2025.06.25.661661 — neuroscience — Posted on 2025-06-29

211 Prior knowledge influences the neural mechanisms supporting memory-based inference

Liu, Z.; Bramao, I.; Johansson, M.

10.1101/2025.06.29.662181 — neuroscience — Posted on 2025-06-29

212 Heterogeneity and variability in short term synaptic plasticity and implications for signal transformation

Mohan, S.; Bhalla, U. S.

10.1101/2025.06.28.662098 — neuroscience — Posted on 2025-06-29

213 Inhibition of nonsense-mediated decay in TDP-43 deficient neurons reveals novel cryptic exons

Sinha, I. S.; Ye, Y.; Li, Y.; Sandal, P. S.; Wong, P. C.; Sun, S.; Ling, J. P.

10.1101/2025.06.28.661837 — neuroscience — Posted on 2025-06-29

214 SORLA upregulation suppresses global pathological effects in aged tauopathy mouse brain

Huang, H.; Shi, C. H.; Yang, W.; Crespo, J. P.; Bhatnagar, J.; Curatolo, J.; Murad, R.; Shah, P.; Campos, A.; Houser, A.; Porritt, R. A.; Zhang, T.; Xiao, Q.; Feng, S.; Yip, K. Y.; Huang, T. Y.

10.1101/2025.06.25.661599 — neuroscience — Posted on 2025-06-29

215 A systematic protocol to identify 'clinical controls' for pediatric neuroimaging research from clinically acquired brain MRIs

Zimmerman, D.; Mandal, A. S.; Jung, B.; Buczek, M. J.; Schabdach, J. M.; Karandikas, S.; Kafader, E.; Mercedes, L.; Kohler, S.; Abdel-Qader, L.; Gur, R. E.; Roalf, D.; Satterthwaite, T. D.; Schmitt, J. E.; Williams, R.; Padmanabhan, V.; Seidlitz, J.; White, L. K.; Sotardi, S.; Vossough, A.; Alexander-Bloch, A.

10.1101/2025.06.25.661530 — neuroscience — Posted on 2025-06-29

216 Dietary restriction promotes neuronal resilience via ADIOL

Guijarro-Hernandez, A.; Yoo, S.; Lemieux, G. A.; Komatsu, S.; Jiang, W. I.; Latiff, A. Q.; Patil, R. R.; Ma, D. K.; Ashrafi, K.

10.1101/2025.06.25.661551 — neuroscience — Posted on 2025-06-29

217 The effects of gait speed on the responses to immediate and prolonged exposure to mediolateral optic flow perturbation in healthy young adults

Wu, C.; Buurke, T. J. W.; den Otter, R.; Lamoth, C. J. C.; Veldman, M. P.

10.1101/2025.06.26.661718 — neuroscience — Posted on 2025-06-29

218 Cortical dissociation of spatial reference frames during place navigation

LaChance, P. A.; Gross, E. R.; Sankaranarayanan, S.; Hasselmo, M. E.

10.1101/2025.06.25.661569 — neuroscience — Posted on 2025-06-29

219 Motor Learning Outside the Body: Broad Skill Generalisation with an Extra Robotic Limb

Molina-Sanchez, M.; Dowdall, L.; Dominijanni, G.; Pavalkyte, V.; Gallay, C.; da Silva, E.; Clode, D.; Makin, T. R.

10.1101/2025.06.27.661550 — neuroscience — Posted on 2025-06-29

220 Long-Term Effects of Adolescent 5F-MDMB-PICA Intravenous self-administration: Neurobehavioral Consequences and medial Prefrontal Cortex Dysfunction in Adult Mice

Caria, F.; Libster, A.; Desfor, S.; Telese, F.; Di Chiara, G.; De Luca, M. A.

10.1101/2025.06.26.661592 — neuroscience — Posted on 2025-06-29

221 Simultaneous recording of spikes and calcium signals in odor-evoked responses of Drosophila antennal neurons

Xiao, Y.; Wu, S.-T.; Xuan, Y.; Rifkin, S.; Su, C.-Y.

10.1101/2025.06.27.662059 — neuroscience — Posted on 2025-06-29

222 Photothrombotic Ischemic Thalamic Stroke in Mice Recapitulates Spontaneous Pain Features of Central Post-Stroke Pain in Humans

Ford, J. B.; Tambou, O. N.; Weinrich, J. A.; Chatterjee, D.; Basbaum, A.; Paz, J. T.

10.1101/2025.06.26.661797 — neuroscience — Posted on 2025-06-29

223 Rod photoreceptors control the ON vs OFF polarity of cone-signaling neurons

Langrill Beaudoin, D.; Hassan, A. R.; Shehu, A.; Bohl, J. M.; Umino, Y.; Solessio, E. C.; Hellmer, C. B.; Ichinose, T.

10.1101/2025.06.26.661749 — neuroscience — Posted on 2025-06-29

224 REACTIVATION PROTECTS HUMAN MOTOR MEMORIES AGAINST INTERFERENCE FROM COMPETING INPUTS

Suresh, T.; Kumar, A.; Mutha, P. K.

10.1101/2025.06.26.661747 — neuroscience — Posted on 2025-06-29

225 A single binge ethanol exposure is apoptotic within hours across neurodevelopment and partially regulated by the Myt1l gene.

Fuhler, N.; Palmer, C.; Tunzi, G.; Tian, L.; Fotedar, M.; Chase, R.; Prakasam, R.; Maloney, S. E.; Neblock, C. E.; Chen, J.; Kroll, K. L.; Dougherty, J. D.; Noguchi, K.

10.1101/2025.06.27.662020 — neuroscience — Posted on 2025-06-29

226 16p11.2 duplication shows early male-biased impacts on reward learning, but NMDA receptor antagonism reduces optimal choice selection in both wildtypes and 16p11.2 duplication

Mueller, D.; Knep, E.; Velosa, A.; Giglio, E.; Chen, C. S.; Heilbronner, S. R.; Ebitz, R. B.; Rothwell, P. E.; Grissom, N. M.

10.1101/2025.06.28.662127 — animal behavior and cognition — Posted on 2025-06-29

227 Socio-acoustic co-selection? Vocal encoding of sociability prevails over emotions in sheep bleats

Villain, A. S.; Boissy, A.; Bonnafe, G.; Durand, C. S.; Douls, S.; Renaud-Goud, P.; Mialon, M.-M.; Hazard, D.; Briefer, E. F.

10.1101/2025.06.28.662115 — animal behavior and cognition — Posted on 2025-06-29

228 Precision Neuromodulation with Real-Time Brain Decoding for Working Memory Enhancement

Khan, A.; Li, H. D.; Blaine, C.; Grier, J.; Hammet, E.; Figueroa, A.; Garcia, S.; Duprat, R.; Deluisi, J.; Reber, J.; Davatzikos, C.; Satterthwaite, T. D.; Oathes, D. J.

10.1101/2025.06.27.662056 — neuroscience — Posted on 2025-06-29

229 Mycobacterium tuberculosis sulfolipid-1 (Sl-1) increases the excitability of mouse and human TRPV1-positive sensory neurons in a YM254890-reversible fashion

Naik, D. K.; Espinosa, F.; Okolie, I. M.; Naqvi, K. F.; Nguyen, G.; Ruhl, C. R.; Kroener, S.; Dussor, G.; Shiloh, M. U.; Price, T. J.

10.1101/2025.06.28.662105 — neuroscience — Posted on 2025-06-29

230 Large sharp-wave ripples promote hippocampo-cortical memory reactivation and consolidation

Robinson, H. L.; Todorova, R.; Nagy, G. A.; Gruzdeva, A.; Paudel, P.; Oliva, A.; Fernandez-Ruiz, A.

10.1101/2025.06.27.662061 — neuroscience — Posted on 2025-06-29

231 An active Unc13A is Reboundless in sleep homeostasis

Huang, S.; Escher, M.; Ramesh, N.; Toppe, D.; Zhao, Z.; Wu, Y.; Liu, S.; Walter, A. M.; Sigrist, S. J.; Piao, C.

10.1101/2025.06.26.661764 — neuroscience — Posted on 2025-06-29

232 scHDeepInsight: A Hierarchical Deep Learning Framework for Precise Immune Cell Annotation in Single-Cell RNA-seq Data

JIA, S.; Lysenko, A.; Boroevich, K. A.; Sharma, A.; Tsunoda, T.

10.1101/2025.06.23.661045 — bioinformatics — Posted on 2025-06-29

233 Reduction of cellular toxicity with hybrid nanoparticles for mRNA delivery

Riazanski, V.; Purvina, L.; Cavinato, L.; Sui, Z.; Sun, L.; Nelson, D. J.

10.1101/2025.03.11.642711 — cell biology — Posted on 2025-06-29

234 Governed by surface amino acid composition: HIV capsid passage through the NPC barrier

Fu, L.; Cheng, S.; Riedel, D.; Kopecny, L.; Schuh, M.; Görlich, D.

10.1101/2025.03.13.643050 — cell biology — Posted on 2025-06-29

235 Development of a wireless bioelectronic actuator for wound healing in a porcine model

Baniya, P.; Tebyani, M.; Hee, W. S.; Li, H.; Asefifeyzabadi, N.; Schorger, K.; Yang, H.-y.; Gallegos, A.; Zhu, K.; Lu, F.; Keller, G.; Franco, C.; Devarajan, K.; Barbee, A.; Hernandez, C.; Nguyen, T.; Recendez, C.; Aslankoohi, E.; Isseroff, R. R.; Zhao, M.; Gomez, M.; Rolandi, M.; Teodorescu, M.

10.1101/2024.12.18.629068 — bioengineering — Posted on 2025-06-29

236 The ubiquitin protease Ubp10 suppresses the formation of translocations at Cdc13 binding sites

Gonzalez, D. I.; Westerbeek, A. R.; Epum, E. A.; Friedman, K. L.

10.1101/2025.06.27.661970 — molecular biology — Posted on 2025-06-28

237 Epidermal γδ T cells, CD8 T cells and macrophages are increased in number in alopecia areata and express BST2 as part of an interferon-driven antiviral gene signature

Coast, J.; Gonzalez, A.; Velasquez, C.; Kansky, M.; Valdovinos-Hagan, Y.; Macedo, M.; Solano, A.; Kasler, A.; Jameson, J.

10.1101/2025.06.26.661822 — immunology — Posted on 2025-06-28

238 Intra-Tumoral Treg Ablation Unleashes NK Cell-Mediated Control of CD8 T Cell-Resistant Tumors

Zhang, C.; Chien, C.; Jurgaityte, E.; Bockman, A. K.; Sakiyama, K.; Jo, Y.; Lee, S. W.; Silveria, S.; Andrews, E.; Mende, A.; Zhang, L.; Garcia, K. C.; Wagner, A.; DuPage, M.; Raulet, D.

10.1101/2025.06.26.661417 — immunology — Posted on 2025-06-28

239 Recognizability affects the processing of facial sex information

Saringer, S.; Benyhe, A.; Kaposvari, P.

10.1101/2025.06.26.661449 — neuroscience — Posted on 2025-06-28

240 Concurrent maternal stress and THC exposure during pregnancy alters adolescent behavioral outcomes and corticolimbic molecular programs

Olusakin, J.; Dewan, M.; Kashyap, A.; Franco, D.; Kumar, G.; Lujan, M. A.; Mark, K.; Cheer, J. A.; Lobo, M. K.

10.1101/2025.06.26.661775 — neuroscience — Posted on 2025-06-28

241 A 3D framework for delimiting a polyploid complex in Rorippa (Brassicaceae): combining trait evolution, herbarium records, and machine learning

Han, T.-S.; Lv, J.-X.; Xing, Y.

10.1101/2025.06.26.661803 — systems biology — Posted on 2025-06-28

242 Tomato leaf transcriptomic changes promoted by long-term water scarcity stress can be largely prevented by a fungal-based biostimulant

Lopez-Serrano, L.; Ferez-Gomez, A.; Romero-Aranda, R.; Jaime Fernandez, E.; Leal Lopez, J.; Fernandez Baroja, E.; Almagro, G.; Dolezal, K.; Novak, O.; Diaz, L.; Bautista, R.; Leon Morcillo, R. J.; Pozueta Romero, J.

10.1101/2025.06.26.661737 — plant biology — Posted on 2025-06-28

243 Medial preoptic area FoxO1 controls metabolic adaptation in a sexually dimorphic manner

Luo, P.; Yang, X.; Xu, Q.; How, L. L.; Irizarry, V. T.; Carrillo-Saenz, L.; Munoz, M. D.; Dong, W.; Ibrahimi, L.; Schaul, S.; Patel, N.; Antony, N.; Dixit, D.; Kota, M.; Freeman, C.; Cruz, E.; Wang, C.; Pinna, G.; Jiang, Y.; Liew, C. W.; Shu, G.; Ye, H.; He, Y.; Unterman, T.; Xu, P.

10.1101/2025.06.25.661575 — physiology — Posted on 2025-06-28

244 Sources of Variation in Fecal Haptoglobin in a Population of Wild Capuchin Monkeys (Cebus imitator)

Hernandez-Rojas, R.; Hamou, H.; Navarro, R. L.; Jack, K. M.; Campos, F. A.; Melin, A. D.; Higham, J. P.

10.1101/2025.06.26.661772 — physiology — Posted on 2025-06-28

245 Shaping the Glycan Landscape: Hidden relationships between linkage and ring distortions induced by carbohydrate-active enzymes

Grothaus, I. L.; Spellerberg, P.; Rovira, C.; Colombi Ciacchi, L.

10.1101/2025.06.27.661892 — biophysics — Posted on 2025-06-28

246 Fundamental Limitations of Foundation Models in Single-Cell Transcriptomics

Atti, S.; Subramaniam, S.

10.1101/2025.06.26.661767 — bioinformatics — Posted on 2025-06-28

247 Multimodal Benchmarking of Foundation Model Representations for Cellular Perturbation Response Prediction

Hasanaj, E.; Cole, E.; Mohammadi, S.; Addagudi, S.; Zhang, X.; Song, L.; Xing, E. P.

10.1101/2025.06.26.661186 — bioinformatics — Posted on 2025-06-28

248 Molecular dynamics reveals a novel Regulatory Ca+2-Binding Site in the Mitochondrial Calcium Uniporter

Sommese, L. M.; Palopoli, N.; Fornasari, M. S.; Parisi, G.; Gabaldon, T.; Rueda, A. J. V.

10.1101/2025.06.25.661581 — bioinformatics — Posted on 2025-06-28

249 Rictor CRISPR Gene Editing by Lipid Nanoparticle Delivery Stimulates Anti-Tumor Immunity in Breast Cancer Liver Metastasis Model

Ali, Y.; Galbraith, T.; Abdelfattah, N. H.; Ziemys, A. H.; Faisal, M.; Wong, T.; Hashimoto, C.; Qian, X.; Cook, H.; Pandita, T.; Xu, Y.; Rosato, R.; Chen, S.-H.; Yun, K.; Leonard, F.

10.1101/2025.06.26.661471 — bioengineering — Posted on 2025-06-28

250 In vivo Calcium Imaging in the Near-Infrared II Window

XU, D.; Wu, Z.; Li, W. J.; Yue, X.; Wang, G.-L.; Xu, S.; Yu, H.; Liu, Y.; Dai, Z.; Yu, L.-J.; Dai, H.; Wang, F.

10.1101/2025.06.26.661443 — bioengineering — Posted on 2025-06-28

251 Excretory-secretory products of the fish-borne parasite Anisakis simplex L3 larvae possess allergens and unusual glycan modifications

Adduci, I.; Wang, X.; Paschinger, K.; Wilson, I. B. H.; Cheng, G.; Yan, S.

10.1101/2025.06.26.661700 — biochemistry — Posted on 2025-06-28

252 Influence of ULK1 activity on the memory of ATG101 auto-activation dynamics

Patel, A.; Schneider, S.; Nagy, G.; Dybkov, O.; Urlaub, H.; Grubmueller, H.; Faesen, A. C.

10.1101/2025.06.27.661946 — biochemistry — Posted on 2025-06-28

253 Mammal placental phenotypes are predictable from microRNA repertoires.

Fenn, J.; Edge, J. C.; Ovchinnikov, V.; Amelkina, O.; Sinclair, M.; De Bem, T. H. C.; Bridi, A.; Malo-Estepa, I.; Tinning, H.; Gonella-Diaza, A.; Perecin, F.; da Silveira, J. C.; Pugliesi, G.; Meirelles, F. V.; Butt, Z.; Fromm, B.; McInerney, J. O.; Forde, N.; O'Connell, M. J.

10.1101/2025.06.27.660101 — genomics — Posted on 2025-06-28

254 CactEcoDB: Trait, spatial, environmental, phylogenetic and diversification data for the cactus family

Thompson, J. B.; Martinez, C.; Avaria-Llautureo, J.; Ramirez-Barahona, S.; Manzanarez-Villasana, G.; Culham, A.; Gdaniec, A.; Venditti, C.; Keeling, G. M.; Priest, N. K.

10.1101/2025.06.27.661607 — evolutionary biology — Posted on 2025-06-28

255 Automated identification of individual birds by song enables multi-year recapture from passive acoustic monitoring data

Lapp, S.; Lyon, R. P.; Wilson, S. J.; Rhinehart, T. A.; Czarnecki, C.; Chronister, L.; Fiss, C.; Larkin, J.; Bayne, E.; Kitzes, J.

10.1101/2025.06.26.661638 — ecology — Posted on 2025-06-28

256 Shift from acquisitive to conservative plant strategies with increasing drought and temperature extremes in an alpine shrub

Thakur, D.; Rathore, N.; Jandova, V.; Munzbergova, Z.; Dolezal, J.

10.1101/2025.06.26.661801 — ecology — Posted on 2025-06-28

257 Cryogenic Electron Tomography Redefines Herpesvirus Capsid Assembly Intermediates Inside the Cell Nucleus.

Oliver, S. L.; Chen, M.; Engel, L.; Hecksel, C. W.; Zhou, X.; Schmid, M. F.; Arvin, A. M.; Chiu, W.

10.1101/2025.06.27.661840 — microbiology — Posted on 2025-06-28

258 Molecular insights into the capsular polysaccharide transporter Wza-Wzc complex

Yuan, B.; Sieben, C.; Raj, P.; Rietschel, T.; Hennell James, R.; Gatzemeier, A.; Jansch, L.; Marlovits, T. C.; Heinz, D. W.

10.1101/2025.06.27.662001 — microbiology — Posted on 2025-06-28

259 Improved conditioning for hematopoietic chimerism induces islet tolerance to cure diabetes

Ramos, S. A.; Bhagchandani, P.; Burgos, D. M.; Gu, X.; Rodriguez, R.; Nourin, N.; Neukam, M.; Pathak, S.; Shizuru, J. A.; Kim, S. K.

10.1101/2025.06.26.661773 — immunology — Posted on 2025-06-28

260 Nightly dynamics of emotional content in dreams

Palmieri, J.; Elce, V.; Schoenauer, M.

10.1101/2025.06.26.661683 — neuroscience — Posted on 2025-06-28

261 Bilateral equalization of synaptic output in olfactory glomeruli of Xenopus tadpoles

Casas, M.; Terni, B.; Llobet, A.

10.1101/2025.06.25.661605 — neuroscience — Posted on 2025-06-28

262 Single neurons act as a memory buffer for space

Saber Marouf, B.; Reboreda, A.; Theissen, F.; Kaushik, R.; Sauvage, M.; Dityatev, A.; Yoshida, M.

10.1101/2025.06.27.661493 — neuroscience — Posted on 2025-06-28

263 The acute sleep-inducing effects of light require histamine neurotransmission in mice

HOU, Y.; TANG, N.; WU, S.; SHAO, Y.; LIN, J.; Gronfier, C.

10.1101/2025.06.26.661495 — neuroscience — Posted on 2025-06-28

264 Chaperone saturation mediates translation and protein folding efficiency

Martens, A. T.; Hilser, V. J.

10.1101/2025.06.25.661590 — systems biology — Posted on 2025-06-28

265 A core genetic mechanism integrates growth hormone signals to control meristem fate and inflorescence architecture in setaria and maize

Sandhu, J.; Yang, J.; Braud, M.; Bertolini, E.; Eveland, A. L.

10.1101/2025.06.27.660957 — plant biology — Posted on 2025-06-28

266 The BMP4-BMPR1A axis represses BRCA1, inducing BRCAness in mammary stem cells and contributing to tumor initiation in basal-like breast cancer

Aho, S.; Perbet, M.; Treilleux, I.; Buisson, A.; Jeanpierre, S.; Delay, E.; Maguer-Satta, V.; Guyot, B.

10.1101/2025.06.27.661450 — cancer biology — Posted on 2025-06-28

267 Intratumoral Heterogeneity of Vimentin Modulates Nuclear Mechanotransduction, DNA Damage Response and Cancer Cell Survival

Infante, E.; Terriac, E.; Gelin, M.; Siegfried, H.; Pereira, D.; Roca, V.; Varet, H.; Khalilian, S.; Rietveld, R.; Asnacios, A.; van Bodegraven, E. J.; Etienne-Manneville, S.

10.1101/2025.06.27.661506 — cancer biology — Posted on 2025-06-28

268 PatternExtract: A facile, scalable pipeline for point pattern generation from spatial imaging data

Sridhar, S.; Kumar, G.; Jasoria, S.; Meng, Z.; Jaynes, P.; Rajan, V.; Scott, D.; Tripodo, C.; Jeyasekharan, A.

10.1101/2025.06.25.661424 — bioinformatics — Posted on 2025-06-28

269 EC-Bench: A Benchmark for Enzyme Commission NumberPrediction

Davoudi, S.; Henry, C. S.; Miller, C. S.; Banaei-Kashani, F.

10.1101/2025.06.25.661207 — bioinformatics — Posted on 2025-06-28

270 Navigating the Lipid Universe with LipidLibrarian: A Cross-Linked Database for Lipidomics Data Integration

Niedermaier, F.; Mechteridis, K.; Pelz, K.; Wuerf, V.; Koehler, N.; Pauling, J. K.

10.1101/2025.06.26.661298 — bioinformatics — Posted on 2025-06-28

271 Unveiling the biochemical catalysis and regulatory mechanisms of the E3-independent E2 enzyme hUBE2O

Xiang, D.; Tang, X.; Shi, R.; Dong, S.; Zhang, X.

10.1101/2025.06.27.661974 — biochemistry — Posted on 2025-06-28

272 Mammalian Proteome Profiling Reveals Readers and Antireaders of Strand-Symmetric and -Asymmetric 5-Hydroxymethylcytosine-Modifications in DNA

Engelhard, L.; Cakil, Z. V.; Eppmann, S.; Gonzalez, T. I.; Linser, R.; Janning, P.; Summerer, D.

10.1101/2025.06.27.661915 — biochemistry — Posted on 2025-06-28

273 Phosphoproteomics unveils the signaling dynamics in neuronal cells stimulated with insulin and insulin-like growth factors

Ushakumary, M. G.; Sontag, R.; Posso, C.; Fillmore, T. L.; Topping, M. E.; Olson, H. M.; De Jager, P. L.; Bennet, D. A.; Arvanitakis, Z.; Petyuk, V. A.

10.1101/2025.06.25.661584 — biochemistry — Posted on 2025-06-28

274 Unveiling the genetic basis of the low pH response in the acidophilic yeast Maudiozyma bulderi as a potential host for biorefinery

Balarezo-Cisneros, L. N.; Hanak, A.; Zeef, L.; Mironov, A.; Valle, F.; Delneri, D.

10.1101/2025.06.27.661920 — genomics — Posted on 2025-06-28

275 Asian pika populations track local glaciation events through the Pleistocene

Kumar, H.; Vijay, N.; Rajamani, N.

10.1101/2025.06.25.661461 — genomics — Posted on 2025-06-28

276 Variation in social feeding behavior and interactions among Caenorhabditis nematodes

Haskell, D.; Palo, J.; Eugene, R. F. H.; Large, C. R. L.; Hart, M. P.

10.1101/2025.06.26.661336 — evolutionary biology — Posted on 2025-06-28

277 Diet as a driver of natural selection in human evolution: a paleo-empirical perspective

CHEN, Z.

10.1101/2025.06.26.661798 — evolutionary biology — Posted on 2025-06-28

278 Pollen Profiles and Floral Sources of Tennessee Honeys, an Influence of Appalachian Ecoregions

Millet, L. J.; Reed, C. R.

10.1101/2025.06.27.660778 — ecology — Posted on 2025-06-28

279 Strengthening intraguild predation increases the temporal variability of biomass across all trophic levels in model food webs

Rakowski, C. J.; Leibold, M. A.; Farrior, C. E.

10.1101/2025.06.25.661600 — ecology — Posted on 2025-06-28

280 Interactome Analysis of the CC2D1A Scaffold Reveals Novel Neuronal Interactions and a Postsynaptic Role

Heller, A. T.; Bhattacharya, A.; Li, H.; Turkalj, L.; Suzuki, E.; Mossa, A.; Zheng, H.; Hao, L.; Manzini, M. C.

10.1101/2025.06.26.661826 — molecular biology — Posted on 2025-06-28

281 RAD18 Methylation by the Methyltransferase SETD6 Attenuates DNA Breaks

Levy, D.; Weil, L. E.; Feldman, M.; Duine, J. V.; Qiu, J.; LaBaer, J.

10.1101/2025.06.27.662082 — molecular biology — Posted on 2025-06-28

282 MSIanalyzer: Targeted Nanopore Sequencing Enables Single Nucleotide Resolution Analysis of Microsatellite Instability Diversity

Zhai, T.; Laverty, D. J.; Nagel, Z. D.

10.1101/2025.06.26.661510 — molecular biology — Posted on 2025-06-28

283 Seasonal frost improves probiotic and nutrient availability in fermented vegetables

Luzmore, A.; Grauer, J.; Barber, D.; Jorgensen, G.; Lau, P.; Jain, S.; Perron, G. G.

10.1101/2025.06.27.661941 — microbiology — Posted on 2025-06-28

284 Tissue-like structures formed by a bacterium

Ampah, G. M. L.; Myers, C. J.; Ramirez Carbo, C. A.; Lin, I. S.; Nan, B.

10.1101/2025.06.27.661998 — microbiology — Posted on 2025-06-28

285 Detection of clade 2.3.4.4b H5N1 high pathogenicity avian influenza virus in a sheep in Great Britain, 2025

Banyard, A. C.; Coombes, H.; Terrey, J.; McGinn, N.; Seekings, J.; Clifton, B.; Mollett, B.; Di Genova, C.; Sainz-Dominguez, P.; Worsley, L.; Jorquera, R.; Billington, E.; Fullick, E.; Schlachter, A.-L.; Jorge, D.; Nunez, A.; Falchieri, M.; James, J.; Reid, S. M.

10.1101/2025.06.27.661969 — microbiology — Posted on 2025-06-28

286 Phospholipid-independent biogenesis of a functional RP4 conjugation pilus

Ishimoto, N.; Frankel, G.; Beis, K.

10.1101/2025.06.27.661960 — microbiology — Posted on 2025-06-28

287 Dual inhibition of glutaminolysis and autophagy suppresses proliferation of Rheumatoid arthritis fibroblast-like synoviocytes and mitigates arthritis in SKG mice

Naka, I.; Sendo, S.; Okano, T.; Uto, K.; Takahashi, S.; Hayashi, S.; Kuroda, R.; Morinobu, A.; Saegusa, J.

10.1101/2025.06.25.661649 — immunology — Posted on 2025-06-28

288 Neurochemical Features and Glycan Patterns in the Wapiti Vomeronasal Pathway

Antonio, A. M.; Hernando, G. G.; Cano, E. V.; Rois, J. L.; Moreira, O. S.; Sanchez-Quinteiro, P.; Ortiz-Leal, I.

10.1101/2025.06.25.661586 — neuroscience — Posted on 2025-06-28

289 The basolateral amygdala complex and perirhinal cortex represent focal and peripheral states of information processing in rats

Wong, F. S.; Killcross, S.; Westbrook, R. F.; Holmes, N. M.

10.1101/2025.06.25.661598 — neuroscience — Posted on 2025-06-28

290 Lcn2 deficiency leads to social impairments independent of maternal immune activation.

Pekala, M.; Zawislak, S.; Romanis, S.; Nader, K.; Cabaj, A.; Madecka, A.; Puscian, A.; Knapska, E.; Pawlak, R.; Kaczmarek, L.; Kalita, K.

10.1101/2025.06.27.661499 — neuroscience — Posted on 2025-06-28

291 Blockade of VCAM1 or VLA4 preserves cerebrovasculature and prevents cognitive decline late after stroke

Zera, K. A.; Bradshaw, K.; Zhu, L.; Hahn, O.; Foltz, A.; Peterson, T.; Yousef, H.; Lee, D.; Mayne, E. W.; Aghaeepour, N.; Wyss-Coray, T.; Buckwalter, M. S.

10.1101/2025.06.25.661593 — neuroscience — Posted on 2025-06-28

292 SGLT2 Inhibition Ameliorates Age-Dependent Renovascular Rarefaction

Paulmann, A.; Cox, M. D.; Boewer, T. J.; Somers, H.; Seaman, R.; Fuqua, H.; Graber, J. H.; Mahajan, A.; Johnson, C. P.; Beverly-Staggs, L. L.; Sandhi, S.; Heiko, S.; Haller, H.

10.1101/2025.06.27.654312 — systems biology — Posted on 2025-06-28

293 Pharmacological inhibition of G protein-coupled receptor kinase 5 decreases high-fat diet-induced hepatic steatosis in mice

Seramur, M. E.; Sink, S.; Reeves, T. E.; Solberg Woods, L. C.; Key, C.-c. C.

10.1101/2025.06.25.661655 — pathology — Posted on 2025-06-28

294 A Two-Phase Core-Plasma Model for Microvascular Blood Flow: Comparative Analysis of Hemodynamic Models

Salame, M.; Fenech, M.

10.1101/2025.06.25.661657 — biophysics — Posted on 2025-06-28

295 Protein Frustration Reveals Active Sites in Co-Evolved GPCR:G Protein Complexes and in Engineered Targeted Degrader Complexes

Wei, W.; Del Mundo, R.; Yang, T.; Mukhaleva, E.; Sivaraj, I. R.; Shanmugasundaram, V.; Branciamore, S.; Rodin, A. S.; Sivaramakrishnan, S.; Ma, N.; Vaidehi, N.

10.1101/2025.06.27.660602 — biophysics — Posted on 2025-06-28

296 A Minimal Chemo-mechanical Markov Model for Rotary Catalysis of F1-ATPase

Chen, Y.; Grubmüller, H.

10.1101/2025.06.26.661389 — biophysics — Posted on 2025-06-28

297 Alignment-free Bacterial Taxonomy Classification with Genomic Language Models

Leske, M.; FitzGerald, J. A.; Coughlan, K.; Bottacini, F.; Afli, H.; Andrade, B. G. N.

10.1101/2025.06.27.662019 — bioinformatics — Posted on 2025-06-28

298 Unsupervised Multi-scale Segmentation of Cellular Cryo-electron Tomograms with Stable Diffusion Foundation Model

Uddin, M. R.; Nguyen, T.-H.; Tabib, H. M. S.; Gandhi, K.; Xu, M.

10.1101/2025.06.25.661425 — bioinformatics — Posted on 2025-06-28

299 Controlled decorin delivery from injectable microgels promotes scarless vocal fold repair

Friedman, R.; Brown, E. A.; Bonelli, H. M.; Gupta, Y.; Aronson, M.; McDaid, K.; Oh, H. M.-Y.; Bandora, E. A.; Zur, K. B.; Gottardi, R.

10.1101/2025.06.25.661429 — bioengineering — Posted on 2025-06-28

300 Chemoenzymatic Synthesis of Asymmetric Bisecting Bi-, Tri-, and Tetra-Antennary N-Glycans

Ghotekar, B. K.; Bhagwat, S. K.; Chopra, P.; Buckley, T.; Boons, G.-J.

10.1101/2025.06.26.661710 — biochemistry — Posted on 2025-06-28

301 Evaluating horseradish peroxidase-mimic DNAzyme transducer for glucometer readout: roles of various components and their optimization

Parveen, S.; Ghosh, S.; Sengupta, M.; Talukdar, A.

10.1101/2025.06.27.661989 — biochemistry — Posted on 2025-06-28

302 Validating molecular target-enriched fMRI for disentangling drug effects on dopamine

van den Bosch, R.; Cools, R.

10.1101/2025.06.27.661944 — neuroscience — Posted on 2025-06-28

303 Dynamic recruitment of PV interneurons in the somatosensory cortex induced by experience dependent plasticity

Campos, B.; Marmouset-de la Taille, I.; Zeiger, W. A.

10.1101/2025.06.27.662081 — neuroscience — Posted on 2025-06-28

304 Early life stress modulates behavioral sensitivity to alcohol and promotes escalation of alcohol drinking

Morningstar, A. R.; Ledbury, O. S.; Yu, A. C.; Sardar, H.; Rogers, E. T.; Kandil, I. F.; Fajardo, R. N.; Benabou, M. E.; Giardino, W. J.

10.1101/2025.06.27.661986 — neuroscience — Posted on 2025-06-28

305 Analysis of astrocyte progenitors derived from human induced pluripotent stem cells in vitro and following transplantation into the intact spinal cord.

NICEFORO, A.; Jin, Y.; Ramakrishnan, S.; Lindner-Jackson, M.; Qiang, L. O.; Fischer, I.

10.1101/2025.06.27.661961 — neuroscience — Posted on 2025-06-28

306 Respiration as a dynamic modulator of sensory sampling

Chalas, N.; Saltafossi, M.; Berther, T.; Balestrieri, E.; Abbasi, O.; Gross, J.; Kluger, D. S.

10.1101/2025.06.26.661828 — neuroscience — Posted on 2025-06-28

307 YAP/TAZ create a physical niche for the maintenance of adult neural stem cell quiescence

Blasco-Chamarro, L.; Garcia-Bolufer, P.; Duart-Abadia, P.; Jordan-Pla, A.; Sirerol-Piquer, M. S.; Carrillo-Barbera, P.; Sgattoni, C.; Mateos-White, I.; Gil, C.; Morante-Redolat, J. M.; Farinas, I.

10.1101/2025.06.27.661955 — neuroscience — Posted on 2025-06-28

308 Why Meaning Survives Noise: The Spatiotemporal Abstraction Theory

Fridman, G. Y.

10.1101/2025.06.28.662092 — neuroscience — Posted on 2025-06-28

309 Light and temperature sensitive seizures are regulated by spatially distinct cortex glial populations in the central nervous system

Kunduri, G.; Godenschwege, T. A.; Sankey, K.; Abhilasha, K. V.; Acharya, U. R.; Acharya, J. K.

10.1101/2025.06.27.661959 — neuroscience — Posted on 2025-06-28

310 Transcutaneous Vagus Nerve Stimulation boosts evidence accumulation during perceptual decision-making

Su, S.; Vanvoorden, T.; Denmat, P. L.; Zenon, A.; Duque, J.

10.1101/2025.06.27.662007 — neuroscience — Posted on 2025-06-28

311 Cardiac-locked auditory stimulation modulates pupil and neural dynamics

Chiarion, G.; Cataldi, J.; Schwartz, S.; Pelentritou, A.; De Lucia, M.

10.1101/2025.06.26.661871 — neuroscience — Posted on 2025-06-28

312 Motor Learning Driven by Sensory Prediction Errors is Insensitive to Task Performance Feedback

Panthi, G.; Mutha, P. K.

10.1101/2025.06.28.662119 — neuroscience — Posted on 2025-06-28

313 Synaptic plasticity of prefrontal long-range inhibition regulates cognitive flexibility

Zhu, X.; Hagopian, L. L.; Wallquist, K. E.; Sohal, V. S.

10.1101/2025.06.27.662040 — neuroscience — Posted on 2025-06-28

314 Whole brain resting-state EEG dynamic: A mixture of linear aperiodic and nonlinear resonant stochastic processes

Wang, Y.; Li, M.; Garcia Reyes, R.; Bosch-Bayard, J. F.; Bringas-Vega, M. L.; Minati, L.; Valdes-Sosa, P. A.

10.1101/2025.06.27.661950 — neuroscience — Posted on 2025-06-28

315 Modular striatal dynamics and reciprocal inhibition orchestrate skilled action sequencing

Bakhurin, K. I.; Lu, B.; Zheng, H.; Park, J.; Yin, H.

10.1101/2025.06.27.662029 — neuroscience — Posted on 2025-06-28

316 Variations in neuronal selectivity create efficient representational geometries for perception

Saraf, S.; Movshon, J. A.; Chung, S.

10.1101/2025.06.26.661754 — neuroscience — Posted on 2025-06-28

317 Expanding the spectrum of annexin A11 proteinopathy in frontotemporal lobar degeneration and motor neuron disease

Ghayal, N. B.; Crook, R. J.; Jain, A.; Sachdeva, G.; Roemer, S. F.; Sekiya, H.; DeTure, M. A.; Baker, M. R.; De Coster, W.; Oskarsson, B. E.; Josephs, K. A.; Rademakers, R.; Van Blitterswijk, M.; Dickson, D. W.

10.1101/2025.06.26.661831 — neuroscience — Posted on 2025-06-28

318 Projection Targeting with Phototagging to Study the Structure and Function of Retinal Ganglion Cells

Bohlen, M. O.; Rudzite, A. M.; Daw, T. B.; Kuczewski, G. M.; Spiro, E.; Hammond, C.; Rogers, D. R.; Gallego-Ortega, A.; Roy, S.; Ritola, K.; Sommer, M. A.; Field, G. D.

10.1101/2025.06.25.661576 — neuroscience — Posted on 2025-06-28

319 Adolescent morphine exposure does not alter low-dose lipopolysaccharide-induced sickness behavior in adult mice

Davidson, N.; Masese, C.; Han, C.; Massac, L.; Ishikawa, Y.; Reynolds, G.; Smithson, C.; Cook, J.; Manners, M.; Robinson, S.

10.1101/2025.06.26.661880 — neuroscience — Posted on 2025-06-28

320 The specificity of fatigue cerebral substrates in early Multiple Sclerosis - An fMRI study

Guillemin, C.; Charonitis, M.; Beliy, N.; Requier, F.; Delrue, G.; Lommers, E.; Vandewalle, G.; Maquet, P.; Phillips, C.; Collette, F.

10.1101/2025.06.27.661966 — neuroscience — Posted on 2025-06-28

321 Sex-Stratified Transcriptomic Meta-Analysis of Alzheimer's Disease Reveal Brain Region and Sex Specific Dysregulation

young, j. I.; Varma, A.; Gomez, L.; Schmidt, M. A.; Kunkle, B.; Wang, L.; Martin, E.

10.1101/2025.06.25.661596 — molecular biology — Posted on 2025-06-28

322 Epigenetic Context Defines the Transcriptional Activity of Canonical and Noncanonical NF-κB Signaling in Pancreatic Cancer

Aggrey-Fynn, J. E.; Busch, J.; Saul, D.; Rajput, A.; Willecke, K.; Klimt, N.; Rajendran, K.; Schacherer, N.; Ge, W.; Thiel, J.; Abdelrahman, A. M.; Truty, M. J.; Dong, M.; Johnsen, S. A.

10.1101/2025.06.25.661561 — cancer biology — Posted on 2025-06-28

323 HSF4: A Prognostic Predictor and Potential Therapeutic Target in Colorectal Cancer with Implications for Patient Immune Status

Wan, T.; Liu, J.; Wu, J.; Chang, W.; Li, Y.; Shen, C.

10.1101/2025.06.25.661652 — cancer biology — Posted on 2025-06-28

324 Unlocking the Power of CXCR2 Inhibition to Overcome Gemcitabine Resistance in Pancreatic Cancer

Molczyk, C.; Sturgeon, R.; Saxena, S.; Johnson, E.; Bhatia, R.; Bhyravbhatla, N.; Kumar, S.; Batra, S. K.; Singh, R. K.

10.1101/2025.06.25.661585 — cancer biology — Posted on 2025-06-28

325 Pretreatment with estrogen enhances the therapeutic efficacy of cardiac progenitor cells and improves cardiac recovery in a failing heart model

Aydos, D.; Basak, N.; Olgar, Y.; Genc, K.; Uyar, R.; Ekim, O.; Sych, T.; Aksoy, Z. B.; Kosker, T. A.; Sezgin, E.; Bitirim, C. V.

10.1101/2025.06.25.661574 — molecular biology — Posted on 2025-06-28

326 Characterization of core promoter activation by the Drosophila insulator-binding protein BEAF

Negedu, S.; Vidrine, E. J.; Hart, C. M.

10.1101/2025.06.25.661594 — molecular biology — Posted on 2025-06-28

327 Isolation Methods of Tumor Endothelial Cells Impact AngiomiR Profiles

Pecot, C. V.; Edatt, L.; Dixit, G.; Azam, S.; Tsai, S.; Dudley, A.

10.1101/2025.06.25.661572 — molecular biology — Posted on 2025-06-28

328 Immunization with VLP-based vaccines induces high IgG antibody titers in dermal interstitial fluid

Francian, A.; Gadam, S. R.; Leyba, A.; Taylor, R. M.; Muttil, P.; Baca, J. T.; Chackerian, B.

10.1101/2025.06.25.661557 — immunology — Posted on 2025-06-28

329 A method for analyzing physiological data with multiple non-independent observations

McKiernan, E. C.; Rincon, J. H. A.; Perez, A. T.; Herrera-Valdez, M. A.

10.1101/2025.06.25.661570 — physiology — Posted on 2025-06-28

330 Four neurons pattern brain-wide developmental activity through neuropeptide signaling.

Reichl, J.; Miller, J. M.; Randhawa, H.; Castillo, L. M. P.; Akin, O.

10.1101/2025.06.26.661770 — neuroscience — Posted on 2025-06-28

331 Long Noncoding RNAs Enforce Pancreatic Cancer Identity and Block Reprogramming

Grygoryev, D.; Lee, S.-W.; Frankston, C. M.; Rakshe, S.; Berry, M.; Hirano, A.; Ekstrom, T.; Manalo, E.; Tessier, J.; Chow-Castro, M.; Link, J.; Keith, D.; Sheppard, B. C.; Fei, S.; Morgan, T.; Remotti, H. E.; Yang, W.; Furth, E.; Thakurela, S.; Sears, R. C.; Kim, J.

10.1101/2025.06.25.661419 — cancer biology — Posted on 2025-06-28

332 The Open Pediatric Cancer Project

Geng, Z.; Wafula, E.; Corbett, R. J.; Zhang, Y.; Jin, R.; Gaonkar, K. S.; Shukla, S.; Rathi, K. S.; Hill, D.; Lahiri, A.; Miller, D. P.; Sickler, A.; Keith, K.; Blackden, C.; Chroni, A.; Brown, M. A.; Kraya, A. A.; Clark, K. L.; Rood, B. R.; Resnick, A. C.; Van Kuren, N.; Maris, J. M.; Farrel, A.; Koptyra, M. P.; Trooskin, G. R.; Coleman, N.; Zhu, Y.; Stefankiewicz, S.; Abdullaev, Z.; Chinwalla, A. T.; Santi, M.; Naqvi, A. S.; Mason, J. L.; Koschmann, C. J.; Huang, X.; Diskin, S. J.; Aldape, K.; Farrow, B. K.; Ma, W.; Zhang, B.; Ennis, B. M.; Tasian, S.; Phul, S.; Lueder, M. R.; Zhong, C.; Dyb

10.1101/2024.07.09.599086 — genomics — Posted on 2025-06-28

333 CD38 expression by neonatal human naïve CD4+ T cells shapes their distinct metabolic state and high tolerogenic potential

Dwyer, L. R.; DeRogatis, A. M.; Clancy, S.; Gouirand, V.; Chien, C.; Rogers, E. E.; Oltman, S. P.; Jelliffe-Pawlowski, L. L.; Lynch, S. V.; Rutishauser, R. L.; Wagner, A.; Combes, A. J.; Scharschmidt, T. C.

10.1101/2025.01.02.631038 — immunology — Posted on 2025-06-28

334 Core microRNAs regulate neural crest delamination and condensation in the developing trigeminal ganglion

Marquez, R. B.; Sanchez Vazquez, E.; Alonso, A. M.; Bernardi, Y. E.; Santillan, E. M.; Lwigale, P.; Cochella, L.; Bronner, M.; Strobl-Mazzulla, P. H.

10.1101/2025.06.27.661967 — developmental biology — Posted on 2025-06-28

335 Amyloid pathology reduces dynamic range and disrupts neural coding in a mouse model of Alzheimer's Disease

Go, M. A.; Clark, K.; Li, Y.; Prado, S.; Teixeira, B.; Yu, J. J.; Schultz, S. R.

10.1101/2025.06.27.661987 — neuroscience — Posted on 2025-06-28

336 Perceptual learning mechanisms with single-stimulus exposure

SANJUAN ARTEGAIN, M. D. C.; Nelson, J. B.

10.1101/2025.06.25.661650 — animal behavior and cognition — Posted on 2025-06-28

337 Sodium Butyrate Rescues Neurodevelopmental Deficits Following Perinatal Methadone Exposure

Williams, I. A. R.; van Dorst, J.; Leigh, S.-J.; Baracz, S. J.; Marcus, A.; McCaffrey, D.; Walker, A.; Ooi, C. Y.; Ward, M. C.; Oei, J.-L.; Clemens, K.

10.1101/2025.06.26.661851 — animal behavior and cognition — Posted on 2025-06-28

338 Discovering search behaviour in black garden ant trajectories

Bonavita, P.; Albino, M.; Gautrais, J.; Fourcassie, V.; Combe, M.; Eibner, S.; Jost, C.

10.1101/2025.06.25.661660 — animal behavior and cognition — Posted on 2025-06-28

339 A method for analysing tissue motion and deformation during mammalian organogenesis

Raiola, M.; Esteban, I.; Ivanovitch, K.; Sendra, M.; Torres, M.

10.1101/2025.06.27.661906 — developmental biology — Posted on 2025-06-28

340 Specificity of Aberrant Exons in a Saturated Background of Differentially Expressed Exons

Das, U.; Nguyen, H.; Yang, J.; Ogunsola, S.; Hamilton, M.; Wu, Y.; Liu, L.; Cao, W.; Liu, C.; Xie, J.

10.1101/2025.06.25.661610 — cancer biology — Posted on 2025-06-28

341 Stability and DNA Methyltransferase Activity of DNMT3A are Maintained by Ubiquitin-Specific Peptidase 11 (USP11) and Sumoylation Countering Degradation

Yonezawa, T.; Rutter, J.; Ramabadran, R.; Sundaramurthy, V.; Datar, G.; Slabicki, M.; Goodell, M. A.

10.1101/2025.03.05.641683 — biochemistry — Posted on 2025-06-28

342 Trypanosoma cruzi Has 32 Chromosomes: A Telomere-to-Telomere Assembly Defines Its Karyotype.

Greif, G.; Chiribao, M. L.; Diaz-Viraque, F.; Sanz-Rodriguez, C.; Robello, C.

10.1101/2025.03.27.645724 — genomics — Posted on 2025-06-28

343 Ecoduality

Ulanowicz, R. E.

10.1101/2025.06.21.660866 — ecology — Posted on 2025-06-28

344 Mouse models of non-dystrophic and dystrophic myotonia exhibit nociplastic pain-like behaviors

Nelson, T. S.; Calderon-Rivera, A.; Allen, H. N.; Loeza-Alcocer, E.; Pineda-Farias, J. B.; Pachenari, N.; Gomez, K.; Loya-Lopez, S.; Rodriguez-Palma, E. J.; Duran, P.; Gold, M. S.; Khanna, R.

10.1101/2024.06.19.599732 — neuroscience — Posted on 2025-06-28

345 Selective breeding and production strategies to support snapper farming in the warming waters of New Zealand's South Island

Samuels, G.; Ribeiro, F.; Ashton, D. T.; Ford, S.; Fantham, J.; Blommaert, J.; Moran, D.; Wellenreuther, M.

10.1101/2025.06.13.659617 — zoology — Posted on 2025-06-28

346 Downregulation of Keratin Proteins in the Neuroendocrine System of Amyotrophic Lateral Sclerosis with PT150 as a Dual Neuroprotectant

Dunakhe, S.; Sharma, A.; Das, A.; Kulkarni, P.

10.1101/2025.03.18.643927 — systems biology — Posted on 2025-06-28

347 A polyomavirus-positive Merkel cell carcinoma mouse model supports a unified cancer origin

yang, w.; contente, s.; rahman, s.

10.1101/2025.05.06.652325 — cancer biology — Posted on 2025-06-28

348 Positive genetic interactions: high impact, but underrepresented in theliterature

Sun, M.; McCandlish, D. M.

10.1101/2025.06.25.661621 — genetics — Posted on 2025-06-28

349 Activity patterns during the mating season predict sex-biased infections in an emerging fungal disease

Kailing, M. J.; Hoyt, J. R.; White, J. P.; Redell, J. A.; Kaarakka, H. M.; Langwig, K. E.

10.1101/2024.09.02.609945 — ecology — Posted on 2025-06-28

350 Optimization of Tissue Clearing Methods and Imaging Conditions for 3D Visualization of the Vasculature of the Adult Murine Knee

Ishola, A.; Pillai, A.; Ahn, T.; RE-JOIN Consortium, ; Hsu, C.-W.; Lee, B.; Haelterman, N. A.; Wythe, J.

10.1101/2025.06.26.661802 — developmental biology — Posted on 2025-06-28

351 Oxygen uptake in human donor corneas: the centripetal gradient and its changes in culture and correlation with wounds and aminophylline treatment

Sandoval-Castellanos, A. M.; Mann, J. S.; Reid, B.; Li, J. Y.; Mannis, M. J.; Zhao, M.

10.1101/2025.06.26.661845 — cell biology — Posted on 2025-06-28

352 Structure-guided secretome analysis of gall-forming microbes offers insights into effector diversity and evolution

Mukhopadhyay, S.; Javed, M. A.; Wu, J.; Perez-Lopez, E.

10.1101/2024.09.03.609900 — microbiology — Posted on 2025-06-28

353 Multiple bursting patterns in Lateral Habenula neurons: experiments and computational model

Fedorov, D.; Campillo, F.; Desroches, M.; Soria-Gomez, E.; Rodrigues, S.; Piriz, J.

10.1101/2025.01.23.634464 — neuroscience — Posted on 2025-06-28

354 Minimally verbal children with autism may see the point, but do not (always) point to what they see:A behavioral and eye-tracking study in visual perceptual processing

Sykes-Haas, H. S.; Bonneh, Y. S.

10.1101/2025.06.26.661808 — neuroscience — Posted on 2025-06-28

355 Chemogenetic inhibition of amygdala to ventrolateral prefrontal cortex communication selectively impacts contingent learning

Fredericks, M.; Elorette, C.; Boyce, J. E.; Rudebeck, P.

10.1101/2025.06.26.661815 — neuroscience — Posted on 2025-06-28

356 Changes in interlimb coordination induced by within-stride changes in treadmill speed

Hall, B. L.; Roemmich, R. T.; Banks, C. L.

10.1101/2024.11.27.625740 — neuroscience — Posted on 2025-06-28

357 Frontal cortex organization supporting audiovisual processing during naturalistic viewing

Zhou, F.; Khalilian-Gourtani, A.; Dugan, P.; Michalak, A.; Devinsky, O.; Rozman, P.; Doyle, W.; Friedman, D.; Flinker, A.

10.1101/2025.06.26.661755 — neuroscience — Posted on 2025-06-28

358 A TNL receptor mediates microbiome feedbacks in Arabidopsis

Janse van Rensburg, H.; Schandry, N.; Waelchli, J.; Stengele, K.; Cadot, S.; Jandrasits, K.; Becker, C.; Schlaeppi, K.; Adachi, H.

10.1101/2025.02.25.640125 — plant biology — Posted on 2025-06-28

359 Oncogenic RAS signaling is a tumor cell-intrinsic determinant of ferroptosis suppression via induction of the GCH1/BH4 axis

Lim, J. K.; Stoelting, F.; Roth, D.; Ballmeyer, C.; Tishina, S.; Thewes, L.; Kalis, S.; Boussettaoui, S.; Picard, D.; Zhang, H.-F.; Lewandowska, O.; Reiff, T.; Levy, T.; Rotblat, B.; Remke, M.; Sorensen, P. H.; Braegelmann, J.; Beleggia, F.; Berndt, C.; Gruendemann, D.; von Karstedt, S.; Reifenberger, G.; Fluegen, G.; Leprivier, G.

10.1101/2024.01.27.577524 — cancer biology — Posted on 2025-06-27

360 Uncovering the Regional and Cell Specific Bioactivity of Injectable Extracellular Matrix Biomaterials in Myocardial Infarction through Spatial and Single Nucleus Transcriptomics

Mesfin, J. M.; Ninh, V. K.; Diaz, M. D.; Nguyen, M. B.; Chen, A.; Wang, R. M.; Wong, E. G.; Karkanitsa, M. L.; Hunter, J. D.; Yu, J. D.; Bridgelal, B.; Pham, J.-P. A.; Taghdiri, N.; Calcagno, D. M.; Luo, C. G.; Braden, R. L.; Fu, Z.; King, K. R.; Christman, K. L.

10.1101/2025.06.25.661525 — bioengineering — Posted on 2025-06-27

361 Novel mechanistic insights for catalytic bioluminescence of mammalian Gaussia Luciferase through mutant and ancestral analysis

Borum, R. M.; Lanzillotti, M.; Sahasrabuddhe, A.; Hui, J.; Cochran Xie, V.; Ferbas, J.

10.1101/2025.06.16.659893 — biochemistry — Posted on 2025-06-28

362 Long-read transcriptome assembly reveals vast isoform diversity in the placenta associated with metabolic and endocrine function

Bresnahan, S. T.; Yong, H.; Wu, W. H.; Lopez, S.; Chan, J. K. Y.; White, F.; Jacques, P.-E.; Hivert, M.-F.; Chan, S.-Y.; Love, M. I.; Huang, J. Y.; Bhattacharya, A.

10.1101/2025.06.26.661362 — genomics — Posted on 2025-06-28

363 Combining multiple genetic estimates of Ne

Waples, R. S.

10.1101/2025.06.26.661823 — evolutionary biology — Posted on 2025-06-27

364 A century of allopatry: plasticity and rapid selection shape phenotypic trait variability under contrasting environments.

Rogissart, H.; Daufresne, M.; Evanno, G.; Guillard, J.; Lubin, F.-R.; Chancerel, E.; Raffard, A.

10.1101/2025.06.26.661825 — evolutionary biology — Posted on 2025-06-28

365 Viral infection induces oxylipin chemical signaling at the end of a summer upwelling bloom: implications for carbon cycling.

Edwards, B. R.; Thamatrakoln, K.; Kranzler, C. F.; Ossolinski, J.; Fredricks, H.; Johnson, M. D.; Krause, J. W.; Bidle, K. D.; Van Mooy, B.

10.1101/2025.05.18.654734 — ecology — Posted on 2025-06-28

366 Force patterning drives cell flows and 3D spatial order in auditory epithelia

Weninger, J.; Prakash, A.; Raman, S.; Ladher, R. K.; Rao, M.; Kruse, K.

10.1101/2025.06.26.661757 — developmental biology — Posted on 2025-06-28

367 Stressed β-cells contribute to loss of peri-islet extracellular matrix in type 1 diabetes

Johansen, C. G.; Lam, K.; Farnsworth, N. L.

10.1101/2025.06.25.661601 — cell biology — Posted on 2025-06-27

368 In vivo chemical reprogramming is associated with a toxic accumulation of lipid droplets hindering rejuvenation

Mitchell, W.; de Magalhaes, C. G.; Tyshkovskiy, A.; Uchida, Y.; Goeminne, L. J.; Ichimura, T.; Ng, E. L.; Bonventre, J. V.; Gladyshev, V. N.

10.1101/2025.06.25.661123 — cell biology — Posted on 2025-06-28

369 Breed strongly predicts hemotropic coinfections in cattle: evidence from a Colombian multispecies molecular survey

Rios Usuga, C.; Rendon Ramos, L. M.; Jaramillo Delgado, I. L.; Correa-Valencia, N. M.

10.1101/2025.06.26.661883 — molecular biology — Posted on 2025-06-27

370 Serosurveillance Studies of Peste des Petits Ruminants (PPR) Virus in Sheep and Goats in South Asia: A Systematic Review and Meta-analysis

Ahmed, M. J.; Hossain, M. I.; Chalise, R.; Rahman, M. A.; Bhandari, P.; Sikder, T.; Khatun, A.; Hossain, D.

10.1101/2025.06.26.661882 — microbiology — Posted on 2025-06-27

371 Temporal regulation of human reactive astrocytes reveals their capacity for antigen presentation

Hill, E. J.; Sojka, C.; Sampson, M. M.; Wang, H.-L. V.; King, A. T.; Sing, A. D.; Brain Organoid Hub, ; Faundez, V.; Sloan, S. A.

10.1101/2025.06.26.661787 — neuroscience — Posted on 2025-06-27

372 Post-biting behavioral reprogramming underlies reproductive efficiency in Aedes aegypti mosquitoes

Dong, L.; Bradford, E. F.; Barnett, J. M.; Duvall, L. B.

10.1101/2025.06.25.661507 — neuroscience — Posted on 2025-06-27

373 Information Spillover in Resting Memory and Working Memory

Koten, J. W.; Vogrin, M.; Wood, G.; Manner, H.

10.1101/2025.06.26.661694 — neuroscience — Posted on 2025-06-27

374 SpikeMAP: An unsupervised pipeline for the identification of cortical excitatory and inhibitory neurons in high-density multielectrode arrays with ground-truth validation

Giraud, E.; Lynn, M.; Vincent-Lamarre, P.; Beique, J.-C.; Thivierge, J.-P.

10.1101/2025.03.14.643403 — neuroscience — Posted on 2025-06-27

375 Predicting cellular responses to perturbation across diverse contexts with STATE

Adduri, A.; Gautam, D.; Bevilacqua, B.; Imran, A.; Shah, R.; Naghipourfar, M.; Teyssier, N.; Ilango, R.; Nagaraj, S.; Ricci-Tam, C.; Carpenter, C.; Subramanyam, V.; Winters, A.; Dong, M.; Tirukkovalur, S.; Sullivan, J.; Plosky, B.; Eraslan, B.; Youngblut, N. D.; Leskovec, J.; Gilbert, L. A.; Konermann, S.; Hsu, P. D.; Dobin, A.; Burke, D. P.; Goodarzi, H.; Goodarzi, H.; Roohani, Y. H.

10.1101/2025.06.26.661135 — systems biology — Posted on 2025-06-27

376 A Mathematical Model of Persister Cell Plasticity and Its Impact on Adaptive Cancer Therapy

Mathews, A.; Basanta, D.

10.1101/2025.06.26.661628 — systems biology — Posted on 2025-06-27

377 Radiosensitizers in Cancer Therapy: A Global Bibliometric Analysis

Annagiri, S.; Harary, P. M.; Hori, Y. S.; Lam, F. C.; AbuReesh, D.; Tayag, A.; Ustrzynski, L.; Emrich, S. C.; Chang, S. D.; Park, D. J.

10.1101/2025.06.26.661878 — cancer biology — Posted on 2025-06-27

378 Interpreting Attention Mechanisms in Genomic Transformer Models: A Framework for Biological Insights

Consens, M. E.; Diaz-Navarro, A.; Chu, V.; Stein, L. D.; he, h. h.; Moses, A.; Wang, B.

10.1101/2025.06.26.661544 — bioinformatics — Posted on 2025-06-27

379 Recurring Transient Brain-Wide Co-Activation Patterns from EEG Spatially Resembling Time-Averaged Resting-State Networks

Nkurumeh, K. K.; Yuan, H.; Ding, L.

10.1101/2025.06.26.661612 — bioengineering — Posted on 2025-06-27

380 Ecological Factors Affecting Prosociality in Marmoset Monkeys

Mysorekar, A. R.; Vispute, A.; Miller, C.

10.1101/2025.06.26.661771 — animal behavior and cognition — Posted on 2025-06-27

381 Hybrid-metagenomics reveal off-target effects of albendazole, ivermectin-albendazole and moxidectin-albendazole on the human gut bacteria.

Dommann, J.; Sprecher, V. P.; Beisel, C.; Ballmer, D.; Hürlimann, E.; Coulibaly, J. T.; Keiser, J.; Schneeberger, P. H. H.

10.1101/2025.06.27.660518 — genomics — Posted on 2025-06-27

382 The Future of Juniperus procera in Ethiopia under Climate Change Secnarios - Implications for Ecosystem Rehabilitation and Biodiversity Conservation

Woldu, Z.; Zeleke, G.

10.1101/2025.06.25.661646 — ecology — Posted on 2025-06-27

383 Evaluation of Leishmania Homologue of Activated C Kinase (LACK) of Leishmania donovani in comparison to glycoprotein 63 as vaccine candidate against visceral leishmaniasis

Didwania, N.; Bhowmick, S.; Sabur, A.; Bhattacharya, A.; Ali, N.

10.1101/2025.06.25.661467 — immunology — Posted on 2025-06-27

384 Papaver S-determinants trigger an integrated network of mitochondrially derived ROS and disruption of energy metabolism in incompatible pollen tubes

Wang, L.; Hsiao, A.-S.; Carli, J.; Raza, A.; Lin, Z.; Arnaud, D.; Davies, J.; Franklin-Tong, V. E.; Smirnoff, N.; Bosch, M.

10.1101/2025.06.26.661469 — plant biology — Posted on 2025-06-27

385 A new molecular seed assay to predict Ustilago nuda field infection levels

Panzetti, C.; Jenny, E.; Bänziger, I.; Kägi, A.; Vogelgsang, S.; Hebeisen, T.; Büttner, P.; Croll, D.; Widmer, F.; Sullam, K. E.

10.1101/2025.06.25.661478 — plant biology — Posted on 2025-06-27

386 CRISPR-Based Gene Dependency Screens reveal Mechanism of BRAF Inhibitor Resistance in Anaplastic Thyroid Cancer

noronha, s.; Liu, Y.; gaga, G.; Li, h.; Wu, X.; Sun, D.; gujar, v.; Furusawa, T.; Lobanov, A.; Cam, M.; Ray, L.; nair, n.; Day, C.-P.; Ruppin, E.; Ghosh, C.; Hu, J.; Kumar, S.; Andresson, T.; Chan, K.; O'Neill, M.; Chari, R.; Pommier, Y.; DelRivero, J.; Weyemi, U.; Kebebew, E.; Boufraqech, M.

10.1101/2025.06.26.661609 — cancer biology — Posted on 2025-06-27

387 Effects of calreticulin deficiency and myeloproliferative neoplasm (MPN)-linked mutation on cellular calcium signaling

Tagoe, I. N. A.; Kaur, A.; Quaye, O.; Tagoe, E. A.; Koropatkin, N. M.; Satin, L. S.; Raghavan, M.

10.1101/2025.06.25.661618 — cancer biology — Posted on 2025-06-27

388 Exercise serum promotes DNA damage repair and upregulates DNA repair gene PNKP in colon cancer cells

Orange, S. T.; Dodd, E.; Nath, S.; Bowden, H.; Jordan, A.; Smith, H.; Hedley, A.; Chukwuma, I.; Hickson, I.; Saha, S. S.

10.1101/2025.06.26.659251 — cancer biology — Posted on 2025-06-27

389 Guidance of cellular nematics into shape-programmable living surfaces

Guillamat, P.; Mirza, W.; Bal, P. K.; Gomez-Gonzalez, M.; Roca-Cusachs, P.; Arroyo, M.; Trepat, X.

10.1101/2025.06.27.660992 — biophysics — Posted on 2025-06-27

390 STRESS: Spatial Transcriptome Resolution Enhancing Method based on the State Space Model

Wang, X.; Ye, F.; LIU, X.

10.1101/2025.06.25.661624 — bioinformatics — Posted on 2025-06-27

391 In silico analysis of the invasion mechanics and invasiveness of the plasmodium falciparum merozoite

Msosa, C.; Abdalrahman, T.; Franz, T.

10.1101/2025.06.26.661885 — bioengineering — Posted on 2025-06-27

392 Enabling Real-Time Process Analysis in Embedded Bioprinting with a Modular In Situ Monitoring Platform

Zanderigo, G.; Afghah, F.; Colosimo, B. M.; Raman, R.

10.1101/2025.06.25.661611 — bioengineering — Posted on 2025-06-27

393 Competing chaperone pathways in α-synuclein disaggregation and aggregation dynamics

Auld, N. K.; McMahon, S.; Marzano, N. R.; van Oijen, A. M.; Ecroyd, H.

10.1101/2025.06.25.661627 — biochemistry — Posted on 2025-06-27

394 Development of a method for large-scale single-molecule analysis of tau proteoforms

Joly, J.; Budamagunta, V.; Zhang, Z.; Nortman, B.; Jouzi, M.; Bhatnagar, R.; Egertson, J. D.; Flaster, M. E.; Grothe, R.; Guha, S.; Kaneshige, K.; McVey, K.; Nelson, N.; Perera, R. T.; Tan, S. J.; Arnott, D.; Lipka, J.; Rouge, L.; Wendorff, T.; Kirkpatrick, D.; Rohou, A.; Butler, D. C.; Lotz, S.; Forton-Juarez, A.; Sartori, E. R.; Brereton, P. S.; Chen, K.; Darcy, M. A.; Golnabi, H. R.; Hartley, R.; Indermuhl, P. F.; Inman, C. E.; Jin, K. M.; Katsyuk, S.; Kota, R.; Lowry, B.; Menger, J. C.; Miller, D. A.; Newman, M. R.; Ogunyemi, A.; Robinson, J. K.; Steiner, N.; Sun, J.; Wang, L.; Wang, Z.; W

10.1101/2025.06.26.660445 — biochemistry — Posted on 2025-06-27

395 Chromosome-scale genome assembly for Yellow Wood sorrel, Oxalis stricta

Wood, J. C.; Hamilton, J. P.; Vaillancourt, B.; Brose, J.; Edger, P. P.; Buell, C. R.

10.1101/2025.06.26.661616 — genomics — Posted on 2025-06-27

396 Assessment of Ex Situ Conservation Strategies for the Preservation of Domestic South American Camels in Southern Peru: Insights from Mitochondrial DNA Analysis

Mestanza, O.; Yalta-Macedo, C. E.; Diaz Salas, E.; Vallejo-Trujillo, A.

10.1101/2025.06.26.661050 — genetics — Posted on 2025-06-27

397 A porcine germ cell depletion model to investigate the role of germ cells in gonadal development.

Park, C.-H.; Jeoung, Y.-H.; Yeddula, S. G. R.; Wang, J.; Bhanu, T. P.

10.1101/2025.06.25.661527 — developmental biology — Posted on 2025-06-27

398 Strain-Specific Tropism and Transcriptional Responses of Enterovirus D68 Infection in Human Spinal Cord Organoids

Dabilla, N.; Maya, S.; McNinch, C.; Eddens, T.; Dolan, P. T.; Freeman, M. C.

10.1101/2025.06.27.661907 — microbiology — Posted on 2025-06-27

399 TridentTCR: Predicting T Cell Receptor Specificity for Antigens and Autoimmune-Related Targets via a Topology-Aware Graph and Large Language Model

Niu, R.; Kong, X.; Zhou, J.; Li, Y.; Shang, X.

10.1101/2025.06.27.661632 — immunology — Posted on 2025-06-27

400 Weight cycling-induced hypothalamic and metabolic tissue immune remodeling is uncoupled from metabolic dysfunctions

van der Zande, H. J. P.; Zemer, A.; Vrieling, F.; Smeehuijzen, L.; Attema, B.; Muallem, H.; Jansen, J.; van der Linden, A.; Prass, S.; Wessels, D.; Ren, M.; Haim, Y.; van Schothorst, E. M.; Kersten, S.; Rudich, A.; Stienstra, R.

10.1101/2025.06.27.661006 — immunology — Posted on 2025-06-27

401 Cerebellum and Plasma Metabolomics Identify Sepsis Biomarkers and MSC-sEV-Mediated Rescue

Crawford, D. W.; Triantafyllou, M.; Wolff, N.; Carlson, M.; Byrd, C.; Graham, D.; Kratimenos, P.; Gallo, V.; Koutroulis, I.

10.1101/2025.06.26.660174 — neuroscience — Posted on 2025-06-27

402 HILIC-Enabled Mass Spectrometric Discovery of Novel Endogenous and Glycosylated Neuropeptides in the American Lobster Nervous System

Tran, V. N. H.; Lu, G.; Duong, T.; Ibarra, A. E.; Wu, F.; Beaver, M.; Li, L.

10.1101/2025.06.26.661634 — neuroscience — Posted on 2025-06-27

403 Inactivating a β1 subunit of SnRK1 promotes broad-spectrum disease resistance in rice

Yuan, G.; Lu, X.; Wang, X.; Li, M.; Wang, S.; Huang, Z.; Zhang, F.; Zhang, X.; Yang, J.; Guo, H.; Bhadauria, V.; Zhu, W.; Zhao, W.; Peng, Y.-L.

10.1101/2025.06.26.661071 — plant biology — Posted on 2025-06-27

404 Simulation and experimental study on the strategy of soil auxiliary heating in a solar greenhouse in northeast China

Liu, X.; Wang, C.; Wang, T.; Zhang, F.; Xu, Z.

10.1101/2025.06.25.661648 — plant biology — Posted on 2025-06-27

405 The specific spatiotemporal evolution of TMS-evoked potentials reflects the engagement of cortical circuits

Fecchio, M.; Russo, S.; Couto, B. A. N.; Mikulan, E.; Pigorini, A.; Furregoni, G.; Hassan, G.; D'Ambrosio, S.; Solbiati, M.; Vigano, A.; Parmigiani, S.; Sarasso, S.; Casarotto, S.; Massimini, M.; Casali, A. G.; Rosanova, M.

10.1101/2025.06.25.661535 — physiology — Posted on 2025-06-27

406 EGFR Mutation Subtypes Modulate Distinct Metabolic Profiles and Clinical Outcomes in Lung Cancer: A Retrospective Analysis

Kungyal, T.; Tsamchoe, M.

10.1101/2025.06.26.659534 — cancer biology — Posted on 2025-06-27

407 Structural Impact of Alzheimer's Disease Mutations on Transmembrane TREM2-DAP12 Interactions: An Atomistic Perspective

Zhong, Z.; Ulmschneider, M. B.; Lorenz, C. D.

10.1101/2025.06.26.661739 — biophysics — Posted on 2025-06-27

408 Protein Dynamics at Different Timescales Unlock Access to Hidden Post-Translational Modification Sites

Lang, B.; Streit, J. O.; Kriwacki, R. W.; Christodoulou, J.; Babu, M. M.

10.1101/2025.06.25.661537 — bioinformatics — Posted on 2025-06-27

409 Multi-omics guided pathway and network analysis of clinical metabolomics and proteomics data

Schmidt, C.; Naake, T.

10.1101/2025.06.26.661095 — bioinformatics — Posted on 2025-06-27

410 A Task-Specific Transfer Learning Approach to Enhancing Small Molecule Retention Time Prediction with Limited Data

Hong, Y.; Tang, H.

10.1101/2025.06.26.661631 — bioinformatics — Posted on 2025-06-27

411 Lineage memory shapes viral resistance barriers in human skin

Van Eyndhoven, L. C. C.; Kinsler, G.; Zhang, J.; O'Farrell, A.; Abderrahim, R.; Srivastav, A.; Triandafillou, C. G.; Greco, T. M.; Zaret, K. S.; Cristea, I. M.; Orzalli, M. H.; Drayman, N.; Singh, A.; Raj, A.

10.1101/2025.06.27.661951 — bioengineering — Posted on 2025-06-27

412 On the use of generative models for evolutionary inference of malaria vectors from genomic data

Eneli, A. A.; Siu, P. C.; Perez, M.; Burt, A.; Fumagalli, M.; Mathieson, S.

10.1101/2025.06.26.661760 — genomics — Posted on 2025-06-27

413 Extreme long-range migration distorts flower colour clines in an Antirrhinum hybrid zone

Surendranadh, P.; Stankowski, S.; Field, D. L.; Barton, N. H.

10.1101/2025.06.25.661303 — genetics — Posted on 2025-06-27

414 Circle-Mediated HGT shapes the multichromosomal mitochondrial genome of the endoparasite Mitrastemon yamamotoi

Roulet, M. E.; Garcia, L. E.; Yu, R.; Wang, C.; Zhou, R.; Sanchez-Puerta, M. V.

10.1101/2025.06.25.661533 — evolutionary biology — Posted on 2025-06-27

415 Genetic parallelism underpins convergent mimicry coloration across Lepidoptera

Ben Chehida, Y.; van der Heijden, E. S. M.; Page, E. J.; Salazar, P. A. C.; Rosser, N.; Gabriela Gavilanes Cordova, K.; Sanchez-Prado, M.; Sanchez-Carvajal, M. J.; Chandi, F.; Arias-Cruz, A. P.; Radford, M.; Lamas, G.; Jiggins, C.; Mallet, J.; McClure, M.; Salazar, C.; Elias, M.; Bacquet, C. N.; Nadeau, N. J.; Dasmahapatra, K. K.; Meier, J. I.

10.1101/2025.06.26.661542 — evolutionary biology — Posted on 2025-06-27

416 Uncharacterized Acetilactobacillus-like genera represent the most abundant microorganisms in honeys produced by native stingless bee

Xolalpa-Aroche, A.; Contreras-Peruyero, H.; Delgado-Suarez, E. J.; Hernandez-Mena, D. I.; Moguel-Chin, W. I.; Rivero-Cruz, J. F.; Velarde, R. A.; Ortiz-Vazquez, E.; Rivero-Cruz, B. E.; Flores, J. A. L.; Orduna, L. R.; Licona-Cassani, C.; Barona-Gomez, F.; Selem-Mojica, N.

10.1101/2025.06.25.661387 — ecology — Posted on 2025-06-27

417 Side-by-side systematic characterization of novel FPs in budding yeast

Botman, D.; de Groot, D. H.; Wehrens, M.; van Rossum, K.; Yska, S.; van der Kieft, B.; Albert, V.; Minghetti, N.; Goedhart, J.; Teusink, B.; Goedhart, J.

10.1101/2025.06.27.661975 — molecular biology — Posted on 2025-06-27

418 Individual differences in behavioral effects of xylazine and opioid-xylazine mixtures in male rats

Woodhouse, K.; Li, J.-X.

10.1101/2025.06.25.661558 — pharmacology and toxicology — Posted on 2025-06-27

419 Limb proportions predict aquatic habits and soft-tissue flippers in extinct amniotes

Gordon, C. M.; Freisem, L. S.; Griffin, C. T.; Gauthier, J. A.; Bhullar, B.-A. S.

10.1101/2025.06.25.661573 — paleontology — Posted on 2025-06-27

420 Mechanisms of microtubule dynamics from single-molecule measurements

Mondal, S.; Bonventre, E.; Hancock, W. O.; Rice, L. M.

10.1101/2025.06.25.661545 — biophysics — Posted on 2025-06-27

421 The molecular basis of sodium-dependent fluoride export by the eukaryotic fluoride channel FEX

Kang, C.-Y.; An, M.; Heidari, S.; Torabifard, H.; Ohi, M. D.; Stockbridge, R. B.

10.1101/2025.06.25.661560 — biophysics — Posted on 2025-06-27

422 Cryo-EM of cardiac AL-224L amyloid reveals shared features in {lambda}6 light chain fibril folds

Hicks, C. W.; Prokaeva, T.; Spencer, B.; Jayaraman, S.; Huda, N.; Wong, S.; Chen, H.; Sanchorawala, V.; Lavatelli, F.; Gursky, O.

10.1101/2025.06.25.661559 — biophysics — Posted on 2025-06-27

423 Advancing in silico drug design with Bayesian refinement of AlphaFold models

Sen, S.; Hoff, S. E.; Morozova, T. I.; Schnapka, V.; Bonomi, M.

10.1101/2025.06.25.661454 — bioinformatics — Posted on 2025-06-27

424 Alpha-2-Macroglobulin mitigates mitochondrial dysfunction and neuronal apoptotic responses in pesticide-induced neurotoxicity

Dixit, S.

10.1101/2025.06.27.661925 — biochemistry — Posted on 2025-06-27

425 An efficient artificial esterase with a dynamic conformation via conformational engineering

Wang, Y.; Cao, Y.; Liu, Y.-Y.; Cao, Y.; Gao, T.; Deng, J.; Zhou, T.; Wang, H.; Cao, A.

10.1101/2025.06.26.661850 — biochemistry — Posted on 2025-06-27

426 Methylation dynamics in the decades preceding acute myeloid leukaemia

Fonseca, A. V.; Boniface, C. T.; Watson, C.; Hackett, S.; Gabbutt, C.; Ramos-Yamasaki, A. D.; Tan, A. B.; Montoya, J. M.; Strogantsev, R.; Hanssen, L.; Zhang, Y.; Apostolidou, S.; Gentry-Maharaj, A.; Esener, S.; Spellman, P.; Graham, T.; Menon, U.; Mohammed, H.; Blundell, J. R.

10.1101/2025.06.26.661643 — genomics — Posted on 2025-06-27

427 Hybrid short- and long-read assembly of an experimentally evolved Sodalis glossinidius strain SgGmmC1*

Pescod, P.; Rafuse Haines, L.; Darby, A. C.; Goodhead, I. B.

10.1101/2025.06.26.659281 — genomics — Posted on 2025-06-27

428 Coalescence and Translation: A Language Model for Population Genetics

Korfmann, K.; Pope, N.; Meleghy, M.; Tellier, A.; Kern, A. D.

10.1101/2025.06.24.661337 — evolutionary biology — Posted on 2025-06-27

429 Outer membrane vesicles from Bacteroides fragilis contain coding and non-coding small RNA species that modulate inflammatory signaling in intestinal epithelial cells.

Sheikh, A.; Scano, C.; Xu, J.; Ojo, T.; Conforti, J. M.; Haberman, K. L.; King, B.; Martinez, A. S.; Pujol, M.; Watkins, J.; Lotter, J.; Lin, E. L.; Zechmann, B.; Sevcik, A.; Sayes, C.; Gallagher, E. S.; Lang, S. P. L.; Mell, J.; Ehrlich, G. D.; Taube, J. H.; Greathouse, K. L.

10.1101/2025.06.25.661399 — molecular biology — Posted on 2025-06-27

430 Unveiling the Molecular Architecture of Candida auris Ribosome

Atamas, A.; Stetsenko, A.; Incarnato, D.; Rogachev, A.; Macia Valero, A.; Billerbeck, S.; Guskov, A.

10.1101/2025.06.26.661723 — molecular biology — Posted on 2025-06-27

431 Precision Prediction of Microbial Ecosystem Impact on Host Metabolism Using Genome-Resolved Metagenomics

Mohssen, M.; Zayed, A. A.; Kigerl, K. A.; Du, J.; Smith, G. J.; Schwab, J. M.; Sullivan, M. B.; Popovich, P. G.

10.1101/2025.06.27.661827 — microbiology — Posted on 2025-06-27

432 Evolution of hunt, kill, devour in a Vibrio ecospecies

Svensson, S. L.; Wen, H.; Jia, Z.; Xie, Z.; Xu, W.; Fu, H.; Yang, C.; Chao, Y.; Falush, D.

10.1101/2025.06.27.661923 — microbiology — Posted on 2025-06-27

433 A Novel 'Three-in-one' Mucosal Vaccine Elicits Broad Protection against Three Distinct Clusters of ACE2-using Sarbecoviruseses

Liu, L.; Lin, H.; Li, M.; Li, X.; Wang, S.; Xu, M.; Liu, S.; Hu, Y.; Liu, M.-Q.; Huang, Z.; Zhang, Z.; Lan, K.; Chen, Y.-Q.; Yan, H.; Zhou, L.; Yang, J.; Wu, Q.; Chen, Y.

10.1101/2025.06.26.661659 — immunology — Posted on 2025-06-27

434 Optimization of regulatory DNA with active learning

Shen, Y.; Kudla, G.; Oyarzun, D. A.

10.1101/2025.06.27.661924 — synthetic biology — Posted on 2025-06-27

435 Dynamics and Regulation of mRNA Cap Recognition by Human eIF4F

Hong, H.; Guevara, M. G.; Li, S.; Liu, Y.; Huang, A. N.; Lin, E.; Neal, A.; Xu, D.; Hai, R.; Zandi, R.; O'Leary, S. E.

10.1101/2025.06.26.660926 — biophysics — Posted on 2025-06-27

436 Targeted degradation of GSPT1 and NEK7 by a molecular glue prodrug for treatment of HCC

Glaza, P.; Pluta, R.; Odrzywoł, K. E.; Klejnot, M.; Wieczorek, M.; Cottens, S.; Coppen, D.; Dobrzanski, P.; Drmota, T.; Lis-Grzesniak, J.; Sniezewska, A.; Majkut, J.; Mianowska, M.; Rozborska, P.; Jarmuszkiewicz, M.; Kaczanowska, K.; Adamska, A.; Takagi, T.; Sawicka, A.; Serwotka-Suszczak, A.; Gajewska, D.; Jurczak, K.; Leszkowicz, K.; Mankiewicz, M.; Przytulski, K.; Wisniewski, J.; Szlachcic, A.; Walczak, M. J.

10.1101/2025.06.25.661504 — molecular biology — Posted on 2025-06-27

437 CMV reshapes lymphoid immunity in aging: a single-cell atlas with predictive modeling

Grabauskas, T.; Verschoor, C. P.; Trinity, L.; Marches, R.; Thibodeau, A.; Nehar-Belaid, D.; Eryilmaz, G.; Picard, E.; Kuo, C.-L.; Schmader, K. E.; Colon-Emeric, C.; Whitson, H.; Paust, S.; Garcia-Sastre, A.; Banchereau, J.; Kuchel, G.; Ucar, D.

10.1101/2025.06.24.661167 — immunology — Posted on 2025-06-27

438 Intestinal Epithelial C/EBPβ Deficiency Impairs Colitis-Associated Tumorigenesis by Disrupting CXCL1 /CXCL2/CXCL5-CXCR2-Mediated Neutrophil Infiltration

Li, M.; Wang, X.; Hu, W.; Cheng, X.; Sun, Q.; Wu, Y.; Huang, Z.; Chen, J.

10.1101/2025.06.25.661448 — cancer biology — Posted on 2025-06-27

439 Dual Targeting of BRAFV600E and Ferroptosis Results in Synergistic Anticancer Activity via Iron Overload and Enhanced Oxidative Stress

Hu, J.; Ghosh, C.; Khaket, T.; Yang, Z.; Tabdili, Y.; Alamaw, E.; Boufraqech, M.; Dixon, S. J.; Kebebew, E.

10.1101/2025.06.25.661418 — cancer biology — Posted on 2025-06-27

440 Selenoprotein P Deficiency Drives Hepatocellular Carcinoma Progression via Induction of Neutrophil Senescence and Immunosuppressive Microenvironment

Jiao, J.; Xu, K.; Xiang, K.; Chen, R.; Xu, X.; Zhan, L.

10.1101/2025.06.24.661430 — cancer biology — Posted on 2025-06-27

441 Exploring Cellular Water Dynamics associated with Potassium Ion Changes Using Magnetic Resonance Imaging

Kim, S.-M.; Min, K.; Lee, J. S.; Park, J.-Y.

10.1101/2025.06.25.661446 — biophysics — Posted on 2025-06-27

442 Detecting and Quantifying Networks of Biological Kinship via Exponential Family Random Graph Models

Rohrlach, A. B.; Gnecchi-Ruscone, G. A.; Hofmanova, Z.; Roughan, M.; Haak, W.; Tuke, J.

10.1101/2025.06.25.661441 — bioinformatics — Posted on 2025-06-27

443 EVscope: A Comprehensive Bioinformatics Pipeline for Accurate and Robust Analysis of Total RNA Sequencing from Extracellular Vesicles

Zhao, Y.; Chintalapudi, H.; Xu, Z.; Liu, W.; Hu, Y.; Grassin, E.; Song, M.; Hong, S.; Lee, L. P.; Dong, X.

10.1101/2025.06.24.660984 — bioinformatics — Posted on 2025-06-27

444 Regional and Global Analysis of Cerebrovascular Reactivity Using 4D Flow MRI

Dempsey, S.; Walsh, H.; Zhao, D.; Quill, G.; Nash, M. P.; Burrowes, K.; Fisher, J. P.; Talou, G. M.

10.1101/2025.06.23.661174 — bioengineering — Posted on 2025-06-27

445 Autoantibodies in patients with arrhythmogenic cardiomyopathy activate GSK-3β resulting in a loss of cardiomyocyte cohesion

Pathak, S.; Stangner, K.; Kempf, E.; Moztarzadeh, S.; Hiermaier, M.; Rauschmayer, M.; Williams, T.; Stengl, A.; Gerull, B.; Biller, R.; Clauss, S.; Kaab, S.; Saric, T.; Yeruva, S.; Waschke, J.

10.1101/2025.06.25.661311 — cell biology — Posted on 2025-06-27

446 Selective alteration to CD4 T cell differentiation by heterozygous IRF4L116R protects against neuroinflammation

Jaeger, R. A.; Roberts, N. A.; Turnbull, C. M.; Seneviratne, S.; Buckland, R. L.; Spensberger, D.; Pettitt, J. A.; Ballard, F. D.; Bruestle, A.; Enders, A.

10.1101/2025.06.25.661400 — immunology — Posted on 2025-06-27

447 A single-cell atlas of ribosomal protein heterogeneity across human tissues reveals phenotypes of biological and clinical significance

Murali, A.; Tipgomut, C.; Jeyasekharan, A.; Sinha, H.

10.1101/2025.06.23.661225 — systems biology — Posted on 2025-06-27

448 Optimised dissociation and multimodal profiling of prostate cancer stroma reveal fibromuscular cell heterogeneity with clinical correlates

Damisch, E.; Brunner, E.; Nommensen, L.; Neumann, L.; Fotakis, G.; Trajanoski, Z.; Sopper, S.; Schaefer, G.; Puhr, M.; Heidegger, I.; Kruithof-de Julio, M.; Sampson, N.

10.1101/2025.06.25.661484 — cancer biology — Posted on 2025-06-27

449 Design principles of the common Gly-X6-Gly membrane protein building block

Golden, K.; Avarvarei, C.; Anderson, C. T.; Holcomb, M.; Tang, W.; Dai, X.; Zhang, M.; Maillie, C. A.; Sanchez, B. B.; Chen, J. S.; Forli, S.; Mravic, M.

10.1101/2025.06.25.661420 — biophysics — Posted on 2025-06-27

450 Accelerating Virtual Directed Evolution of Proteins via Reinforcement Learning

Mi, T.; Wang, Y.; Zhao, J.; Wang, W.; Shen, Y.; Xiao, N.; Chen, L.; Chen, G.-Q.; Zhang, S.; Zhang, W.-B.; Gong, H.

10.1101/2025.06.25.661516 — bioinformatics — Posted on 2025-06-27

451 PHbinder and PSGM: A Cascaded Framework for Epitope Prediction and HLA-I Allele Identification

Wang, Z.; WANG, X.; Zhai, J.; Xu, S. R.; LU, T.

10.1101/2025.06.25.661428 — bioinformatics — Posted on 2025-06-27

452 AlphaGenome: advancing regulatory variant effect prediction with a unified DNA sequence model

Avsec, Z.; Latysheva, N.; Cheng, J.; Novati, G.; Taylor, K. R.; Ward, T.; Bycroft, C.; Nicolaisen, L.; Arvaniti, E.; Pan, J.; Thomas, R.; Dutordoir, V.; Perino, M.; De, S.; Karollus, A.; Gayoso, A.; Sargeant, T.; Mottram, A.; Wong, L. H.; Drotar, P.; Kosiorek, A.; Senior, A.; Tanburn, R.; Applebaum, T.; Basu, S.; Hassabis, D.; Kohli, P.

10.1101/2025.06.25.661532 — bioinformatics — Posted on 2025-06-27

453 BioImageSuiteLite: An Interactive Open-Source Platform for Automated Detection and Analysis of Transient Events in Time-Lapse Microscopy

Dasgupta, R.; Das, K.

10.1101/2025.06.24.661279 — bioinformatics — Posted on 2025-06-27

454 A DNA Sequence Imaging Approach to Predict Splice Sites Using Deep Learning

Kabanga, E.; Jee, S.; Van Messem, A.; De Neve, W.

10.1101/2025.06.24.661415 — bioinformatics — Posted on 2025-06-27

455 MultiAlloDriver: a multi-model method to predict and identify cancer driver mutations

Song, Y.; Zhou, W.; Li, M.; Zhang, J.; Lu, S.

10.1101/2025.06.25.661496 — bioinformatics — Posted on 2025-06-27

456 Accurate variant effect estimation in FACS-based deep mutational scanning data with Lilace

Freudenberg, J.; Rao, J.; Howard, M. K.; Macdonald, C.; Greenwald, N. F.; Coyote-Maestas, W.; Pimentel, H.

10.1101/2025.06.24.661380 — bioinformatics — Posted on 2025-06-27

457 A Benchmark of Modern Statistical Phasing Methods

Beck, A. T.; Kang, H. M.; Zoellner, S.

10.1101/2025.06.24.660794 — genomics — Posted on 2025-06-27

458 Monitoring Forest Foliar Moisture Using Sentinel-2 Reflectance and Radiative Transfer Model Inversion

Kotzur, I.; Boer, M.; Yebra, M.; Moore, B. D.

10.1101/2025.06.25.661444 — ecology — Posted on 2025-06-27

459 Noninvasive reconstruction of complete mitochondrial genomes from aquatic environmental DNA using PCR-free long-read sequencing

Mizuno, H.; Tanaka, H.; Furuta, Y.; Muramoto, N.

10.1101/2025.06.24.661187 — ecology — Posted on 2025-06-27

460 Mutations within the predicted fragment-binding region of FAM83G/SACK1G abolish its interaction with the Ser/Thr kinase CK1α

Sanchez Utges, J.; Zhi Xuan, D. L.; Le Chatelier, B.; Glennie, L.; Wood, N.; Macartney, T. J.; Barton, G. J.; Sapkota, G. P.

10.1101/2025.06.25.661481 — cell biology — Posted on 2025-06-27

461 Electric fields trigger ceramide-dependent budding of exosome vesicles into multivesicular endosomes and boost the generation of exosomes

Huang, S.; Chen, L.; Sun, C.; Zhang, J.; Chen, T.; Cao, Y.; Song, Q.; Xu, X.; Zhang, J.; Tan, X.; Wu, J.; Chen, G.; Zhao, M.; Yang, J.; Zhang, Y.

10.1101/2025.06.25.661423 — cell biology — Posted on 2025-06-27

462 NLRP1 inflammasome activation in skin equivalents revealsmechanistic insights into the roles of keratinocytes in psoriasis

Di Filippo, M.; Karakaya, T.; Cheng, P.; Hennig, P.; Slaufova, M.; Boukamp, P.; Pascolo, S.; Maul, J. T.; Kolm, I.; Levesque, M.; Kuendig, T.; Beer, H.-D.

10.1101/2025.06.25.661501 — immunology — Posted on 2025-06-27

463 Reactive Oxygen Species Drive the Aberrant Immune Response to a C. neoformans Chitin Synthase 3 (chs3{triangleup}) Mutant.

Watson, R. G.; Hole, C. R.

10.1101/2025.06.24.661434 — immunology — Posted on 2025-06-27

464 IL-7 armed binary CAR T cell strategy to augment potency against solid tumors

Chavez, A. G. T.; McKenna, M. K.; Gupta, A.; Daga, N.; Vera, J.; Leen, A. M.; Bajgain, P.

10.1101/2025.06.25.661524 — immunology — Posted on 2025-06-27

465 Langerhans Cell-targeted mRNA Delivery: A Strategy for Dose-Sparing and Enhanced Anti-Tumor Immunity

Klein, K.; Johnson, L.; Rica, R.; Sarcevic, M.; Carta, G.; Seiser, S.; Elbe-Buerger, A.; Langer, L.; Rahhal, N.; Rademacher, C.; Wawrzinek, R.; Quattrone, F.; Sparber, F.

10.1101/2025.06.25.661517 — immunology — Posted on 2025-06-27

466 US6 hijacks the peptide-loading complex by trapping transporter-chaperone dynamics

Stolz, M.; Susac, L.; Fahim, A.; Keller, R.; Saggau, L.; Mancia, F.; Trowitzsch, S.; Tampe, R.

10.1101/2025.06.25.661491 — immunology — Posted on 2025-06-27

467 Isolation of Secretory Immunoglobulin A (sIgA) from nasal secretions collected in saline and Viral Transport Medium.

Bhat, R.; Surve, B.; Nadkarni, S.; Mulherkar, R.

10.1101/2025.06.26.661459 — immunology — Posted on 2025-06-27

468 Independent directional tuning of the human triceps surae muscles during standing postural control

Zaback, M.; Thompson, C. K.

10.1101/2025.06.24.660756 — neuroscience — Posted on 2025-06-27

469 BELIEFS: A Hierarchical Theory of Mind Model based on StrategyInference

Manenti, G. L.; Khoneiveh, S.; Solopchuk, O.; Glaescher, J. P.

10.1101/2025.06.25.660690 — neuroscience — Posted on 2025-06-27

470 Interoception vs. Exteroception: Cardiac interoception competes with tactile perception, yet also facilitates self-relevance encoding

Loescher, M.; Haggard, P.; Tallon-Baudry, C.

10.1101/2025.06.25.660685 — neuroscience — Posted on 2025-06-27

471 CaV1.2-dependent excitation-transcription coupling modulates nociception

Isensee, J.; Engel, P.; Chung, P. C. S.; Lin, C.-W.; Dohai, B. S. M.; Loechte, M.; Siobal, M.; Ostermann, P. N.; Dinnendahl, R.; Eberhardt, M.; Stein, I. C. A. P.; Suter, M. R.; Beleggia, F.; Lu, R.; Falter-Braun, P.; Leffler, A.; Schmidtko, A.; Hucho, T.

10.1101/2025.06.25.661480 — neuroscience — Posted on 2025-06-27

472 The CATION CALCIUM EXCHANGER 4 (CCX4) regulates LRX1-related root hair development through Ca2+ homeostasis

Hou, X.; Tortora, G.; Herger, A.; Buratti, S.; Dobrev, P. I.; Vaculikov, R.; Lacek, J.; Sotiropoulos, A. G.; Kadler, G.; Schaufelberger, M.; Candeo, A.; Bassi, A.; Wicker, T.; Costa, A.; Ringli, C.

10.1101/2025.06.25.660713 — plant biology — Posted on 2025-06-27

473 Potent Efficacy of Computer-Aided Designed Peptide Degrader Drug on PCSK9-Mediated Hypercholesterolemia

Fan, G.; Lu, J.; Tan, R.; Guo, W.; Hong, L.; Zha, J.; Tang, Z.; Yang, J.; Yu, Z.; Liu, M.

10.1101/2025.06.25.661251 — pharmacology and toxicology — Posted on 2025-06-27

474 Integrated Omics Approach to Delineate the Mechanisms of Doxorubicin-Induced Cardiotoxicity

Dabour, M. S.; Abdelgawad, I. Y.; Sadaf, B.; Daniel, M. R.; Grant, M. K. O.; Blaes, A. H.; Jacobson, P. A.; Zordoky, B. N.

10.1101/2025.06.24.661365 — pharmacology and toxicology — Posted on 2025-06-27

475 Antidiabetic effects of astaxanthin partly mediated by the inhibition of carbohydrate digestion and absorption, and in vitro DPPH and lowering lipids in high-fat-fed albino mice

Rahman, M. S.

10.1101/2025.06.24.661370 — pharmacology and toxicology — Posted on 2025-06-27

476 Harnessing Large Language Models for Structured Extraction of CYP-Substance Interactions from Biomedical Texts

Alkarmouty, M.; Ooka, J.; Yamashita, F.

10.1101/2025.06.24.661414 — pharmacology and toxicology — Posted on 2025-06-27

477 Assessment of pharmacokinetics, safety, and neuroprotective efficacy of an adjunct intramuscular verapamil therapy in a rat model of organophosphate DFP-induced status epilepticus

Paudel, Y. N.; Blair, R. E.; Hawkins, E.; Halquist, M. S.; Morgan, M.; Funderburk, J.; Calvano, D.; Koblinski, J.; Richard, H.; Deshpande, L. S.

10.1101/2025.06.25.661332 — pharmacology and toxicology — Posted on 2025-06-27

478 The glomerulus as a selective gate for tumor-derived extracellular vesicles in urine

Kawaguchi, S.; Ajiri, T.; Mitsuya, R.; Tsuchiya, R.; Kunitake, K.; Tanaka, Y.; Yokoyama, T.; Sato, K.; Sato, Y.; Zhu, Z.; Chattrairat, K.; Kobayashi, Y.; Inoue, K.; Imaeda, K.; Ueno, K.; Ryuzaki, S.; Kato, A.; Kimura, Y.; Natsume, A.; Kojima, R.; Yasui, T.

10.1101/2025.06.24.661249 — cancer biology — Posted on 2025-06-27

479 Multiscale modeling predicts dependence of mesenchymally transitioned tumor niche fitness on cell-cell and cell-matrix adhesions

Prasanna, C. V. S.; Jolly, M. K.; Bhat, R.

10.1101/2025.06.25.661486 — cancer biology — Posted on 2025-06-27

480 Electron diffraction captures high-resolution structures from in vivo protein nanocrystals of Bacillus thurigiensis

Gallagher-Jones, M.; Buecker, R.; Delaunay, Q.; Coquelle, N.; Andreeva, E.; Smith, A.; Zala, N.; Montmayeul, P.; Miller, R. J. D.; Kim, J. S.; Kirkland, A. I.; Colletier, J.-P.

10.1101/2025.06.24.661318 — biophysics — Posted on 2025-06-27

481 In Vivo Tensor-Valued Diffusion MRI Reveals Isotropic-Anisotropic Kurtosis Mismatch in a Rat MCAO Stroke Model

Liang, M.; Yuan, J.; Tang, C.; Wang, P.; GU, T.; Deng, Z.-Y.; Sun, W.; Yang, X.; Tang, Y.; Li, Y.; He, Y.

10.1101/2025.06.23.661205 — biophysics — Posted on 2025-06-27

482 Growth Mechanics and the emergence of metabolic oscillations in growing cells

Dourado, H.; Kuate, C. A. F.; Liebermeister, W.; Lercher, M. J.

10.1101/2025.06.24.661369 — biophysics — Posted on 2025-06-27

483 Phosphoglycerate Kinase Can Adopt a Topologically Misfolded Form that is More Stable than its Native State

Xia, Y.; Amann, B.; Gillilan, R. E.; Sharma, P.; Sen, S.; Fleming, K. G.; Fried, S. D.

10.1101/2025.06.24.661412 — biophysics — Posted on 2025-06-27

484 Hollow condensates emerge from gelation-induced spinodal decomposition

Li, C.; Meng, L.; Tong, Y.; Lin, J.; Qi, Z.

10.1101/2025.06.25.661497 — biophysics — Posted on 2025-06-27

485 Does mechanobiology drive respiratory disease? Biomechanical induction of mucus hypersecretion in human bronchial organoids using a photocontrolled biomaterial gel

Uwagboe, I.; Mumby, S.; Dunlop, I. E.; Adcock, I. M.

10.1101/2025.06.26.661061 — biophysics — Posted on 2025-06-27

486 Better data for better predictions: data curation improves deep learning for sgRNA/Cas9 prediction

Browne, T. S.; Edgell, D. R.; Gloor, G. B.

10.1101/2025.06.24.661356 — bioinformatics — Posted on 2025-06-27

487 SHADE: A Multilevel Bayesian Approach to Modeling Directional Spatial Associations in Tissues

Eliason, J.; Peruzzi, M.; Rao, A.

10.1101/2025.06.24.661393 — bioinformatics — Posted on 2025-06-27

488 codonGPT: Reinforcement learning on a generative language model optimizes RNA sequences under biological constraints

Rajbanshi, B.; Guruacharya, A.

10.1101/2025.06.25.661500 — bioinformatics — Posted on 2025-06-27

489 TX2P: A Proteogenomic Tool for Comprehensive Transcript Analysis

Murphy, D.; Wood, N. W.; Ryten, M.; Gustavsson, E. K.

10.1101/2025.06.24.661260 — bioinformatics — Posted on 2025-06-27

490 Quantifying distribution shifts in single-cell data with scXMatch

Moeller, A.; Schnitzerlein, M.; Greto, E.; Zaburdaev, V.; Uderhardt, S.; Blumenthal, D. B.

10.1101/2025.06.25.661473 — bioinformatics — Posted on 2025-06-27

491 Bimodal masked language modeling for bulk RNA-seq and DNA methylation representation learning

Gelard, M.; Benkirane, H.; Pierrot, T.; Richard, G.; Cournede, P.-H.

10.1101/2025.06.25.661237 — bioinformatics — Posted on 2025-06-27

492 Functionalizing hydrogel nanovials with vesicles mimicking antigen-presenting vesicles and cancer exosomes improves T cell capture and activation

Olson, B. A.; Mellody, M. P.; Soemardy, C.; Mao, Z.; Mei, A.; Lippert, K.; Hoffmann, M. A. G.; Di Carlo, D.; Mayo, S. L.

10.1101/2025.06.24.661128 — bioengineering — Posted on 2025-06-27

493 Visualising joint force-velocity properties in musculoskeletal models

Richards, C.; Murtola, T.

10.1101/2025.06.24.660703 — bioengineering — Posted on 2025-06-27

494 Development and In Vivo Evaluation of a Novel Bioabsorbable Polylactic Acid Middle Ear Ventilation Tube

Lu, Y.-C.; Chang, C.-C.; Teng, P.-T.; Wu, C.-H.; Wu, H.-H.; Lin, C.-J.; Chan, Y.-H.; Wu, C.-C.

10.1101/2025.06.25.661110 — bioengineering — Posted on 2025-06-27

495 Label-Free Mapping of Subcellular Dynamics using Wide-field Interferometric Scattering Microscopy and Spectral Exponent Analysis

Anyi, C. L.; You, H.; Li, H.; Goh, K. L.; Ling, T.

10.1101/2025.06.23.661093 — bioengineering — Posted on 2025-06-27

496 Rieske Iron-Sulfur Cluster Proteins from an Anaerobic Ammonium Oxidizer Suggest Unusual Energetics in their Parent Rieske/cytochrome b complexes

Hauser, D.; Sode, M.; Andreeva, E. A.; Barends, T. R. M.

10.1101/2025.06.25.661457 — biochemistry — Posted on 2025-06-27

497 Single cell mass spectrometry reveals intercellular compartmentalization of camptothecin biosynthesis in the tree Camptotheca acuminata

Bui, H. V.; Vu, A. H.; Buell, C. R.; Li, C.; Caputi, L.; Dang, T.-T. T.

10.1101/2025.06.24.661346 — biochemistry — Posted on 2025-06-27

498 Deep and Quantitative Proteomic Profiling of Low Volume Mouse Serum Across the Lifespan

Dey, A. K.; Olinger, B.; Boroumand, M.; Fernandez, M. E.; SLAM investigators, ; Camandola, S.; Price, N. L.; de Cabo, R.; Basisty, N.

10.1101/2025.06.24.661372 — biochemistry — Posted on 2025-06-27

499 Association of iridescence and tails with flight proxies suggests that predation drives convergence in skipper butterflies

Linke, D.; Debat, V.; Matos-Maravi, P.

10.1101/2025.06.23.661062 — evolutionary biology — Posted on 2025-06-27

500 The adaptive molecular landscape of reprogrammed telomeric sequences

D'Angiolo, M.; Barre, B. P.; Khaiwal, S.; Muenzner, J.; Hallin, J.; De Chiara, M.; Tellini, N.; Warringer, J.; Ralser, M.; Gilson, E.; Liti, G.

10.1101/2025.06.24.661269 — evolutionary biology — Posted on 2025-06-27

501 Migrating in a warming world: A deep learning approach to predict pan-American seasonal shifts in the monarch butterfly niche

Vanalli, C.; Zbinden, R.; van Tiel, N.; Tuia, D.

10.1101/2025.06.25.661455 — ecology — Posted on 2025-06-27

502 A microfluidic gradient and parallel-track system uncovers spatial control of endocytosis and adhesion formation in breast cancer cell migration

Chan, E. T.; Jones, T. H.; Thompson, C. M.; Kannan, H.; D'Souza, M. W.; Ali, M. M.; Kural, C.; Song, J. W.

10.1101/2025.06.24.661139 — cell biology — Posted on 2025-06-27

503 Integrated Spatial Analysis of Ovarian Precancerous Lesions

Chang, T.-Y.; Chien, Y.-W.; Chen, S.-H.; Sokolow, A.; Wang, Y.; Wang, B. G.; Numan, T.; Chui, M. H.; Stone, R.; Pisanic, T.; Papadopoulos, N.; Wang, T.-L.; Douville, C.; Cope, L.; Shih, I.-M.

10.1101/2025.06.24.661327 — molecular biology — Posted on 2025-06-27

504 Histone acetylation by SAGA Complex but not by NuA4 Complex is Required for filamentation programme in Candida albicans

Nagar, P.; Teli, B. B.; Dinesh, D.; Natarajan, K.

10.1101/2025.06.24.661151 — molecular biology — Posted on 2025-06-27

505 Therapeutic targeting of oligodendrocytes in an agent-based model of multiple sclerosis

Weatherley, G. R.; Araujo, R. P.; Dando, S. J.; Jenner, A. L.

10.1101/2025.06.26.661705 — immunology — Posted on 2025-06-27

506 Effects of Calreticulin Mutations on HLA Class I Expression in Myeloproliferative Neoplasms

KAUR, A.; Desikan, H.; Pagnucco, G.; Kandarpa, M.; Talpaz, M.; Raghavan, M.

10.1101/2025.06.24.661416 — immunology — Posted on 2025-06-27

507 Genital herpes shedding episodes associate with alterations in the spatial organization and activation of mucosal immune cells

MacLean, F.; Zemek, R. M.; Tsegaye, A. T.; Graham, J. B.; Swarts, J. L.; Vick, S. C.; Potchen, N. B.; Talavera, I. C.; Warrier, L.; Dubrulle, J.; Schroeder, L. K.; Elz, A.; Sowerby, D.; Saito, A.; Thomas, K. K.; Mack, M.; Schiffer, J.; McClelland, R. S.; Jerome, K. R.; Chohan, B. H.; Ngure, K.; Mugo, N. R.; Newell, E. W.; Lingappa, J. R.; Lund, J. M.

10.1101/2025.06.24.661157 — immunology — Posted on 2025-06-27

508 The Ventral Tectal Longitudinal Column: A Midbrain Nucleus for Modulation of Auditory Processing in the Cochlear Nucleus, Superior Olivary Complex and Inferior Colliculus

Schofield, B. R.; Noftz, W. A.; Herrera, Y. N.; Roberts, M. T.

10.1101/2025.06.24.661350 — neuroscience — Posted on 2025-06-27

509 Systematic computational assessment of atrial function impairment due to fibrotic remodeling in electromechanical properties

Telle, A.; Kassar, A.; Chamoun, N.; Haykal, R.; Gonzalo, A.; Hensley, T.; Chahine, Y.; Flores, O.; del Alamo, J. C.; Akoum, N.; Augustin, C. M.; Boyle, P.

10.1101/2025.06.24.661244 — systems biology — Posted on 2025-06-27

510 Modeling Bistable Dynamics Arising from Macrophage-Tumor Interactions in the Tumor Microenvironment

Ryu, H.; Roblitz, S.; Larripa, K.; Frank, A.-S.

10.1101/2025.06.24.661275 — systems biology — Posted on 2025-06-27

511 Self-driven Biological Discovery through Automated Hypothesis Generation and Experimental Validation

Brunnsaker, D.; Gower, A. H.; Naval, P.; Bjurström, E. Y.; Kronström, F.; Tiukova, I. A.; King, R. D.

10.1101/2025.06.24.661378 — systems biology — Posted on 2025-06-27

512 Phased epigenetic fragility and stability accelerate the genetic evolution of B-cells

Xiang, M. Y.; Narayanan, H. V.; Kesarwani, V.; Wang, T.; Hoffmann, A.

10.1101/2025.06.24.661408 — systems biology — Posted on 2025-06-27

513 Translational landscape during Seed Germination at Sub-Codon resolution

Bai, B.; Qi, r.; Song, W.; Nijveen, H.; Bentsink, L.

10.1101/2025.06.24.661055 — plant biology — Posted on 2025-06-27

514 Tryptophanol, a novel auxin analog found in marine diatoms, enhances nitrogen assimilation

Zhao, D.-S.; Wang, S.; Xu, Y.-C.; Chen, Y.-T.; Farooq, M. A.; Lin, S.; Cao, P.; Li, J.; Hu, Z.-W.; Li, N.; Scarsini, M.; Si, C.; Li, S.-M.; Yan, X.; Pang, Q.; Bowler, C.; Zou, H.-X.

10.1101/2025.06.24.661426 — plant biology — Posted on 2025-06-27

515 Spatial Coordination between Leaf Gradient and Temperature Response in Barley

Fernandez, E. C.; Tu, G.; Dai, W.; Yang, S.; Liu, Z.; Grzybowski, M.; Liang, Z.

10.1101/2025.06.24.661333 — plant biology — Posted on 2025-06-27

516 Flow-sensitive HEG1 controls eNOS activity to prevent endothelial dysfunction, hypertension, and atherosclerosis

Clark, M. D.; Kim, Y.; Romero, C. A.; Kang, D. W.; Baek, K. I.; Song, E. J.; Kellum, C. E.; Bowman-Kirigin, J. A.; Park, C.; Vapoor, V.; Pollock, J. S.; Jo, H.

10.1101/2025.06.24.660441 — physiology — Posted on 2025-06-27

517 The microbial tryptophan metabolite indole acts on the gastrointestinal tract to improve glucose homeostasis by enhancing GLP-1 secretion and L-cell differentiation

Phuah, P.; Norton, M.; Cheng, S.; Roberts, A.; Meyer, L.; Chung, P.-E.; Dunsterville, C.; Karwowski, R.; Lam, B. Y.; Otsubo, E.; Aleksashina, S.; Gribble, F. M.; Reimann, F.; Hanyaloglu, A. C.; Yeo, G. S. H.; Bewick, G. A.; Jones, B.; Owen, B.; Murphy, K. G.

10.1101/2025.06.24.661421 — physiology — Posted on 2025-06-27

518 Molecular mechanisms of 10-Butyl Ether Minocycline (BEM), a novel non-antibiotic tetracycline, as a potential treatment for inflammatory and neuroimmune-related disorders.

Shaik, A. A.; Panthagani, P.; Liu, X.; Navarro-Turk, S.; Garza, J.; Aguilera, M.; Sanchez, J.; Gupta, K.; Hamood, A.; Reid, T. W.; Blough, B.; Pauli, E.; Bailoo, J. D.; Bergeson, S. E.

10.1101/2025.06.23.661183 — pharmacology and toxicology — Posted on 2025-06-27

519 Shotgun metagenomic analysis of the oral microbiomes of children with noma reveals a novel disease-associated organism

Olaleye, M.; O'Ferrall, A. M.; Goodman, R. N.; Kabila, D. W.; Peters, M.; Falq, G.; Samuel, J.; Doyle, D.; Gomez, D.; Oloruntuyi, G.; Isah, S.; Adetunji, A. S.; Farley, E. N.; Evans, N. J.; Sherlock, M.; Roberts, A. P.; Amirtharajah, M.; Ainsworth, S.

10.1101/2025.06.24.661267 — pathology — Posted on 2025-06-27

520 Taste receptors' profiling in glioblastoma

Costa, A. R.; Duarte, A. C.; Goncalves, I.; Ferreira, C. L.; Cavaco, J. E.; Ferrer, I.; Furihata, T.; Marcelino, H.; Cascalheira, J. F.; Santos, C. R. A.

10.1101/2025.06.24.661264 — cancer biology — Posted on 2025-06-27

521 Serum albumin coated stellate mesoporous silica nanocomposites inhibit metastatic outgrowth in zebrafish embryos

Asokan, N.; Mittelheisser, V.; Jablonski, A.; Adam, A.; Bizeau, J.; Harlepp, S.; Hyenne, V.; Lefebvre, O.; Goetz, J.; Tasso, M.; Mertz, D.

10.1101/2025.06.24.661256 — cancer biology — Posted on 2025-06-27

522 Protein Folding accompanied by disulfide bond formation drives glutenin polymerization into multidimensional gluten networks

Xie, B.; Fu, J.; Gao, J.; Li, Y.; Liang, Z.; Thirumalai, D.; Yang, D.

10.1101/2025.06.23.661211 — biophysics — Posted on 2025-06-27

523 EF-G Mutations Reveal Correlation between Power Stroke and Translocation Fidelity in Protein Synthesis

Chen, Y.; Steele, J. H.; Xu, S.; Wang, Y.

10.1101/2025.06.24.661293 — biophysics — Posted on 2025-06-27

524 Structure-specific Mini-Prion Model for Alzheimer's Disease Tau Fibrils

Vijayan, V.; Merz, G. E.; Tsay, K.; Longhini, A. P.; Lobo, S.; Quddus, A.; Nakagawa, K. L. S.; Vigers, M. P.; Melo, A. A.; Tse, E.; Shea, J. E.; Shell, M. S.; Kosik, K. S.; Southworth, D. R.; Han, S.

10.1101/2025.06.23.661111 — biophysics — Posted on 2025-06-27

525 Curcumin Conjugated Carbon Quantum Dots: A Theranostic Probe to Study BSA Interaction, Cellular Imaging, and RICS-Based Intracellular Transport

Upadhyaya, A. K.; Sasmal, D. K.

10.1101/2025.06.24.661223 — biophysics — Posted on 2025-06-27

526 Cytoplasmic Fluidity and the Cold Life: Proteome Stability is Decoupled from Viability in Psychrophiles

Paciaroni, A.

10.1101/2025.06.24.661299 — biophysics — Posted on 2025-06-27

527 A mechanistic model for dynamics between CAR T cells and target cells captures features that determine killing profiles

Selvarajan, S.; Scrudders, K. L.; Rodriguez-Lopez, K.; Zheng, S.; Huang, B.; Low, P. S.; Pasupathy, R.; Low-Nam, S. T.

10.1101/2025.06.24.661290 — biophysics — Posted on 2025-06-27

528 Cleanifier: A fast and lightweight k-mer based tool to remove contamination in microbial sequence data

Zentgraf, J.; Schmitz, J. E.; Rahmann, S.

10.1101/2025.06.24.661305 — bioinformatics — Posted on 2025-06-27

529 A Clarifying Perspective on Bacterial Pseudo-Receiver Domains

Bourret, R. B.; Kennedy, E. N.; Tamayo, R.; Foster, C. A.

10.1101/2025.06.23.661182 — bioinformatics — Posted on 2025-06-27

530 Integrated analysis of crosslink-ligation data for the detection of RNA 2D/3D structures and interactions in vivo.

Lee, W. H.; Zhang, M.; Lu, Z.

10.1101/2025.06.24.661343 — bioinformatics — Posted on 2025-06-27

531 Optimization of denoising and filtering parameters of DADA2 for QIIME2 amplicon metagenomics data analysis

Goutam, M.; Wahengbam, R.

10.1101/2025.06.24.661437 — bioinformatics — Posted on 2025-06-27

532 Solid Ionic Matrices applied via Low-Temperature Evaporation enable High-Resolution and Sensitive MALDI Imaging of Metabolites

Mahamdi, T.; Molto, N.; Arasa, M.; Gine, R.; Rofes, J.; Garcia-Altares, M.; Vinaixa, M.; Yanes, O.

10.1101/2025.06.23.661081 — bioengineering — Posted on 2025-06-27

533 Single-Cell Microwave Cytometry for Drug Resistance Detection in Cancer

Tefek, U.; Alhmoud, H. Z.; Chau, T.-L.; Salehin, S.; Yalcin, G. D.; Saatci, O.; Ulukan, B.; Auerbach, S.; Puka, B.; Acar, A.; Goktuna, S. I.; Chachoua, I.; Sahin, O.; Hanay, M. S.

10.1101/2025.06.24.661288 — bioengineering — Posted on 2025-06-27

534 Cross-species proteomics quantification pipeline distinguishes donor versus host extracellular matrix in explanted biomaterials

Cahalane, R. M.; Meuris, B.; Matamalas, J. T.; Blaser, M. C.; Billaud, M.; Kasai, T.; Hendrickx, A.; Goeminne, L. J.; Muehlschlegel, J.; Rega, F.; Aikawa, M.; McNamara, L.; Singh, S. A.; Clift, C. L.; Aikawa, E.

10.1101/2025.06.24.661315 — bioengineering — Posted on 2025-06-27

535 Donor Age Impairs Vasculogenic Potential of hiPSC-Derived Endothelial Progenitors

Larsen, B.; Callahan, C.; Rayanki, A.; Faulkner, S.; Zoldan, J.

10.1101/2025.06.24.661422 — bioengineering — Posted on 2025-06-27

536 Coil and flow diverting stents as drug delivery platforms for cerebral aneurysm treatment

Thompson, J. W.; Suon, J.; Knott, M. V.; Corsaletti, G.; Hamad, N.; Hanna, J.; Rodrigues, P. B.; Sanikommu, S.; Hernandez-Cuervo, H.; Haniff, R.; Hataoka, S.; Chen, S. H.; Abdelsalam, A.; Toledo, J.; Eatz, T.; Bhattacharya, S. K.; Hare, J. M.; Toborek, M.; Vazquez-Padron, R. I.; Burks, J. D.; Luther, E. M.; Starke, R. M.

10.1101/2025.06.24.661344 — bioengineering — Posted on 2025-06-27

537 Halogen bonds between ligands and proteins: can we use them in validation?

de Vries, I.; Tsiompanaki, G.; Perrakis, A.; Joosten, R. P.

10.1101/2025.06.24.661284 — biochemistry — Posted on 2025-06-27

538 Structure-Guided Discovery and Characterization of Novel FLT3 Inhibitors for Acute Myeloid Leukemia Treatment

Budha, B.; Basu Choudhury, G.; Hossain, M. S.; Acharya, A.

10.1101/2025.06.26.661886 — biochemistry — Posted on 2025-06-27

539 Neural Connectome of the Ctenophore Statocyst

Jokura, K.; Jasek, S.; Niederhaus, L.; Burkhardt, P.; Jekely, G.

10.1101/2025.06.26.661250 — animal behavior and cognition — Posted on 2025-06-27

540 Beyond benchmarking: an expert-guided consensus approach to spatially aware clustering

Sun, J.; Biharie, K.; Cai, P.; Mueller-Boetticher, N.; Kiessling, P.; Turner, M. A.; Helweg Dam, S.; Heyl, F.; Kathirchelvan, S.; Emons, M.; Gunz, S.; Twardziok, S.; El-Heliebi, A.; Zacharias, M.; SpaceHack 2.0 participants, ; Reinders, M.; Eils, R.; Gottardo, R.; Kuppe, C.; Long, B.; Mahfouz, A.; Robinson, M. D.; Ishaque, N.

10.1101/2025.06.23.660861 — genomics — Posted on 2025-06-27

541 Improving Multi-Trait Genomic Prediction Efficiency Through The Incorporation Of Synthetic Traits Selected Based on Co-heritability

Upadhyay, A.; Azam, R.; Yuan, M.; Ivanovic, S.; Ferguson, J. N.; Paul, R. E.; Koyejo, O.; El-Kebir, M.; Lipka, A. E.; Leakey, A. D.; Fernandes, S. B.

10.1101/2025.06.23.661178 — genetics — Posted on 2025-06-27

542 Characterization of heat shock protein expression and its application to temporal gene expression in the nematode Pristionchus pacificus

Ishita, Y.; Hiraga, H.; Chihara, T.; Okumura, M.

10.1101/2025.06.24.661439 — genetics — Posted on 2025-06-27

543 Evolutionary trade-offs between functional and immune selection shape multigene families in pathogens

Zhan, Q.; Pascual, M.; He, Q.

10.1101/2025.06.24.661038 — evolutionary biology — Posted on 2025-06-27

544 Surveillance of zoonotic pathogens in small mammals across a gradient of forest anthropization in Eastern France

Bouilloud, M.; galan, m.; bordes, a.; tatard, c.; gauthier, p.; pradel, j.; alburkat, h.; dutra, l.; sironen, t.; galon, c.; moutailler, s.; djelouadji, z.; roche, b.; charbonnel, n.

10.1101/2025.06.23.661073 — ecology — Posted on 2025-06-27

545 Generalist flowers recover rapidly in grassland restoration: The importance of floral traits in community reassembly

Hirayama, G. S.; Ishii, H. S.; Ueno, T. W.; Kenta, T.; Ushimaru, A.

10.1101/2025.06.24.661246 — ecology — Posted on 2025-06-27

546 monitoraSom: an easy path from Soundscapes to Ecology

Rosa, G. L. M.; Zurano, J. P.; Torres, I. M. D.; Simoes, C. R.; dos Anjos, L.; de Araujo, C. B.

10.1101/2025.06.23.661148 — ecology — Posted on 2025-06-27

547 5-azacytosine induces cytotoxicity via 5-methylcytosine depletion on chromatin-associated RNA in leukemia

Gao, B.; Li, Y.; Zhao, L.; Zou, Z.; Ma, X.; Hong, J.; Xiang, J.; Dou, X.; Yang, F.-C.; Xu, M.; He, C.

10.1101/2025.06.24.661348 — molecular biology — Posted on 2025-06-27

548 Generation of virtual populations for quantitative systems pharmacology through advanced sampling methods

Schirru, M.; Brier, T.; Petit, M.; Zugaj, D.; Tremblay, P.-O.; Nekka, F.

10.1101/2025.06.24.661262 — systems biology — Posted on 2025-06-27

549 A Palearctic divide, niche conservatism and host-fungal endophyte interactions shaped the phylogeography of the grass Brachypodium sylvaticum

Decena Rodriguez, M. d. l. A.; Campos, M.; Calderon Pardo, D.; Shiposha, V.; Olonova, M.; Perez-Collazos, E.; Catalan, P.

10.1101/2025.06.24.661274 — plant biology — Posted on 2025-06-27

550 Evaluation of the nano Liquid Chromatography coupled with Zeno TOF 7600 Mass Spectrometer for Cell Type-Resolved Spatial Proteomics

Zhang, K.; Wang, X.; He, W.; Wang, J.; He, A.; Zheng, B.; Li, Y.; Xu, R.; Gao, W.; Lam, H. H. N.; Tian, R.

10.1101/2025.06.23.660827 — cancer biology — Posted on 2025-06-27

551 scHDeepInsight: A Hierarchical Deep Learning Framework for Precise Immune Cell Annotation in Single-Cell RNA-seq Data

JIA, S.; Lysenko, A.; Boroevich, K. A.; Sharma, A.; Tsunoda, T.

10.1101/2025.06.23.661045 — bioinformatics — Posted on 2025-06-27

552 Comparative performance of reference-based metagenomic tools to identify species-level taxa among families of bacteria: benchmarking Mycobacteriaceae and Neisseriaceae

Harrison, L. B.; Ahmed, J. O.; Veyrier, F. J.

10.1101/2025.06.23.661092 — bioinformatics — Posted on 2025-06-27

553 Polymorphisms, Solvent Accessibility, and Evolutionary Conservation of Influenza A Virus PB1 Protein

Lian, D.; Lian, J.; Dong, Q.

10.1101/2025.06.23.661066 — bioinformatics — Posted on 2025-06-27

554 Tests for segregation distortion in higher ploidy F1 populations

Gerard, D. C.; Ambrosano, G. B.; Pereira, G. d. S.; Garcia, A. A. F.

10.1101/2025.06.23.661114 — bioinformatics — Posted on 2025-06-27

555 Evaluation of Multiplexed Liquid Glycan Array (LiGA) for Serological Detection of Glycan-binding Antibodies

Reddy, R.; Carpenter, E. J.; Halpin, A.; Sojitra, M.; Peng, C.; Lima, G. M.; Xue, X.; Yan, K.; Pearcy, J.; Ellis, M.; Motyka, B.; Lowary, T. L.; West, L. J.; Derda, R.

10.1101/2025.06.23.660925 — biochemistry — Posted on 2025-06-27

556 Future Range Shifts and Diversity Patterns of Antarctic Lecideoid Lichens Under Climate Change Scenarios

Goetz, A. M.; Andreev, M.; Junker, R. R.; Maislinger, L.; Sancho, L. G.; Trutschnig, W.; Ruprecht, U.

10.1101/2025.06.23.661079 — ecology — Posted on 2025-06-27

557 An evaluation of longitudinal Anopheles stephensi egg viability and resistance to desiccation over time

Leite, L.; Samake, J. N.; Tadesse, F. G.; Irish, S. R.; Dotson, E. M.; Zohdy, S.

10.1101/2025.06.23.661102 — ecology — Posted on 2025-06-27

558 The microbial fingerprint: fine-scale environmental, genetic, and temporal factors drive the reef metagenome during coral spawning

Scott, C. B.; Nixon, E. N.; Huzar, A. K.; Matz, M. V.

10.1101/2025.06.23.661127 — ecology — Posted on 2025-06-27

559 Temporal assessment of fire severity: a case study in Brazilian savannas

DA COSTA, C. F.; Cunha, C. S.; Pereira, M. J. V. d. C. R.

10.1101/2025.06.23.661159 — ecology — Posted on 2025-06-27

560 Reptilian hunchbacks: a systematic review and meta-analysis of spinal deformities in wild reptiles.

Horvath, G.

10.1101/2025.06.23.661054 — ecology — Posted on 2025-06-27

561 Quantitative analysis of proteomic changes in monoclonal MDCK cell lines infected with human influenza A virus

Küchler, J.; Zinnecker, T.; Hellwig, P.; Wolf, M.; Benndorf, D.; Genzel, Y.; Reichl, U.

10.1101/2025.06.25.661656 — molecular biology — Posted on 2025-06-27

562 Male-Biased Cyp17a2 Governs Antiviral Sexual Dimorphism in Fish via STING Stabilization and Viral Protein Degradation

Lu, L.-F.; Cui, B.-j.; Shi, S.-C.; Wang, Y.-Y.; Zhang, C.; Xu, X.; Tian, M.-Z.; Li, Z.-Q.; Xu, N.; Li, Z.-C.; Chen, D.-D.; Zhou, L.; Zhai, G.; Yin, Z.; Li, S.

10.1101/2025.06.23.661124 — immunology — Posted on 2025-06-27

563 Differences in immune cell profiles around the time of islet autoimmunity seroconversion in children with and without type 1 diabetes

Hohsfield, K. R.; Carry, P. M.; Slack, S. D.; Repaci, C. T.; Vanderlinden, L. A.; Kechris, K.; Rewers, M.; Norris, J. M.; Johnson, R. K.

10.1101/2025.06.23.661117 — immunology — Posted on 2025-06-27

564 Morphology-Aware Profiling of Highly Multiplexed Tissue Images using Variational Autoencoders

Baker, G. J.; Novikov, E.; Coy, S.; Chen, Y.-A.; Hug, C. B.; Ahmed, Z.; Ordonez, S. A. C.; Huang, S.; Yapp, C.; Sokolov, A.; Pfister, H.; Santagata, S.; Sorger, P. K.

10.1101/2025.06.23.661064 — pathology — Posted on 2025-06-27

565 Accurate Prediction of ecDNA in Interphase Cancer Cells using Deep Neural Networks

Rajkumar, U.; Prasad, G.; Curtis, E. J.; Wong, I. T.-L.; Yan, X.; Zhang, S.; Brückner, L.; Turner, K.; Wiese, J.; Wahl, J.; Wu, S.; Theissen, J.; Fischer, M.; Chang, H. Y.; Henssen, A. G.; Mischel, P. S.; Bafna, V.

10.1101/2025.06.23.661188 — cancer biology — Posted on 2025-06-27

566 Transcriptomic Profiles from Normal and Tumor Tissue Samples Reveal Distinct Venule Populations and Novel Tumor Endothelial Cell Markers in Breast Cancer

Phoenix, K. N.; Singh, V.; Murphy, P.; Claffey, K. P.

10.1101/2025.06.23.661087 — cancer biology — Posted on 2025-06-27

567 Tracking biological hallucinations in single-cell perturbation predictions using scArchon, a comprehensive benchmarking platform

RADIG, J.; Droit, R.; Doncevic, D. I.; Li, A.; Bui, D. T.; Kuehn, T.; Herfurth, L.; Herrmann, C.

10.1101/2025.06.23.661046 — bioinformatics — Posted on 2025-06-27

568 Beyond Visual Inspection: Principled Benchmarking of Single-Cell Trajectory Representations with scTRAM

Inecik, K.; Rose, A.; Haniffa, M.; Luecken, M.; Theis, F. J.

10.1101/2025.06.23.661141 — bioinformatics — Posted on 2025-06-27

569 De Novo Structure-Based Design of TEM-171 β-Lactamase Protein Inhibitors Using Integrated Deep Learning and Multi-Scale Simulations to Combat Bacterial Resistance

Potluri, K. R.

10.1101/2025.06.23.661177 — bioinformatics — Posted on 2025-06-27

570 Benchmarking microRNA Target Prediction Algorithms Using Single-Cell Co-Sequencing Data

Velut, L.; Fancello, L.; CHERRADI, N.; Guyon, L.

10.1101/2025.06.23.661076 — bioinformatics — Posted on 2025-06-27

571 The Challenge of Choosing a Negative Control: A Behavioural and Morphological Characterization of Various unc-43 LOF Alleles in the Model Organism C. elegans

Liang, J. J.; Sood, A.; Khanna, G.; Rankin, C. H.

10.1101/2025.06.26.661804 — genetics — Posted on 2025-06-27

572 Long-term ex ovo culture of Caenorhabditis elegans embryos

Stubbert, C. A.; Soe, C.; Shah, P. K.

10.1101/2025.06.26.661779 — cell biology — Posted on 2025-06-27

573 Improving Cardiac Resilience to Ischemia/Reperfusion: The Role of Butyrate in Mitochondrial and Metabolic Recovery

Ruidas, B.; Michaud, W. A.; Lindner, S. R.; Osho, A. A.; Tessier, S. N.; Rabi, S. A.

10.1101/2025.06.23.661163 — cell biology — Posted on 2025-06-27

574 N-Cadherin/α-Catenin Drive Adhesion and Actin Regulation to Orchestrate Tunneling Nanotube Formation

Zurzolo, C.; Belian, S.; Pepe, A.; Notario Manzano, R.; Sartori-Rupp, A.; Brou, C.

10.1101/2025.06.27.661900 — cell biology — Posted on 2025-06-27

575 Substrate binding and channeling allosterically modulate the interactions within the AlkB-AlkG electron transfer complex

Mikulska-Ruminska, K.; Licht, M.; Ertem, M. Z.; Shanklin, J.; Liu, Q.; Bahar, I.

10.1101/2025.06.23.661152 — molecular biology — Posted on 2025-06-27

576 IL-6 is a Key Factor in the Formation of Gut Tissue Resident Memory T Cells from Naïve T cells

Kim, H.; Chan, A.; Sinmanus, V.; Girard, A.; Jiang, A.; Wertz, S.; Hwang, I.-Y.; Kehrl, J.; Schmeisser, H.; Seemiller, M.; Lusso, P.; Huang, D.; Wei, D.; Goes, L.; Soares, M.; Martinelli, E.; Arthos, J.; Cicala, C.

10.1101/2025.06.23.660664 — immunology — Posted on 2025-06-27

577 Endoglucanase-2 (Eng2), a conserved immunodominant antigen in dimorphic fungi that elicits immunity and resistance during infection

Okaa, U. J.; Taira, C. L.; dos Santos Dias, L.; Dobson, H.; Kujoth, G.; Campuzano, A.; Homan, J.; Thompson, G.; Hung, C. Y.; Deepe, G.; Wuethrich, M.; Klein, B. S.

10.1101/2025.06.23.661097 — immunology — Posted on 2025-06-27

578 Antibiotic-induced microbiota depletion impairs the pro-regenerative response to a biological scaffold in mice

Rutkowski, N. N.; Yang, B.; Gray-Gaillard, E.; Ruta, A.; Mejias, J. C.; Patatanian, M.; Cherry, C.; Stivers, K. B.; Ramanujam, S.; Price, N. L.; Housseau, F.; Pardoll, D. M.; Sears, C. L.; Elisseeff, J.

10.1101/2025.06.23.661121 — immunology — Posted on 2025-06-27

579 Epithelial tumor cells utilize mast cell-derived histamine to regulate perineural invasion

Srivastava, A.; Bencomo, T.; Lee, C.-N.; Mah, A.; Garcia, J.; Seow, L. W.; Donohue, I. M.; Tan, A. J.; Nguyen, A.; Jiang, T.; Gombar, S.; Phu, L.; Dwivedi, P.; Rose, C. M.; Brown, R.; Lee, C. S.

10.1101/2025.06.23.661147 — cancer biology — Posted on 2025-06-27

580 Dose-dependent, opioid-induced sleep disruption is partially mediated by motor activity but not by body temperature in C57BL/6J mice

Zebadua Unzaga, D.; Cooper, N. W.; Olson, C. E.; Zhu, X.; O'Neil, M. A.; Price, J. M.; Lydic, R.; Baghdoyan, H. A.

10.1101/2025.06.22.660933 — pharmacology and toxicology — Posted on 2025-06-27

581 Evolutionary implications of stipule occurrence in Permo-Carboniferous wetland forests dominated by Psaroniaceae

Zhou, W.; Sun, W.; Wang, T.; Li, D.; Psenicka, J.; Hill, C.; Boyce, C. K.; Wang, J.

10.1101/2025.06.23.661009 — paleontology — Posted on 2025-06-27

582 Tracing colorectal malignancy transformation from cell to tissue scale

Crowell, H. L.; Ruano, I.; Hu, Z.; Hong, Y.; Caratu, G.; Piessevaux, H.; Heck, A.; Liu, R.; Walter, M.; Vandenberg, M.; Young, K.; McGuire, D.; Metzger, E.; Hoang, M. L.; Beechem, J. M.; Tejpar, S.; Pascual-Reguant, A.; Heyn, H.

10.1101/2025.06.23.660674 — cancer biology — Posted on 2025-06-27

583 Cross-talk between RNA secondary and three-dimensional structure prediction: a comprehensive study

Wang, D.; Jiang, Y.; He, L.; Zhang, L.; Zhou, R.; Zhang, D.

10.1101/2025.06.23.661015 — biophysics — Posted on 2025-06-27

584 Modifying meiotic recombination by targeting chromatin modifiers to crossover hotspots in Arabidopsis

Dziegielewski, W.; Szymanska-Lejman, M.; Wilhelm, A.; Hus, K.; Ziolkowski, P. A.

10.1101/2025.06.23.661042 — genetics — Posted on 2025-06-27

585 The end of the American dream: a hard to Swallow reality - How the Barn Swallow (Hirundo rustica) returned from America, a complete mtDNA phylogeny

Lombardo, G.; Gallo, G. R.; De Benedictis, A.; Cavallini, M.; Formenti, G.; Ambrosini, R.; Gianfranceschi, L.; Binelli, G.

10.1101/2025.06.23.661004 — evolutionary biology — Posted on 2025-06-27

586 Loss of cell-autonomously secreted laminin-α2 drives muscle stem cell dysfunction in LAMA2-related muscular dystrophy

McGowan, T. J.; Reinhard, J. R.; Lewerenz, N.; Białobrzeska, M.; Lin, S.; Stepniewski, J.; Szade, K.; Dulak, J.; Rüegg, M. A.

10.1101/2025.06.23.660989 — molecular biology — Posted on 2025-06-27

587 Selecting methods for draft GEM generation in multicellular eukaryotes: a comparative analysis

Jimenez, N.; Espinoza, M.; Mejias, S.; Mendoza, S.; Segovia, I.; Salgado, J. C.; Conca, C.; Gerdtzen, Z. P.

10.1101/2025.06.23.661012 — systems biology — Posted on 2025-06-27

588 Linker Histones Enhance Robustness in Diurnal Transcription Dynamics.

Rutowicz, K.; Perseus, L.; Schmid, M. W.; Schubert, J.; Pazmino Zoerner, D.; Bieluszewski, T.; Kotlinski, M.; Randall, R. S.; Ziolkowski, P.; jerzmanowski, a.; Bourbousse, C.; Barneche, F.; Baroux, C.

10.1101/2025.06.26.661703 — plant biology — Posted on 2025-06-27

589 Computational Design of Next-Gen Peptide Biopesticides: Targeting the Nicotinic Acetylcholine Receptor in Rice Pests Class

Chen, X.; Zhou, H.; He, X.; Wang, J.

10.1101/2025.06.25.661460 — plant biology — Posted on 2025-06-27

590 Disentangling the interplay between cell-cell and cell-matrix interactions in cancer cell migration

Braat, Q. J. S.; Beslmüller, K.; Storm, C.; Danen, E.; Janssen, L. M. C.

10.1101/2025.06.23.660988 — biophysics — Posted on 2025-06-27

591 Accurate highly variable gene selection using RECODE in scRNA-seq data analysis

Imoto, Y.

10.1101/2025.06.23.661026 — bioinformatics — Posted on 2025-06-27

592 MDSvis, a Shiny application for interactive visualisation of Multi Dimensional Scaling projections

Hauchamps, P.; Vicini, A.; Gatto, L.

10.1101/2025.06.23.660991 — bioinformatics — Posted on 2025-06-27

593 Software for semi-automatic analysis of microscopic images of adhesion structures and protein colocalization in cells

Hajduk, J.; Twardawa, P.; Rajfur, Z.

10.1101/2025.06.23.661040 — bioinformatics — Posted on 2025-06-27

594 Widespread epistasis shapes RNA Polymerase II active site function and evolution

Duan, B.; Qiu, C.; Sze, S.-H.; Kaplan, C. D.

10.1101/2023.02.27.530048 — genetics — Posted on 2025-06-27

595 Rare sex but a long life sustain seaweed populations at the warm edge of their range

Vranken, S.; Steen, F.; D'hondt, S.; Verlaque, M.; Rodriguez-Prieto, C.; Viera, C.; Thibaut, T.; Bogaert, K.; De Clerck, O.

10.1101/2025.06.23.660995 — ecology — Posted on 2025-06-27

596 Assessing the Effectiveness of 3D-Printed Ceramic Structures for Coral Restoration: Growth, Survivorship, and Biodiversity Using Visual Surveys and eDNA

Yu, V.; Corley, A.; McIlroy, S.; Wong, J.; Wan, Z. W.; Lau, H.; Baker, D. M.

10.1101/2025.06.23.660499 — ecology — Posted on 2025-06-27

597 Phenology underlies apparent urbanisation effects on avian malaria in juvenile songbirds

Dominoni, D. M.; Albalawi, B. F. A.; Mladenova, M.; Helm, B.; Baldini, F.

10.1101/2025.06.23.661047 — ecology — Posted on 2025-06-27

598 Molecular signature of human endometrial stem/progenitor cells at the single cell level

Fitzgerald, H. C.; Mortlock, S.; Filby, C. E.; Cousins, F. L.; Marquez-Garcia, E.; Wyatt, K. A.; McKinnon, B.; Rombauts, L.; Tsaltas, J.; Montgomery, G. W.; Gargett, C. E.

10.1101/2025.06.23.660982 — molecular biology — Posted on 2025-06-27

599 TDP-43 pathology induces CD8+ T cell activation through cryptic epitope recognition

Chizari, S.; Zanovello, M.; Kong, S.; Saigal, V.; Brown, A.-L.; Turchetti, V.; Zampedri, L.; Skorupinska, I.; Minicuci, G. M.; Paron, F.; Tonin, P.; Marchetto, G.; Li, Z.; Colon-Mercado, J.; Dattilo, D.; Barattucci, S.; Gatt, A.; Qi, Y.; Hanna, M.; Ward, M.; Petrucelli, L.; Romano, M.; Vattemi, G.; Buratti, E.; Malaspina, A.; Merve, A.; Machado, P.; Soraru, G.; Fratta, P.; Jiang, N.

10.1101/2025.06.22.660773 — immunology — Posted on 2025-06-27

600 Faithful Modeling of Terminal CD8 T Cell Dysfunction and Epigenetic Stabilization In Vitro

Yousif, A.; Saadey, A. A.; Lowin, A.; Yousif, A. M.; Saini, A.; Allison, M. R.; Ptak, K.; Oltz, E. M.; Ghoneim, H. E.

10.1101/2025.06.22.660847 — immunology — Posted on 2025-06-27

601 DRP1 depletion protects NK cells against hypoxia-induced dysfunction

10.1101/2025.06.23.661011 — immunology — Posted on 2025-06-27

602 Dissection of the microRNA transcriptomes of CD4+ T cell subsets in autoimmune inflammation identifies novel regulators of disease pathogenesis

Cunha, C.; Romero, P. V.; Inacio, D.; Pais, A. T.; Pelicano, C.; Costa, M.; Mensurado, S.; Sousa, N. G.; Papotto, P. H.; Neves, D.; Sobral, D.; Enguita, F.; Silva-Santos, B.; Gomes, A. Q.

10.1101/2025.06.23.661017 — immunology — Posted on 2025-06-27

603 Modeling the Growth of Emotional and General Vocabulary Using Nonlinear Trajectories

Formoso, J.; Calero, A. D.; Burin, D. I.; Vazquez, P.

10.1101/2025.06.24.661340 — neuroscience — Posted on 2025-06-27

604 Brain-wide arousal signals are segregated from movement planning in the superior colliculus

Johnson, R.; Smith, M. A.

10.1101/2024.04.26.591284 — neuroscience — Posted on 2025-06-27

605 Changes in the Anopheles arabiensis transcriptome and gut microbiota profiles associated with Microsporidia MB

Waweru, J. W.; Mulder, N.; King'ori, C. N.; Muiruri, I. N.; Alakonya, M. M.; Makhulu, E. E.; Mbaisi, L.; Gichuhi, J.; Masiga, D.; Herren, J. K.

10.1101/2025.06.23.661020 — systems biology — Posted on 2025-06-27

606 An allelic resolution gene atlas for tetraploid potato provides insights into tuberization and stress resilience

Brose, J.; Martin, D.; Wang, Y.-W.; Wood, J. C.; Vaillancourt, B.; Hamilton, J. P.; Buell, C. R.

10.1101/2025.06.26.661617 — plant biology — Posted on 2025-06-27

607 PyamilySeq: Exposing the fragility of conventional gene (re)clustering and pangenomic inference methods

Dimonaco, N. J.

10.1101/2025.05.30.657108 — bioinformatics — Posted on 2025-06-27

608 Structure-guided design and development of cyclic peptide allosteric activators of Polycomb Repressive Complex 2

Tokodai, Y.; Matyas, M.; Ishigamori, A.; O'Connnor, E.; Zhang, A.; Yamazaki, S.; Hiraki, T.; Lohar, N.; Yao, L.; Stoner, R.; Paez-Beltran, L. E.; Kanamitsu, K.; Nakaya, N.; Ichikawa, S.; Brumbaugh, J.; Kasinath, V.; Yakushiji, F.

10.1101/2025.06.26.661818 — biochemistry — Posted on 2025-06-27

609 Humans share acoustic preferences with other animals

James, L. S.; Woolley, S. C.; Sakata, J. T.; Hilton, C. B.; Ryan, M. J.; Mehr, S. A.

10.1101/2025.06.26.661759 — animal behavior and cognition — Posted on 2025-06-27

610 Uncertainty in blacklisting potential Pacific plant invaders using species distribution models

Holle, V.; Rönnfeldt, A.; Schifferle, K.; Cabral, J. S.; Craven, D.; Knight, T.; Seebens, H.; Weigelt, P.; Zurell, D.

10.1101/2024.12.11.627501 — ecology — Posted on 2025-06-27

611 Post-translational modifications of microtubules are crucial for malaria parasite transmission

Atchou, K.; Roques, M.; Rehmann, R.; Caldelari, R.; Schmid, M.; Grossi, S.; Berger, B. M.; Ochsenreiter, T.; Frischknecht, F.; Heussler, V.

10.1101/2025.06.26.661843 — cell biology — Posted on 2025-06-27

612 High-salinity sporulation in Bacillus subtilis results in coat dependant enhanced resistance to both wet heat and hydrogen peroxide.

Freire, V.; Orera, I.; Condon, S.

10.1101/2025.06.24.660303 — microbiology — Posted on 2025-06-27

613 SynaptopathyDB: a resource for studying the genetic and synaptic basis of nervous system disorders

Sorokina, O.; Dominic, D.; Bayes, A.; Armstrong, J. D.; Grant, S. G. N.

10.1101/2025.06.27.661932 — neuroscience — Posted on 2025-06-27

614 Dopamine receptor 1 specific CRISPRa mice exhibit disrupted behaviors and striatal baseline cellular activity

Campbell, R. R.; Green, M.; Choi, E. Y.; Wulff, A. B.; Siclair, A. N.; Khatri, S.; Virata, G.; Barrett, C.; Key, S.; Patel, S.; Rowell, M. B.; Franco, D.; Ganapathy-Kanniappan, S.; Mathur, B. N.; Lobo, M. K.

10.1101/2025.06.26.661721 — neuroscience — Posted on 2025-06-27

615 Primary and secondary auditory cortex connectivity with brain regions involved in cognitive and emotional processing: in mouse and human

Kose-Ozkan, B.; Ozkan, M.; Gunes, Y. C.; Algin, O.; Cavdar, S.

10.1101/2025.06.26.661219 — neuroscience — Posted on 2025-06-27

616 Prioritizing replay when future goals are unknown

Sagiv, Y.; Akam, T.; Witten, I.; Daw, N. D.

10.1101/2024.02.29.582822 — neuroscience — Posted on 2025-06-27

617 Competing Programs Shape Cortical Sensorimotor-Association Axis Development

Tsyporin, J.; Zhang, M.; Qi, C.; Segal, A.; Finn, T.; Kim, H.; Choi, S.-H.; Li, X.; Bandiera, S.; Pavlovic, I.; Kim, S. K. K.; Shibata, A.; Onishi, K.; Zhang, Z.; Hammarlund, E.; Su, G.; Salla, N.; Kachko, J.; Hawley, C.; Li, S.; Doyle, D. Z.; Peng, X.; Nottoli, T.; Ruiz-Reig, N.; Tissir, F.; Nakagawa, Y.; Herzog, E.; Ma, S.; Gobeske, K.; Pattabiraman, K.; Shimogori, T.; Duque, A.; Fornito, A.; Huang, H.; Shibata, M.; Chen, B.; Sestan, N.

10.1101/2025.06.26.660775 — neuroscience — Posted on 2025-06-27

618 Task engagement differentially drives hippocampal and neocortical neural codes

Ortiz, C.; Allegra, M.; Schmidt-Hieber, C.

10.1101/2025.06.26.661816 — neuroscience — Posted on 2025-06-27

619 An increased excitation and inhibition onto CA1 pyramidal cells sets the path to Alzheimer's disease

Wehrle, P. H.; Rathwell, T. J.; Petroccione, M. A.; Caiazza, E.; Manning, A. K.; Frasson dos Reis, L.; Todd, G. C.; Affinnih, N.; Ahmad, S.; Mehdi, H.; Tschang, I.; Hassan, U.; Tsakh, B. R.; Lauffer, M. C.; Rosenberg, P. A.; Darvas, M.; Cook, D. G.; Scimemi, A.

10.1101/2025.05.27.656417 — neuroscience — Posted on 2025-06-27

620 A selective top-down pathway from anterior cingulate cortex embeds a representation of saliency in hippocampus

Li, Y.; Mizuta, K.; Middleton, S. J.; Hayashi, Y.

10.1101/2025.06.26.661852 — neuroscience — Posted on 2025-06-27

621 Mechanistic origins of temperature scaling in the early embryonic cell cycle

Rombouts, J.; Tavella, F.; Vandervelde, A.; Phong, C.; Ferrell, J.; Yang, Q.; Gelens, L.

10.1101/2024.12.24.630245 — systems biology — Posted on 2025-06-27

622 Untargeted metabolomics reveals farming practice- and cultivar-driven modulations of pea (Pisum sativum L.) seed metabolome

Kakhkhorov, S. A.; Engelsen, S. B.; Laursen, K. H.; Khakimov, B.

10.1101/2025.06.23.661072 — plant biology — Posted on 2025-06-27

623 Mitochondrial ATP-Sensitive K+ Channels (MitoKATP) Regulate Brown Adipocyte Differentiation and Metabolism

Pereira, O. R.; Serna, J. D. C.; Caldeira da Silva, C. C.; Camara, H.; Kodani, S. D.; Festuccia, W. T.; Tseng, Y.-H.; Kowaltowski, A. J.

10.1101/2025.01.21.634060 — physiology — Posted on 2025-06-27

624 Sensitizing Immune-Refractory Ovarian Tumors via p53 Mutation-Tailored Immunotherapy

Chatterjee, R.; Simoni-Nieves, A.; Truong, A.; Lindzen, M.; Ozmen, F.; Cherry, C.; Zwicky, P.; Mukherjee, S.; Selvadurai, B.-R.; Salame, T. M.; Gupta, N.; Giri, S.; Kramarski, L.; Avraham, Y.; Weizman, E.; Ozmen, T.; Noronha, A.; Chakrabarti, P.; Ramesh-Kumar, D.; Downward, J.; Dahan, R.; Amit, I.; Velculescu, V.; Brenton, J.; Mills, G.; Oren, M.; Yarden, Y.

10.1101/2025.06.23.661120 — cancer biology — Posted on 2025-06-27

625 GhostBuster: A Deep-Learning-based, Literature-Unbiased Gene Prioritization Tool for Gene Annotation Prediction

Deangeli, G.; Spillantini, M. G.; Lio, P.

10.1101/2025.06.22.660948 — bioinformatics — Posted on 2025-06-27

626 AllerStack: Predicting Allergenic Proteins with a Stacked Ensemble Approach

Sharma, H.; Goel, M.; Sahu, D.; Sayed, M. A.; Mangla, P.; Shekhawat, P.; Yadav, S.; Bagler, G.

10.1101/2025.06.22.660976 — bioinformatics — Posted on 2025-06-27

627 VISIBLE: An imaging-driven system for sampling, biofabrication, and manipulation of complex biological models

Joshi, S.; Moreno-Gonzalez, C.; Suklai, P.; Carraro, E.; Ratcliffe, C. D. H.; Boezio, G. L. M.; Konstantinou, G.; Cano-Ferrer, X.; Hagemann, C.; Kavanagh, T.; Ameer-Beg, S.; Imbert, A.; Sahai, E.; Tedesco, F. S.; Serio, A.

10.1101/2025.06.12.659321 — bioengineering — Posted on 2025-06-27

628 A polygon model of the functional base-of-support during standing improves the accuracy of balance analysis

Millard, M.; Sloot, L. H.

10.1101/2025.05.13.653782 — bioengineering — Posted on 2025-06-27

629 Poison exon splicing in the human brain: a new frontier for understanding and targeting neurological disorders

Pigini, P.; Xu, H.; Ji, Y.; Lindmeier, H.; Saltzman, H. R.; Yun, S.; Alves, C. R. R.; Silva, M. C.; Gao, D.; Morini, E.

10.1101/2025.06.26.661736 — genetics — Posted on 2025-06-27

630 Informative priors contribute to quantifying the occurrence rate of a rare tree-related microhabitat in a managed forest

Cottais, P.; Courbaud, B.; Gouix, N.; Larrieu, L.; Laroche, F.

10.1101/2024.11.28.625900 — ecology — Posted on 2025-06-27

631 Mechanisms of mitochondrial reactive oxygen species action in bone mesenchymal cells

Ali, M. M.; Nookaew, I.; Resende-Coelho, A.; Marques-Carvalho, A.; Warren, A.; Fu, Q.; Kim, H.-N.; OBrien, C. A.; Almeida, M.

10.1101/2025.03.24.643319 — cell biology — Posted on 2025-06-27

632 Histone diversity in the archaeal domain of life

Laursen, S. p.; Luger, K.

10.1101/2025.06.26.661778 — microbiology — Posted on 2025-06-27

633 The human claustrum initiates networks for externally and internally driven task demands.

Stewart, B. W.; Cormie, M. A.; Keaser, M. L.; Moayedi, M.; Mathur, B. N.; Seminowicz, D. A.

10.1101/2025.06.26.661853 — neuroscience — Posted on 2025-06-27

634 Frontal β bursts segregate into rhythmically distinct regimes that differentiate cognitive states

Langford, Z. D.; Procyk, E.; Wilson, C. R.

10.1101/2023.11.13.566594 — neuroscience — Posted on 2025-06-27

635 Distinct sex differences in the production of steroids and neuropeptides in the adult zebrafish brain-pituitary gonadal axis

Peng, D.; Lu, C.; Trudeau, V. L.

10.1101/2025.06.22.660951 — physiology — Posted on 2025-06-27

636 The constitutive oncogenic and signaling activities of phospha-tidylinositol 3-kinase (PI3K) isoforms p110β and p110δ

Ito, Y.; Pavlickova, P.; Levy, C. S.; Kang, S.; Hart, J. R.; Ueno, L.; Vogt, P. K.

10.1101/2025.06.26.659600 — cancer biology — Posted on 2025-06-26

637 Dietary nitrate and nitrite protect against doxorubicin-induced cardiac fibrosis and oxidative protein damage in tumor-bearing mice

Yammani, R. D.; Chem, X.; Cruz-Diaz, N.; Zhu, X.; Basu, S.; Kim-Shapiro, D.; Soto-Pantoja, D. R.; Poole, L. B.

10.1101/2025.06.22.660942 — cancer biology — Posted on 2025-06-27

638 Epithelial state-transitions permit inflammation-induced tumorigenesis.

Jarman, E. J.; Martinez Lyons, A.; Yao, Y.; Rozyczko, A.; Waddell, S. H.; Gradinaru, A.; Olaizola, P.; Davies, K.; Guest, R. V.; Roessler, S.; Kendall, T. J.; Sansom, O.; Khamseh, A.; Boulter, L.

10.1101/2025.06.22.660911 — cancer biology — Posted on 2025-06-27

639 Functional genomics and tumor microenvironment analysis reveal prognostic biological subtypes in Mantle cell lymphoma

Sharma, S.; Ali, R.; Bouska, A.; Jochum, D.; Kesireddy, M.; Mahov, S.; Lownik, J.; Zhang, W.; Lone, W.; Soma, M. A.; Gamboa, A.; Devarkonda, V.; Elgamal, D.; Fariha, A.; Mansoor, A.; Stewart, D.; Martin, P.; Link, B. K.; Advani, R. H.; Barr, P. M.; Goy, A. H.; Mehta, A.; Kamdar, M.; Stephens, D. M.; Bachanova, V.; Smith, L.; Morin, R.; Pararajalingam, P.; Lunning, M. A.; Fu, K.; Wiesenberger, D.; Chan, W. C.; Khoury, J.; Greiner, T. C.; Vose, J. M.; Merchant, A.; Bi, C.; Iqbal, J.

10.1101/2025.06.25.661613 — cancer biology — Posted on 2025-06-27

640 The nuclear-cytoplasmic ratio controls the cell cycle period in compartmentalized frog egg extract

Pineros, L.; Frolov, N.; Ruiz-Reynes, D.; Van Eynde, A.; Cavin-Meza, G. J.; Heald, R.; Gelens, L.

10.1101/2024.07.28.605512 — biophysics — Posted on 2025-06-27

641 Bioinformatic Mining of Novel Lipopeptides Enabled by Daptomycin Cs Domain and Structural Modeling

Zhu, H.

10.1101/2025.06.21.660876 — bioinformatics — Posted on 2025-06-26

642 L1 GABAergic neurones in the frontal cortex and L6 glutamatergic neurones in the prefrontal cortex use RHO GTPase to differentiate between unconsciousness states

Taguchi, Y.-h.; Turki, T.

10.1101/2025.06.21.660840 — bioinformatics — Posted on 2025-06-26

643 Identifying Optimal Machine Learning Approaches for Microbiome-Metabolomics Integration with Stable Feature Selection

Palmer, S. N.; Mishra, A. A.; Gan, S.; Liu, D.; Koh, A.; Zhan, X.

10.1101/2025.06.21.660858 — bioinformatics — Posted on 2025-06-26

644 CATHe2: Enhanced CATH Superfamily Detection Using ProstT5 and Structural Alphabets

Mouret, O.; Abbass, J.

10.1101/2025.06.22.660903 — bioinformatics — Posted on 2025-06-26

645 Using Artificial Intelligence to Assess Cross-Species Transmission Potential of Influenza A Virus

Yang, J.; Fang, P.; Liang, J.; Chen, Y.; Yang, L.; Zhu, W.; Shi, M.; Du, X.; Pu, J.; Wang, D.; Xue, G.; Li, Z.; Shu, Y.

10.1101/2025.06.17.660059 — bioinformatics — Posted on 2025-06-27

646 Proteomizer: Leveraging the Transcriptome-Proteome Mismatch to Infer Novel Gene Regulatory Relations

Deangeli, G.; Spillantini, M. G.; Lio, P.

10.1101/2025.06.22.660946 — bioinformatics — Posted on 2025-06-27

647 RC-GNN: A predictive model of enzyme-reaction pairs

Pate, S. C.; Wang, E. H.; Broadbelt, L. J.; Tyo, K. E.

10.1101/2025.06.22.660952 — bioinformatics — Posted on 2025-06-27

648 GlyContact reveals structure-function relationships in glycans

Thomes, L.; Joeres, R.; Akdeniz, Z.; Bojar, D.

10.1101/2025.06.22.660912 — bioinformatics — Posted on 2025-06-27

649 PlasRAG: comprehensive plasmid characterization and retrieval through sequence-text alignment

Ji, Y.; Liao, H.; Guan, J.; Shang, J.; Sun, Y.

10.1101/2025.06.22.660968 — bioinformatics — Posted on 2025-06-27

650 Accelerating ligand discovery by combining Bayesian optimization with MMGBSA-based binding affinity calculations

Andersen, L.; Rausch-Dupont, M.; Martinez Leon, A.; Volkamer, A.; Hub, J.; Klakow, D.

10.1101/2025.06.22.660936 — bioinformatics — Posted on 2025-06-27

651 Biofeedback speeds adaptation to exoskeleton gait assistance

Lakmazaheri, A.; Collins, S. H.

10.1101/2025.06.21.660857 — bioengineering — Posted on 2025-06-26

652 Mitochondrial Genome Variants and Nuclear Mitochondrial DNA Segments in 7331 Individuals from NyuWa and 1KGP

Wang, Y.; Wang, J.; Li, Y.; Zhang, P.; Wang, Z.; Liu, S.; Niu, Y.; Shi, Y.; Zhang, S.; Song, T.; Xu, T.; He, S.

10.1101/2025.06.21.660892 — genomics — Posted on 2025-06-26

653 Genomic analysis uncovers unique haplotype signatures from subspecies and agronomic types associated with blanchability in groundnut

Shah, P.; Gangurde, S. S.; Abbai, R.; Senthil, R.; Mohinuddin, D. K.; Sharma, M.; Singam, P.; Singh, K.; Janila, P.; Zhao, C.; Bera, S. K.; Yuan, M.; Wang, X.; Varshney, R. K.; Pandey, M. K.

10.1101/2025.06.21.660844 — genomics — Posted on 2025-06-26

654 Agropyron cristatum genome provides a new insight for wheat improvement with wild relatives

Zhou, S.; Yang, W.; Han, H.; Zhou, P.; Guo, B.; Zhang, J.; Han, B.; Liang, X.; Lin, Y.; Deng, Y.; Liu, B.; Yang, X.; Lu, Y.; Zhang, J.; Yang, P.; Yi, K.; Xu, Y.; Liu, Z.; Stein, N.; He, Q.; Ling, H.-Q.; Li, L.

10.1101/2025.06.24.660289 — genomics — Posted on 2025-06-26

655 Chromosomal-level genome of the Pinus massoniana 'Minlin WY36'

Sun, W.-H.; Zhang, F.; Zhao, X.; Li, Z.; Liu, K.-W.; Wu, S.; Guo, Y.; Hu, X.; Zeng, M.; Wang, L.; Zhou, C.-Y.; Chen, D.; Zheng, R.; Wu, X.; Peng, D.-H.; Ma, L.; Wang, Z.-W.; Lan, W.; Chen, H.; Zou, S.; Tsai, W.-C.; Van de Peer, Y.; Liu, Z.-J.; Lan, S.

10.1101/2025.06.23.660646 — genomics — Posted on 2025-06-26

656 Development of Rosaceae Crop-Specific Nanopore Models for Community Use Through the Genome Database for Rosaceae

Gottschalk, C.; Burchard, E.; Whitt, L.; Vann, C.; Dardick, C.; Jung, S.; Main, D.; Waite, J. M.; Honaas, L.; Harkess, A.

10.1101/2025.06.23.660393 — genomics — Posted on 2025-06-26

657 k-mer spectra and allelic coverage analyses reveal pervasive polymorphic duplications in Ostrea edulis

Colston-Nepali, L.; Bierne, N.; Lapegue, S.

10.1101/2025.06.24.661118 — genomics — Posted on 2025-06-26

658 Neural Network-Enhanced Investigation of Ferroptosis and Druggability in Early-Onset Alzheimers Disease

Singh, P.; Rath, S. L.

10.1101/2025.06.21.660896 — genomics — Posted on 2025-06-26

659 Red-wine gene networks associated with exceptional longevity in humans

Lacayo, P.; Martignoni, A.; Park, K.; Castro, C.; Murakami, S.

10.1101/2025.06.21.660865 — genomics — Posted on 2025-06-27

660 Cotranslational assembly confers specificity for in vivo target heterodimerization of paralogous H2B-like TAF12 proteins in the human fungal pathogen Candida albicans

Bhardwaj, V.; Swanson, S.; Florens, L.; Washburn, M. P.; Workman, J. L.; Natarajan, K.

10.1101/2025.06.23.660276 — genetics — Posted on 2025-06-26

661 The genetic consequences of dispersal and immigration in a wild great tit population

Estandia, A.; Merino Recalde, N.; Slate, J.; Sheldon, B. C.

10.1101/2025.06.26.660565 — evolutionary biology — Posted on 2025-06-26

662 Coiling in gastropods: a lead to synthesis

Filin, I.

10.1101/2025.06.24.659690 — evolutionary biology — Posted on 2025-06-26

663 Differential fates of vertebrate Kazald gene quartet, from ancestral roles in skeletogenesis and regeneration to putative innovations in fish and birds

Keeley, S. D.; Aires, R.; Medina, B. A. C.; Arenas-Gomez, C. M.; Lopez-Delgado, A. C.; Delgado, J. P.; Knopf, F.; Kuraku, S.; Sandoval-Guzman, T.

10.1101/2025.06.21.660714 — evolutionary biology — Posted on 2025-06-26

664 Gene loss associated with plasticity-first evolution in Heliconius butterflies

Pinheiro de Castro, E. C.; Cicconardi, F.; Warren, I. A.; Rueda-M, N.; Salazar, C.; Bak, S.; Montgomery, S. H.; Jiggins, C. D.

10.1101/2025.06.22.660914 — evolutionary biology — Posted on 2025-06-26

665 Expansion of chromosome F heterochromatin in parthenogenetic Drosophila mercatorum

Sperling, A. L.; Fabian, D. K.; Glover, D. M.

10.1101/2025.06.22.660940 — evolutionary biology — Posted on 2025-06-27

666 A Unified Theory and Bayesian Framework for Phenological Inference from Biocollection Data: Resolving Paradoxes by Considering Phenophase Duration

Hearn, D. J.; Caetano, D. S.

10.1101/2025.06.20.660820 — ecology — Posted on 2025-06-26

667 Ports of Entry: Tracking Marine Invaders in Portuguese Mari-nas with DNA Metabarcoding from Coast to Archipelagos

Lavrador, A. S.; Afonso, I.; Chainho, P.; Costa, A. C.; Medeiros, J. P.; Parente, M. I.; Parretti, P.; Ramalhosa, P.; Sousa, R.; Vieira, P. E.; Costa, F. O.; Duarte, S.

10.1101/2025.06.23.660658 — ecology — Posted on 2025-06-26

668 Decoding cryptic diversity of moss populations in a forest-tundra ecotone

Escolastico-Ortiz, D. A.; Derome, N.; Villarreal, J. C.

10.1101/2025.06.25.660410 — ecology — Posted on 2025-06-26

669 Farmed cricket performance remains stable over five generations of rearing on a waste-based diet

Kasdorf, S. Y.; Bertram, S. M.; MacMillan, H. A.

10.1101/2025.06.24.660593 — ecology — Posted on 2025-06-26

670 Ecology of Echinodermata in the Clarion-Clipperton-Fracture Zone (Central Pacific)

Stratmann, T.; Simon-Lledo, E.; van der Meer, M. T. J.; Christodoulou, M.; Rossel, S.; Colaco, A.

10.1101/2025.06.22.660910 — ecology — Posted on 2025-06-27

671 New niches for larger phytoplankton in a warmer, more resource-limited ocean

Leles, S. G.; Breithaupt, L.; Krinos, A.; Alexander, H.; Moeller, H. V.; Flanjak, L.; Laufkoetter, C.; Litchman, E.; Aranguren-Gassis, M.; Levine, N. M.

10.1101/2025.06.22.660956 — ecology — Posted on 2025-06-27

672 Early outcomes of England's new biodiversity offset market

Duffus, N. E.; zu Ermgassen, S. O. S. E.; Grenyer, R.; Lewis, O. T.

10.1101/2025.06.22.660961 — ecology — Posted on 2025-06-27

673 TFAP2A+ embryonic progenitor cells undergo fate diversification to give rise to human amnion, germline, and mesoderm

Arabpour, A.; DiRusso, J. A.; Wu, Q. Y.; Larsen, M.; Hwang, Y. S.; Jacobson, E.; Pham, T. X. A.; Agranonik, N.; Sparrow, M.; Monteiro, V. L.; Bian, Z. R.; Pelaez-Restrepo, N.; Callejas-Marin, A.; Pasque, V.; Plath, K.; Clark, A.

10.1101/2025.06.26.661839 — developmental biology — Posted on 2025-06-27

674 Drug Repurposing Screen Identifies an HRI Activating Compound that Promotes Adaptive Mitochondrial Remodeling in MFN2-deficient Cells

Bora, P.; Zaman, M.; Oviedo, S.; Kutseikin, S.; Madrazo, N.; Mathur, P.; Pannikkat, M.; Krasny, S.; Chu, A.; JOhnson, K. A.; Grotjahn, D.; SHUTT, T.; Wiseman, L.

10.1101/2025.06.23.660251 — cell biology — Posted on 2025-06-26

675 Glycosylation of Plasmodium falciparum TRAP is essential for infection of mosquito salivary glands.

Gupta, P.; Rezakhani, N.; Pazzagli, L.; Patel, H.; Zanghi, G.; Kamil, M.; Watson, A.; Vigdorovich, V.; Camargo, N.; Knutson, E.; Sather, D. N.; Vaughan, A. M.; Swearingen, K. E.

10.1101/2025.06.26.658380 — cell biology — Posted on 2025-06-26

676 Molecular Basis and Cellular Effects of Janus-Class-Driven Cytoplasmic PYK2 Coacervates

Colombo, G.; Salem, I.; Szczepski, K.; Yu, P.; Alfaiyz, S.; Guzman-Vega, F. J.; Abogosh, A.; Kulmanov, M.; AlHarthi, S.; Kadare, G.; Hoehndorf, R.; Girault, J.-A.; Jaremko, L.; Momin, A. A.; Arold, S. T.

10.1101/2025.06.24.661287 — cell biology — Posted on 2025-06-27

677 Taurine Transporter SLC6A6 Expression Promotes Mesenchymal Stromal Cell Function

Kaszuba, C. M.; Sharma, S.; Rodems, B. J.; Baker, C. D.; Schacht, P.; Ito, T.; Jerrald, K. P.; Yu, C.; Franco, E. I.; Quarato, E. R.; Chaves, F. A.; Liesveld, J. L.; Calvi, L. M.; Awad, H. A.; Eliseev, R. A.; Bajaj, J.

10.1101/2025.06.24.661367 — cell biology — Posted on 2025-06-27

678 Harnessing fusion of genome-edited human stem cells to rapidly screen for novel protein functions in vivo

Smith, S. L.; Iwamoto, Y.; Manimaran, A.; Drubin, D. G.

10.1101/2025.06.25.661608 — cell biology — Posted on 2025-06-27

679 TRIM32 controls timely cell cycle exit in muscular differentiation through c-Myc down-regulation

Xiong, L.; Lazzari, E.; Pacor, S.; Dal Monego, S.; Piovesan, E.; Licastro, D.; Meroni, G.

10.1101/2025.06.25.661523 — cell biology — Posted on 2025-06-27

680 A cell-based scrambling assay reveals phospholipid headgroup preference of TMEM16F on the plasma membrane

Teo, C. F.; Tuomivaara, S. T.; van Hilten, N.; Crottes, D.; Jan, Y. N.; Grabe, M.; Jan, L. Y.

10.1101/2025.06.25.661602 — cell biology — Posted on 2025-06-27

681 Post-translational modifications of microtubules are crucial for malaria parasite transmission

Atchou, K.; Roques, M.; Rehmann, R.; Caldelari, R.; Schmid, M.; Grossi, S.; Berger, B. M.; Ochsenreiter, T.; Frischknecht, F.; Heussler, V.

10.1101/2025.06.26.661843 — cell biology — Posted on 2025-06-27

682 Mechanosensitive localization of Diversin highlights its function in vertebrate morphogenesis and planar cell polarity

Velayudhan, S. S.; Chu, C.-W.; Itoh, K.; Sokol, S.

10.1101/2025.06.24.661316 — cell biology — Posted on 2025-06-27

683 Centriole biogenesis is seeded by CEP152-CEP63-PCNT aggregates propagating outside the centriole through the Alstrom syndrome protein ALMS1

Ozaki, K.; Chang, T.-J. B.; Yang, W.-Q.; Shulman, A.; Izquierdo, D.; Jane, W.-N.; Wang, W.-J.; Stearns, T.; Luders, J.; Yang, T. T.; Tsou, M.-F. B.

10.1101/2025.06.26.661604 — cell biology — Posted on 2025-06-27

684 Molecular Regulation and Physiological Role of 1 GOLPH3-mediated Golgi retention

Theodoropoulou, A.; Nasrallah, A.; Abriata, L. A.; Abrami, L.; Talotta, F.; Marcaida, M. J.; Anwar, M. U.; Kovac, O.; Vakhrushev, S. Y.; Calleja, A.; Ho, S.; Asaro, A.; Mesquita, F. S.; Alieh, L.; Gehin, C.; Bracq, L.; Kaysudu, I.; Gorsek, N.; Vacle, S.; Samurkas, A.; Prunotto, A.; Machala, M.; Naveiras, O.; Ter-Borch Gram Schjoldager, K.; van der Goot, F. G.; Dal Peraro, M.; D'Angelo, G.

10.1101/2025.06.26.661665 — cell biology — Posted on 2025-06-27

685 A census of hidden and discoverable microbial diversity beyond genome-centric approaches

Prasoodanan P K, V.; Maistrenko, O. M.; Fullam, A.; Mende, D. R.; Kartal, E.; Coelho, L. P.; Spang, A.; Bork, P.; Schmidt, T. S. B.

10.1101/2025.06.26.661807 — microbiology — Posted on 2025-06-26

686 TL1A-activated T cells remodel the rectal mucosa in Crohn's disease patients with perianal fistulizing disease

Gudino, V.; Cho, J. W.; Caballol, B.; Corraliza, A. M.; Veny, M.; Dotti, I.; Genaro, L.; Sanzo-Machuca, A.; Melon-Ardanaz, E.; Masamunt, M. C.; Esteller, M.; Teubel, I.; Robbins, L.; Giner, A.; Prieto, C.; Ferrer, E.; Franco-Leal, R.; Martin-Cardona, A.; Loras, C.; Esteve, M.; Rimola, J.; Fernandez-Clotet, A.; Ordas, I.; Ricart, E.; Panes, J.; Hemberg, M.; Salas, A.

10.1101/2025.06.26.657455 — immunology — Posted on 2025-06-26

687 ERb limits T cell-mediated inflammation to maintain immune homeostasis

McNeer, S. K.; Broncano, A. V.; Stark, S. M.; Schlessman, C. M.; Raymond, M. L.; Tran, W. B.; Kocinski, A. D.; Ziats, N. P.; Goodman, W. A.

10.1101/2025.06.21.660869 — immunology — Posted on 2025-06-26

688 Synaptotagmin 1 and Synaptotagmin 7 promote MR1-mediated presentation of Mycobacterium tuberculosis antigens

Kim, S.-J.; Peterson, J. C.; Olive, A. J.; Tafesse, F. G.; Kulicke, C. A.; Karamooz, E.; Lewinsohn, D. M.

10.1101/2025.06.23.660389 — immunology — Posted on 2025-06-26

689 Interference between flexible and adaptive reaching control

Doyen, A.; Lefevre, P.; Crevecoeur, F.

10.1101/2025.06.23.660708 — neuroscience — Posted on 2025-06-26

690 Charting the single cell transcriptional landscape governing visual imprinting.

Lagani, V.; Chitadze, L.; Gonzalez Alvarez, A. C.; Bokuchava, T.; Sansone, G.; Bokuchava, V.; Tsverava, L.; Jones, A.; Lisgo, S.; Martinez De Morentin, X.; Lehmann, R.; Tegner, J.; Ali Ibrahim, L.; McCabe, B. J.; Khuchua, Z.; Gomez Cabrero, D.; Solomonia, R.

10.1101/2025.06.23.660422 — neuroscience — Posted on 2025-06-26

691 NLRP3 inhibition maintains microglia architecture and enhances behavioral recovery after traumatic brain injury

Castro-Gomez, S.; Vieira-Saecker, A.; Li, T.; Kulinska, I.; Weiss, F. D.; Meissner, F.; Schwartz, S.; Stein, V.; Latz, E.; Heneka, M. T.

10.1101/2025.06.25.660862 — neuroscience — Posted on 2025-06-26

692 Neonatal mimicry of caregivers at home: feasibility of an asynchronous online paradigm

Casey, K.; Neree, B.; Larrauri, C.; Zeng, G.; Ashton, K.; Gill, J.; Simpson, E. A.; Bayet, L.

10.1101/2025.06.26.661799 — neuroscience — Posted on 2025-06-26

693 Functional Inputs to the Subgenual Cingulate Cortex Distinguish Neurotypical Individuals with Severe and Mild Depressive Problems: Granger Causality and Clustering Analyses

Li, H.-T.; Chen, Y.; Chaudhary, S.; Ide, J. S.; Li, C.-S. R.

10.1101/2025.06.25.661556 — neuroscience — Posted on 2025-06-27

694 The neural analysis toolkit unifies semi-analytical techniques to simplify, understand, and simulate dendrites

Wybo, W.

10.1101/2025.06.26.661734 — neuroscience — Posted on 2025-06-27

695 Unveiling the Diversity and Demography of Sharks and Rays at key landing sites in Bangladesh

Nitu, F. K.; Tasnima, D. F.; Ahmed, S.; Uddin, K.; Johri, S.

10.1101/2025.06.26.660850 — zoology — Posted on 2025-06-26

696 Laboratory rearing of the broad-nosed weevil Scepticus tigrinus (Coleoptera: Curculionidae) using artificial and plant-based diets

Araki, Y.; Matsubayashi, K.; Ando, T.

10.1101/2025.06.24.660825 — zoology — Posted on 2025-06-26

697 Directed evolution of L-DOPA sensing and production enables efficient incorporation of an expanded genetic code into proteins

Gilmour, A. R.; Wei, Q.; Wang, C.; Hellinger, J.; Pandarinath, V.; d'Oelsnitz, S.; Powell, E.; Brodbelt, J. S.; Ellington, A. D.; Thyer, R.

10.1101/2025.06.26.661824 — synthetic biology — Posted on 2025-06-26

698 Engineered Living Materials for Bioproduction Downstream Processing

Browning, S. B.; Prati, D.; Magni, P.; Pasotti, L.; Molinari, S.

10.1101/2025.06.26.661578 — synthetic biology — Posted on 2025-06-26

699 DEVELOPMENT AND VALIDATION OF A QUESTIONNAIRE ASSESSING PLASTIC USE PATTERNS, KNOWLEDGE, AND ATTITUDES TOWARD MICROPLASTICS IN RELATION TO COGNITIVE FUNCTION IN INDONESIA

Prawiroharjo, P.; Zulys, A.; Fakhri, A.; Andini, A. R.; Putri, A. N. M.; Ikhromi, N.; Divina, E.; Gabrielle, A.

10.1101/2025.06.23.660969 — scientific communication and education — Posted on 2025-06-27

700 Insulin Prevents Fat Loss and Promotes Muscle Loss During Intermittent Fasting in Obesity

Marko, D. M.; Conn, M. O.; Cavallari, J. F.; Neudorf, H.; Steele, A. P.; Duggan, B. M.; McAlpin, B. T.; Barra, N. G.; Hawke, T. J.; Little, J. P.; Schertzer, J. D.

10.1101/2025.06.21.660875 — physiology — Posted on 2025-06-26

701 Epigenetic Programming of Estrogen Receptor in Adipose Tissue by High Fat Diet Regulates Obesity-Induced Inflammation

Wu, R.; Li, F.; Wang, S.; Jing, J.; Cui, X.; Huang, Y.; Zhang, X.; Carrillo, J. A.; Ding, Z.; Song, J.; Yu, L.; Shi, H.; Xue, B.; Shi, H.

10.1101/2025.06.21.660886 — physiology — Posted on 2025-06-26

702 Discovery of an Achiral Small Molecule TREM2 Agonist with Im-proved Pharmacokinetic Profile and Validated Target Engagement

Yuan, S.; El Gaamouch, F.; Cho, S.; Kuncewicz, K.; Nada, H.; Gabr, M.

10.1101/2025.06.22.660908 — pharmacology and toxicology — Posted on 2025-06-26

703 Sialic Acid Identity Modulates Host Tropism of Sialoglycan-binding Viridans Group Streptococci

Morrison, K. M.; Agarwal, R.; Stubbs, H. E.; Yu, H.; Ruhl, S.; Chen, X.; Sullam, P. M.; Bensing, B. A.; Smith, J. C.; Iverson, T. M.

10.1101/2025.06.24.660003 — pathology — Posted on 2025-06-26

704 Protocol for spatial characterization of ECM collagen-GAG in colorectal cancer tumor microenvironment

Boykin, L. A.; Jayashankar, S.; Budhwani, K. K. K.; Budhwani, B. M. K.; Samal, D.; Crawford, C. L.; Tsung, A.; Budhwani, K. I.

10.1101/2025.06.25.661355 — pathology — Posted on 2025-06-27

705 Integrating Artificial Intelligence-Driven Digital Pathology and Genomics to Establish Patient-Derived Organoids as a Novel Alternative Model for Drug Response in Head and Neck Cancer

Doerfler, R.; Chen, J.; Kim, C.; Smith, J. D.; Harris, M.; Singh, K. B.; Isett, B.; Dadey, R. E.; Brown, D. D.; Lee, A. V.; Wang, X.; Spector, M. E.; Kim, S.; Sridharan, S.; Contrera, K.; Smith, K.; Reeder, C.; Lyons, M.; Luo, J.; Liu, S.; Zandberg, D. P.; Skinner, H. D.; Zervantonakis, I. K.; Vujanovic, L.; Ferris, R. L.; Seethala, R. R.; Zevallos, J. P.; Luke, J. J.; Bao, R.

10.1101/2025.06.24.660824 — cancer biology — Posted on 2025-06-26

706 Straightening FSC curves

Urzhumtsev, A. G.

10.1101/2025.06.22.660909 — biophysics — Posted on 2025-06-26

707 Dissecting Tissue Architecture and Function through Mapping of Cellular Communication Networks

Li, D.; Yang, M.; Hou, L.

10.1101/2025.06.21.660290 — bioinformatics — Posted on 2025-06-26

708 Identification of senescence-related hub genes and potential therapeutic agents for chronic heart failure

Xie, H.; You, Z.; Liao, B.; Wan, J.; Deng, M.; Yang, Q.

10.1101/2025.06.21.660877 — bioinformatics — Posted on 2025-06-26

709 Computational Modeling and Visualization of Ischemic Effects on an Advanced Purkinje Network

Khan, L.; Khan, M.; Ahmed, R.; Ahmad, M.; Lac, J.

10.1101/2025.06.21.660878 — bioinformatics — Posted on 2025-06-26

710 AstraROLE & AstraSUIT: Multi-Task Annotation Models for Functional Profiling of Proteins

Bozkurt, C.; Vasilyeva, A.; Goteti, A.

10.1101/2025.06.21.660734 — bioinformatics — Posted on 2025-06-26

711 Protein Language Model Based Structure-guided Antibody Screening for Disordered Protein Targets

Chenna, A.; Priyadarshi, P.; Kolluru, K.; Singal, S.; Goel, G.

10.1101/2025.06.21.660895 — bioinformatics — Posted on 2025-06-26

712 Valve endothelial monolayer fissuring via RhoA activity induces 3D calcific aortic valve lesion emergence as revealed by a longitudinal live-imaging platform

Driscoll, K.; Balakrishnan, S.; Janani, G.; Gogineni, H.; Good, A.; Huang, A.; Leartprapun, N.; Adie, S. G.; Butcher, J.

10.1101/2025.06.21.660489 — bioengineering — Posted on 2025-06-27

713 Behavioural individuality of female mice and social organization

Conabady, E.; Vernochet, C.; Gulmez, A.; Marti, F.; Faure, P.; Parnaudeau, S.; Tronche, F.

10.1101/2025.06.25.660781 — animal behavior and cognition — Posted on 2025-06-26

714 Individual recognition in a jumping spider (Phidippus regius)

Dahl, C. D.; Cheng, Y.

10.1101/2023.11.17.567545 — animal behavior and cognition — Posted on 2025-06-27

715 A mouse model of PTEN Hamartoma Tumour Syndrome reveals that loss of the nuclear function of PTEN drives macrocephaly, lymphoid overgrowth, and late-onset cancer

Tibarewal, P.; Rathbone, V.; Conduit, S.; Classen, G. A. E.; Black, F.; Danesh, M. A.; Constantinou, G.; Asgarian, Z.; Tohyama, K.; Kriplani, N.; Alvarez Garcia, V.; Foxall, E.; Belarbi, D.; Leverve, M.; Pearce, W.; Adil, M.; Varyova, Z.; Conde, L.; Alves, A.; Masson, G.; Williams, R. L.; Flanagan, A. M.; Herrero, J.; Mohamed, I. A.; Stroud, K.; Tischkowitz, M.; Lachlan, K.; Scudamore, C.; Scott, M.; Leslie, N.; Kessaris, N.; Vanhaesebroeck, B.

10.1101/2025.06.20.660297 — genetics — Posted on 2025-06-27

716 Efficacy of natural marine sponges as a passive environmental DNA sampler for freshwater fish diversity monitoring

Nakao, R.; Inaba, M.; Miyazono, S.; Saito, M.; Maruyama, K.; Imamura, F.; Akamatsu, Y.

10.1101/2025.06.05.658201 — ecology — Posted on 2025-06-27

717 Predicting Trends in Avian Wing Motion and Energetics Across Scales

Parslew, B.

10.1101/2025.06.10.658879 — zoology — Posted on 2025-06-27

718 Direct observation of conformational dynamics in intrinsically disordered proteins at the single-molecule level

Zargarbashi, S.; Dominguez, C.; Peters, M.; Yousefi, A.; Munday, S.; Wang, Y.; Chatterjee, S.; Hudson, A.; Gordon, R.; Mellor, C. J.; Xu, L.; Rahmani, M.; Ying, C.

10.1101/2025.05.26.656162 — biophysics — Posted on 2025-06-27

719 Targeted metagenomics using probe capture detect a larger diversity of nitrogen and methane cycling genes in complex microbial communities than traditional metagenomics

Siljanen, H. M. P.; Manoharan, L.; Hilts, A. S.; Bagnoud, A.; Alves, R. J. E.; Jones, C.; Kerou, M.; Sousa, F.; Hallin, S.; Biasi, C.; Schleper, C.

10.1101/2022.11.04.515048 — microbiology — Posted on 2025-06-27

720 Phage-Assisted Evolution of Allosteric Protein Switches

Southern, N. T.; von Bachmann, A.-L.; Hovsepyan, A.; Griebl, M.; Wolf, B.; Lemmen, N.; Kroell, A.-S.; Westermann, S.; Mathony, J.; Niopek, D.

10.1101/2025.06.12.659331 — synthetic biology — Posted on 2025-06-27

721 ZCCHC4 Promotes Translation of Replication-dependent Histone mRNAs by Recruiting Cytoplasmic eIF3 complex

Wang, R.; Shi, X.; Zhang, Y.; Wang, Y.; Cao, Y.; Feng, R.; Chen, C.; Zhang, Y.; Chen, H.; Ma, H.

10.1101/2025.06.21.660898 — cancer biology — Posted on 2025-06-26

722 ILF2 blockade suppresses helicase-mediated R-loop resolution to induce lethality in homologous recombination-deficient cancers

Lim, Y. C.; Lai, S. K.; Yang, R. H.; Chua, Y. K.; Patouret, R.; Manoj, V.; Soh, C.; Lebeau, B.; Cham, N.; Meng, W.; Tey, S. K.; Yeap, S. L.; Zhang, S.; Yong, J.; Ali, Z.; Mutwil, M.; Singh, P.; Fullwood, M.; Zhong, L.; Dong, X.; Chiba, S.; Koh, C. G.; Li, H. Y.

10.1101/2025.05.21.655390 — cancer biology — Posted on 2025-06-27

723 Chemotherapeutic 6-thio-2-deoxyguanosine selectively targets and inhibits telomerase by inducing a non-productive telomere-bound telomerase complex

Sanford, S. L.; Badstubner, M.; Gerber, M.; Mannherz, W.; Lampl, N.; Dannenberg, R.; Hinchie, A.; Schaich, M. K.; Myong, S.; Hedglin, M.; Agarwal, S.; Alder, J. K.; Stone, M.; Opresko, P. L.

10.1101/2025.02.05.636339 — cancer biology — Posted on 2025-06-27

724 Human Protein Synthesis Requires aminoacyl-tRNA Pivoting During Proofreading

Sapkota, D.; Sanbonmatsu, K.; Girodat, D.

10.1101/2025.06.23.661150 — biophysics — Posted on 2025-06-26

725 On the need of individually optimizing temporal interference stimulation of human brains due to inter-individual variability

Brahma, T.; Guillen, A.; Moreno, J.; Datta, A.; Huang, Y.

10.1101/2025.01.13.632831 — biophysics — Posted on 2025-06-27

726 Deep Learning Transforms Phage-Host Interaction Discovery from Metagenomic Data

Yang, Y.; Wang, T.; Huang, D.; Wang, X.-W.; Weiss, S. T.; Korzenik, J.; Liu, Y.-Y.

10.1101/2025.05.26.656232 — bioinformatics — Posted on 2025-06-27

727 Pangenome-Informed Language Models for Synthetic Genome Sequence Generation

Huang, P.; Charton, F.; Schmelzle, J.-N. M.; Darnell, S. S.; Prins, P.; Garrison, E.; Suh, G. E.

10.1101/2024.09.18.612131 — bioinformatics — Posted on 2025-06-27

728 Microbial diversity of Atlantic Rainforest ponds assessed by nanopore sequencing

Atum, S. V.; Soares, D. M.; Santos, I.; Johnson, G. A.; Domingos, A. H.; Bechara, E. J.; Setubal, J. C.; Urban, L.; Stevani, C. V.; Freire, R. S.

10.1101/2025.06.17.660208 — bioinformatics — Posted on 2025-06-27

729 Integrated transcriptomic landscape of medulloblastoma and ependymoma reveals novel tumor subtype-specific biology

Arora, S.; Holland, E.; Vardharajan, S.; Taylor, M.; Sahm, F.; Mack, S. C.; Sievers, P.; Korshunov, A.; Nuechterlein, N.; Jensen, M.; Glatzer, G.

10.1101/2024.10.21.619495 — bioinformatics — Posted on 2025-06-27

730 A scalable, multi-resolution consensus clustering approach for prioritising robust signals from high-throughput screens

Bao, S. C.; Pishas, K.; Cowley, K. J.; Zhao, Q.; Goodall, E. C. A.; Henderson, I. R.; Marinovic, E.; Carey, M.; Campbell, I.; Simpson, K. J.; Cheasley, D.; Mizikovsky, D.; Palpant, N.

10.1101/2024.09.05.611300 — bioinformatics — Posted on 2025-06-27

731 A pre-menopausal single-cell atlas for ovarian drug discovery

VanBenschoten, H.; Nugmanova, Z.; Olmsted, A. M.; Annepureddy, L. D.; Gingerich, I.; Kratka, C.; Huang, R.; Duncan, F.; Kholod, O.; Goods, B.

10.1101/2025.06.20.660779 — bioinformatics — Posted on 2025-06-27

732 Sequence Modeling Is Not Evolutionary Reasoning

Ektefaie, Y.; Shen, A.; Jain, L.; Farhat, M. R.; Zitnik, M.

10.1101/2025.01.17.633626 — bioinformatics — Posted on 2025-06-27

733 A highly efficient knock-in strategy using fast-annealed 3'-extended dsDNA templates for emerging model insects

Nakamura, T.; Ando, T.; Matsuoka, Y.; Niimi, T.

10.1101/2025.06.20.660821 — bioengineering — Posted on 2025-06-26

734 Non-enzymatic error correction in self-replicators without extraneous energy supply

Ghosh, K.; Sahu, P.; Barik, S.; Subramanian, H.

10.1101/2025.06.26.661679 — biochemistry — Posted on 2025-06-26

735 Genome Mining and Characterization of a Heme-Dependent Enzyme Catalyzing Intermolecular Nitrogen-Nitrogen Bond Formation in Hydrazinosuccinic Acid Biosynthesis

Shi, J.; Zhao, Z.; Yang, J.; Cheng, Z.; Li, H.; Liu, Y.; Zhao, G.; Wu, M.; Du, Y.-L.

10.1101/2025.06.26.661531 — biochemistry — Posted on 2025-06-26

736 A High-Resolution N-Glycoproteome Atlas Reveals Tissue-Specific Glycan Remodeling but Non-random Structural Microheterogeneities

Wu, Y.; Muyao, Y.; Yongchao, X.; Li, J.; Jun, L.; Xiaohan, W.; Jiayu, Z.; Yinli, C.; Yiwen, Z.; Shisheng, S.

10.1101/2025.06.24.661310 — biochemistry — Posted on 2025-06-26

737 Altered stereostructures of the DNA binding domains in the mutant mating proteins of Ophiocordyceps sinensis and the Cordyceps sinensis insect-fungal complex

Li, X.-Z.; Li, Y.-L.; Zhu, J.-S.

10.1101/2025.06.26.661214 — biochemistry — Posted on 2025-06-26

738 Genetic regulation of anthocyanin biosynthesis in Cornus species: The roles of R2R3-MYB transcription factors

Pavlovic, Z.; Paya-Milans, M.; Nowakowska, M.; Huff, M. L.; Gwinn, K. D.; Trigiano, R. N.; Nowicki, M.

10.1101/2025.06.24.661385 — biochemistry — Posted on 2025-06-26

739 If memory serves: Multisensory male display improves female memory during mate sampling

Hamilton, O.-R. M.; James, L. S.; Page, R. A.; Ryan, M. J.; Taylor, R. C.; Hunter, K. L.

10.1101/2025.06.25.660905 — animal behavior and cognition — Posted on 2025-06-27

740 Network-based genetic monitoring of landscape fragmentation

Peled, O.; Kim, J.; Greenbaum, G.

10.1101/2025.06.18.660081 — genetics — Posted on 2025-06-27

741 Realistic time-lags and litter dynamics alter predictions of plant-soil feedback across generations

Ou, S. X.; Kandlikar, G. S.; Warren, M. L.; Ke, P.-J.

10.1101/2024.01.25.577053 — ecology — Posted on 2025-06-27

742 Equalizing Effect of Pollinator Adaptive Foraging on Plant Network Coexistence

Valdovinos, F. S.; Kaur, T.; Marsland, R.

10.1101/2025.03.26.645069 — ecology — Posted on 2025-06-27

743 Mathematical modelling predicts novel mechanisms of stream confinement from Trail/Colec12/Dan in the collective migration of cranial neural crest cells

Johnson, S. W. S.; Kulesa, P. M.; Baker, R. E.; Maini, P. K.

10.1101/2025.02.20.639239 — developmental biology — Posted on 2025-06-27

744 Endocytosis drives active cAMP signal discrimination among natively co-expressed GPCRs

Blythe, E. E.; Fagan, R.; Von Zastrow, M.

10.1101/2025.02.24.639927 — cell biology — Posted on 2025-06-27

745 MTALTCO1: a 259 amino-acid long mtDNA-encoded alternative protein that challenges conventional understandings of mitochondrial genomics

Robitaille, F.; Campbell, A.; Ben Hadj, A.; Cornet, S.; Nadeau-Lachance, L.; Niaison, T.; Choquette, T.; Nyffeler, L.; Roucou, X.; Angers, A.; Breton, S.

10.1101/2024.09.22.614361 — molecular biology — Posted on 2025-06-27

746 Beach sand beneath our feet: an overlooked reservoir of antibiotic resistance genes and pathogens, revealed by metagenomic evidence from Qingdao's recreational beaches

Li, C.; Ma, H.; Chang, Y.; Ge, H.; Liu, X.; Xie, J.; Zhang, H.; Cui, P.

10.1101/2025.06.25.661489 — microbiology — Posted on 2025-06-26

747 Microbiome-Dependent Functional Responses to Structurally Distinct Oligosaccharides Revealed by Metaproteomics

Zhang, A.; Wu, Q.; Mayne, J.; Ning, Z.; Qin, H.; Dewar, A.; Figeys, D.

10.1101/2025.06.26.661555 — microbiology — Posted on 2025-06-26

748 RNA-RNA Interactome Approaches Provide in vivo Evidence for a Critical Role of the Hfq Rim Face in sRNA-mRNA Pairing

Luo, X.; Zhang, A.; Esnault, C.; De Mets, F.; Adams, P.; Dale, R.; Storz, G.; Gottesman, S.

10.1101/2025.06.26.660752 — microbiology — Posted on 2025-06-26

749 An alveolus lung-on-a-chip model of Mycobacterium fortuitum lung infection

Ektnitphong, V. A.; Dias, B. R. S.; Campos, P. C.; Shiloh, M. U.

10.1101/2024.08.30.610530 — microbiology — Posted on 2025-06-27

750 Phage-based microbiome manipulation elucidates interactions within community context

Hessler, T.; Chiniquy, D.; Adler, B.; Hoff, J.; Tucker, E.; Huddy, R. J.; Sachdeva, R.; Lei, S.; Harrison, S. T. L.; Barrangou, R.; Diamond, S.; Deutschbauer, A. M.; Banfield, J. F.

10.1101/2025.06.20.660599 — microbiology — Posted on 2025-06-27

751 Incorporation of collagen into Pseudomonas aeruginosa, Staphylococcus aureus, and Burkholderia pseudomallei biofilms enhances their elasticity and resistance against phagocytic clearance

Zhou, X.; McGovern, A.; Wells, M. J.; Verma, D.; Currie, H.; Raka, A. M.; Shen, J.; Brown, K.; Robertson-Anderson, R.; Gordon, V. D.

10.1101/2023.10.25.564018 — microbiology — Posted on 2025-06-27

752 Preparation of functional metagenomic libraries from low biomass samples using METa assembly and their application to capture antibiotic resistance genes

Allman, H. M.; Bernate, E. P.; Franck, E.; Oliaro, F. J.; Hartmann, E. M.; Crofts, T. S.

10.1101/2024.06.29.601325 — microbiology — Posted on 2025-06-27

753 PmaI-dependent pH gradients initiate inter- and intraspecies germling fusion in filamentous fungi

Rudolph, A. Y.; Rotermund, N.; Vasilevska, N.; Fleissner, A.; Nordzieke, D. E.

10.1101/2025.06.24.661326 — microbiology — Posted on 2025-06-27

754 Evolution of antibody cross-reactivity to influenza H5N1 neuraminidase from an N2-specific germline

Lv, H.; Huan, Y. W.; Teo, Q. W.; Chen, C.; Pholcharee, T.; Gopal, A. B.; Ardagh, M. R.; Huang, J. J.; Lei, R.; Chen, X.; Sun, Y.; Mehta, A.; Szlembarski, M.; Mao, K. J.; Ma, E. X.; Wittenborn, L. E.; Tong, M.; Rodriguez, L. A.; Wang, L.; Mok, C. K.-P.; Wu, N. C.

10.1101/2025.06.20.660733 — immunology — Posted on 2025-06-26

755 Aging murine peritoneal macrophages undergo female-specific remodeling driven by hormone-dependent and independent mechanisms

Lu, R. J.; Chen, S.; Kim, M.; Sampathkumar, N. K.; Lee, E. H.; Christensen, A.; Wang, E. E.; Lau, I. Y.; Parihar, S.; Ravikumar, C. K.; Jung, J.; Brown, S. B.; Xu, A.; Alvarenga, J. L.; Mehalko, K.; Lee, C. D.; Goodridge, H. S.; Benayoun, B. A.

10.1101/2025.06.11.659200 — immunology — Posted on 2025-06-27

756 AD-HIES patients retain preTh17-cells that produce IL10 with opportunistic pathogens and induce IgE

Moschetti, G.; Vasco, C.; Clemente, F.; Larghi, P.; Maioli, S.; Scarpa, E.; Carelli, E.; Pulvirenti, N.; Sarnicola, M. L.; Crosti, M.; Bel Imam, M.; van de Veen, W.; Rizzello, L.; Abrignani, S.; Baselli, L. A.; Dellepiane, R. M.; Carrabba, M.; Fabio, G.; Geginat, J.

10.1101/2024.08.01.606136 — immunology — Posted on 2025-06-27

757 Internal Resonance Dynamics in a Delayed van der Pol Oscillator Modeling Basal Ganglia Oscillations

Elfouly, M. A. A.; Amer, T. S.

10.1101/2025.06.16.660028 — neuroscience — Posted on 2025-06-27

758 Nanophysiology Approach Reveals Diversity in Calcium Microdomains across Zebrafish Retinal Bipolar Ribbon Synapses

Rameshkumar, N.; Shrestha, A. P.; Boff, J. M.; Hoon, M.; Matveev, V.; Zenisek, D.; Vaithianathan, T.

10.1101/2024.11.01.617078 — neuroscience — Posted on 2025-06-27

759 Asymmetric neural entrainment at resonance frequencies underlies unilateral spatial neglect

Okazaki, Y. O.; Noriaki, H.; Teiji, K.; Megumi, H.; Ichiro, M.; Kitajo, K.

10.1101/2024.10.22.619765 — neuroscience — Posted on 2025-06-27

760 Computation-guided redesign of promoter specificity of a bacterial RNA polymerase

Liu, X.; Meger, A. T.; Gillis, T. G.; O'Mara Schwartz, J.; Sah, B.; Landick, R.; Raman, S.

10.1101/2022.11.29.518332 — synthetic biology — Posted on 2025-06-27

761 Conflicting roles of cell geometry, microtubule deflection and orientation-dependent dynamic instability in cortical array organization

Tian, T. Y. Y.; Wasteneys, G. O.; Macdonald, C. B.; Cytrynbaum, E. N.

10.1101/2024.09.07.611822 — plant biology — Posted on 2025-06-27

762 Rapid proteasomal degradation of mutant feline McDonough sarcoma-like tyrosine kinase-3 overcomes tyrosine kinase inhibitor resistance of acute myeloid leukemia cells

Halilovic, M.; Abdelsalam, M.; Mieland, A. O.; Neuroth, S.; Ashry, R.; Zabkiewicz, J.; Lazenby, M.; Alvares, C.; Schmidt, M.; Brenner, W.; Najafi, S.; Oehme, I.; Hieber, C.; Zeyn, Y.; Bros, M.; Prof. Dr., W. S.; Kramer, O. H.

10.1101/2025.06.20.660791 — pharmacology and toxicology — Posted on 2025-06-26

763 EpitopeTransfer: a Phylogeny-aware transfer learning framework for taxon-specific linear B-cell epitope prediction

Leite, L. P.; de Campos, T. E.; Lobo, F. P.; Campelo, F.

10.1101/2025.04.17.649425 — bioinformatics — Posted on 2025-06-27

764 A Sacrificial 3D Printed Vessel-on-Chip Demonstrates a Versatile Approach to Model Connective Tissue Pathology

Jäger, J.; Berger, P.; Morrison, A. I.; Erfurth, H.; Thon, M.; Dehne, E.-M.; Gibbs, S.; Koning, J. J.

10.1101/2025.02.06.636821 — bioengineering — Posted on 2025-06-27

765 Personalized Gut-Liver Microphysiological System Maps Donor-Specific Tissue Resident Immunity and Reveals a Conserved Metabolic Crosstalk

Uslu, M.; Ran, R.; Siddiqui, M. F.; Liang, J.; Raechal, L.; Dogsa, M.; Perrot, C.; Lieberman, L. A.; Brubaker, D. K.; Trapecar, M.

10.1101/2025.05.05.652244 — bioengineering — Posted on 2025-06-27

766 Strong negative reinforcement interferes with visual learning in a solitary pollinator

Manel, A. N.; Foster, J. J.; Stöckl, A.

10.1101/2025.06.18.660396 — animal behavior and cognition — Posted on 2025-06-27

767 Local adaptation to climate facilitates a global invasion

Gamba, D.; BromeCast Network, ; Lasky, J. R.

10.1101/2024.09.12.612725 — evolutionary biology — Posted on 2025-06-27

768 Unprecedented lead tolerance in an urban lizard

Blanchette, A.; Su, K.; Frick, A. J.; Karubian, J.; Gunderson, A. R.

10.1101/2024.12.06.626998 — ecology — Posted on 2025-06-27

769 X-chromosome upregulation operates on a gene-by-gene basis at RNA and protein levels

Allsop, R. N.; Boeren, J.; Tan, B. F.; Merzouk, S.; Poovathingal, S.; van Ijcken, W.; Demmers, J. A.; Mira Bontenbal, H.; Gontan Pardo, C.; Gribnau, J.; Pasque, V.

10.1101/2025.06.18.660324 — developmental biology — Posted on 2025-06-27

770 A single DNA binding site of DprA dimer is required to facilitate RecA filament nucleation

Bakhlanova, I.; Carrasco, B.; Alekseev, A.; Yakunina, M.; Morozova, N.; Khodorkovskii, M.; Petukhov, M.; Baitin, D.

10.1101/2024.05.07.592916 — molecular biology — Posted on 2025-06-27

771 Infection dynamics and virulence potential of clinical Pseudomonas aeruginosa isolates in human airway epithelial models

Colque, C. A.; Lolle, S.; La Rosa, R.; Pals Bendixen, M.; Levann, A. M. R.; Simoes, F. B.; Aenaes, K.; Molin, S.; Johansen, H. K.

10.1101/2025.04.11.644308 — microbiology — Posted on 2025-06-27

772 The conserved two-component systems CutRS and CssRS control the protein secretion stress response in Streptomyces species

McLean, T. C.; Beaton, A. D. M.; Holmes, N. A.; Saalbach, G.; Martins, C.; Chandra, G.; Batey, S. F. D.; China, J.; Wilkinson, B.; Hutchings, M. I.

10.1101/2025.03.20.644377 — microbiology — Posted on 2025-06-27

773 Multiple autism genes influence GABA neuron remodeling via distinct developmental trajectories

Zoga, K.; Villiere, S.; Tikiyani, V.; Edwards-Cintron, A. F.; Thokachichu, P.; Nicodemus, P.; Camara, P. G.; Hart, M. P.

10.1101/2025.06.25.661546 — neuroscience — Posted on 2025-06-27

774 Investigating milk-derived extracellular vesicles as mediators of maternal stress and environmental intervention

Martz, J.; Hammer, B.; Langen, T. J.; Berkowitz, B.; Berkowitz, B.; Storm, J. A.; Lu, J.; Lehri, D.; Wijenayake, S.; Marrocco, J.; Kentner, A. C.

10.1101/2025.05.30.656911 — neuroscience — Posted on 2025-06-27

775 State-space trajectories and traveling waves following distraction

Batabyal, T.; Brincat, S. L.; Donoghue, J. A.; Lundqvist, M.; Mahnke, M. K.; Miller, E. K.

10.1101/2024.02.19.581020 — neuroscience — Posted on 2025-06-27

776 Modelling dysfunction-specific interventions for seizure termination in epilepsy

Kamaraj, A. K.; Szuromi, M. P.

10.1101/2025.02.24.639968 — neuroscience — Posted on 2025-06-27

777 Automated Long Axial Field of View PET Image Processing and Kinetic Modelling with the TurBO Toolbox

Tuisku, J.; Palonen, S.; Kärpijoki, H.; Latva-Rasku, A.; Tuomola, N.; Harju, H.; Nesterov, S.; Oikonen, V.; Iida, H.; Teuho, J.; Han, C.; Karjalainen, T.; Kirjavainen, A. K.; Rajander, J.; Klen, R.; Nuutila, P.; Nummenmaa, L.; Knuuti, J.

10.1101/2025.06.06.658206 — neuroscience — Posted on 2025-06-27

778 Aggresomes protect mRNA under stress in Escherichia coli

Pei, L.; Xian, Y.; Yan, X.; Schaefer, C.; Syeda, A. H.; Howard, J.; Zhang, W.; Liao, H.; Bai, F.; Leake, M. C.; Pu, Y.

10.1101/2024.04.27.591437 — biophysics — Posted on 2025-06-27

779 Untargeted Plasma Metabolomics in Canine Cognitive Dysfunction: The Naturally Occurring Alzheimer's Disease Analog in Dogs

Melgarejo, T.; Harrison, S.; Chang, Y.; Munoz, M.; Kim, M.; Choi, Y.; Riveroll-Gonzalez, J.; Natterson-Horowitz, B.; Linde, A.

10.1101/2025.06.20.660766 — neuroscience — Posted on 2025-06-26

780 Divide and Cluster: The DIVINE Framework for Deterministic Top-Down Analysis of Molecular Dynamics Trajectories

Brylle Woody Santos, J.; Chen, L.; Miranda Quintana, R. A.

10.1101/2025.06.20.660828 — biophysics — Posted on 2025-06-26

781 MassNet: billion-scale AI-friendly mass spectral corpus enables robust de novo peptide sequencing

A, J.; Zhang, X.; Zhang, X.; Wei, J.; Zhang, T.; Deng, Y.; Liu, P.; Nie, Z.; Chen, Y.; Dong, N.; Gao, Z.; Sun, S.; Guo, T.

10.1101/2025.06.20.660691 — bioinformatics — Posted on 2025-06-26

782 A novel mechanism for bacterial sporulation based on programmed peptidoglycan degradation

Ramirez Carbo, C. A.; Irazoki, O.; Venkatesan, S.; Chen, L. J. S.; Morales, H. A.; Garcia Avila, A. J.; Cheung, H.-L.; Cava, F.; Nan, B.

10.1101/2025.06.26.661752 — microbiology — Posted on 2025-06-26

783 Thienopyrimidine amide analogs target MmpL3 in Mycobacterium tuberculosis

Baldin, V. P.; Harding, C. L.; Quach, D.; Sugie, J.; Pogliano, J.; Parish, T.

10.1101/2025.06.26.661674 — microbiology — Posted on 2025-06-26

784 Polyacrylamide bead split-pool method for microbial community analysis

Smolander, N.; Talvitie, J.; Tamminen, M.

10.1101/2025.06.26.661670 — microbiology — Posted on 2025-06-26

785 Social stress causes gut dysbiosis in male, female, and aggressor mice

Corbett, B. F.; Klein, E.

10.1101/2025.06.26.661806 — microbiology — Posted on 2025-06-26

786 Proteolytic processing of the Marburg virus glycoprotein depends on Sec616β and is required for cell entry

Decker, K. E.; Werner, A.-D.; Hoffmann, M.; Hofmann-Winkler, H.; Chen, Q.-Y.; Zhang, L.; Stomberg, P.; Gärtner, S.; Kempf, A. M.; Nehlmeier, I.; Luesch, H.; Steinmetzer, T.; Böttcher-Friebertshäuser, E.; Seidah, N. G.; Pöhlmann, S.; Winkler, M.

10.1101/2025.06.26.660697 — microbiology — Posted on 2025-06-26

787 Post-fluoroquinolone treatment molecular events and nutrient availability modulate Staphylococcus aureus antibiotic persistence

Batchelder, J. I.; Mahey, N.; Mok, W. W. K.

10.1101/2025.06.26.661800 — microbiology — Posted on 2025-06-26

788 CATERPillar: A Flexible Framework for Generating White Matter Numerical Substrates with incorporated Glial Cells

Nguyen-Duc, J. K.; Brammerloh, M.; Cherchali, M.; De Riedmatten, I.; Perot, J.-B.; Rafael-Patino, J.; Jelescu, I. O.

10.1101/2025.06.20.660694 — neuroscience — Posted on 2025-06-26

789 ContrastQA: A Label-guided Graph Contrastive Learning-based approach for protein complex structure quality assessment

Zhang, L.; Ding, R.; Chen, X.; Hou, J.; Si, D.; Wang, Y.; Lin, K.; Cao, R.

10.1101/2025.06.20.660832 — bioinformatics — Posted on 2025-06-26

790 The Effects of Hypothermic Storage on Passaged Chondrocyte Viability and Redifferentiation Potential

Rayat, D.; Miller, J.; Richardson-Solorzano, S.; King, R. E.; West, V. C.; Su, A. W.; Parreno, J.

10.1101/2025.06.20.660742 — bioengineering — Posted on 2025-06-26

791 Structure-guided design and development of cyclic peptide allosteric activators of Polycomb Repressive Complex 2

Kasinath, V.; Matyas, M.; Yakushiji, F.

10.1101/2025.06.26.661818 — biochemistry — Posted on 2025-06-26

792 Genomic Evidence for Males of Exceptional Reproductive Output (ERO) in Apes and Humans

Wang, X.; Chen, H.; Zhang, L.; Hou, M.; Gao, Y.; Lv, X.; Fan, P.; Tracy, M. E.; Huang, L.; Wen, H.-J.; Ruan, Y.; Xu, S.; Wu, C.-I.

10.1101/2025.06.20.660753 — evolutionary biology — Posted on 2025-06-26

793 A covarion model for phylogenetic estimation using discrete morphological datasets

Khakurel, B.; Hoehna, S.

10.1101/2025.06.20.660793 — evolutionary biology — Posted on 2025-06-26

794 Nutrient Enrichment and Connectivity Jointly Shape Bacterioplankton Diversity

Kholwadwala, A.; Katkov, E.; Lypaczewski, P.; Gonzalez, A.; Barrett, R. D. H.; Shapiro, B. J.

10.1101/2025.06.20.660555 — ecology — Posted on 2025-06-26

795 Temporal dynamics of ectomycorrhizal fungi: Leaf habit and exploration strategy explain seasonal variation in community abundance and composition

Medina, N.; Patrick, K.; Nikitin, T.; Kaliski, C.; Lo, M.; Kennedy, P. G.; McCormack, M. L.

10.1101/2025.06.20.660784 — ecology — Posted on 2025-06-26

796 Adaptation to warm environments with a fast pace of life in a marine predatory snail

Dwane, C.; Komoroske, L. M.; Rugila, A. L.; Bentley, B. P.; Rawson, E.; Clark, E.; Nichols, G.; Newbrey, M.; Bucari, E.; Yan, C.; Barley, J.; Horrigan, R.; McCarthy, L.; Duncan, N.; Juarez Stucker, A. B.; Villeneuve, A. R.; Cheng, B. S.

10.1101/2025.06.20.660751 — ecology — Posted on 2025-06-26

797 Modeling and Inferring Metacommunity Dynamics with Maximum Caliber

Jackson, Z. L.; Leibold, M. A.; Holt, R. D.; Xue, B.

10.1101/2025.06.20.660802 — ecology — Posted on 2025-06-26

798 Preadipocyte uncoupling protein 1 expression invoked by fibroblast growth factors imprints on post-differentiation white and brown adipocyte function

Kuellmer, K.; Moench, C.; Roch, W.; Wurmser, C.; Emanuelli, B.; Petersen, P. S. S.; Hermannsdottir, H.; Hasic, M.; Fromme, T.

10.1101/2025.06.26.661774 — molecular biology — Posted on 2025-06-26

799 Similar States, Different Paths: Neurodynamics of diverse meditation techniques

Shrimali, P.; Sasidharan, A.; Malipeddi, S.; Ventura, B.; Venugopal, R.; Nair, A. K.; Nagendra, R. P.; Kutty, B. M.; Northoff, G.

10.1101/2025.06.20.660652 — neuroscience — Posted on 2025-06-26

800 Shallow Recurrent Decoders for Neural and Behavioral Dynamics

Rude, A. S.; Kutz, J. N.

10.1101/2025.06.20.660769 — neuroscience — Posted on 2025-06-26

801 In vivo palpation of anisotropic human brain tissue using MRI

Magdoom, K. N.; Avram, A. V.; Sarlls, J. E.; Basser, P. J.

10.1101/2025.06.20.660588 — neuroscience — Posted on 2025-06-26

802 Pericytes Repair Engineered Defects in the Basement Membrane to Restore Barrier Integrity in an in vitro Model of the Blood-Brain Barrier.

Trempel, M. A.; Du, Y.; Widom, L. P.; Reitz, E. E.; Feidler, A. M.; Kasap, P.; Engelhardt, B.; Gaborski, T. R.; Gelbard, H. A.; Terrando, N.; McGrath, J. L.

10.1101/2025.06.23.661146 — bioengineering — Posted on 2025-06-26

803 ankrd1a consistently marks cardiomyocytes bordering the injury or scar area and affects their dedifferentiation during zebrafish heart regeneration after cryoinjury

Boskovic, S.; Novkovic, M.; Milicevic, A.; Milosevic, E.; Jasnic, J.; Milovanovic, M.; Kojic, S.

10.1101/2025.06.24.661322 — cell biology — Posted on 2025-06-26

804 The mechanistic basis of cargo selection during Golgi maturation

Taylor, R. J.; Zubkov, N.; Ciazynska, K. A.; Kaufman, J. G.; Tagiltsev, G.; Owen, D. J.; Briggs, J.; Munro, S.

10.1101/2025.06.26.661719 — cell biology — Posted on 2025-06-26

805 Nutrient-Responsive Formation of Mitochondrial-Derived Structures in Caenorhabditis elegans

Valera-Alberni, M.; Lanjuin, A.; Romero-Sanz, S.; Burkewitz, K.; Hughes, A.; Mair, W. B.

10.1101/2025.06.24.661357 — cell biology — Posted on 2025-06-26

806 Quantitative proteomics and phosphoproteomics reveal glucocorticoid stimulation of TLR and Rho GTPase signaling in neutrophil-like cells

Cho, H.; Nielsen, M. L.; Olsen, J. V.

10.1101/2025.06.25.661639 — cell biology — Posted on 2025-06-26

807 Stiffness sensing fuels matrix-driven metabolic reboot for kidney repair and regeneration

Gui, Y.; Wang, Y.; Li, W.; Liu, J.-J.; Zheng, K.; Li, J.; Shaffer, H.; Jones, C.; Mallari, S.; Yu, Y.; Liu, S.; Liu, Y.; Zhou, D.

10.1101/2025.06.22.660927 — cell biology — Posted on 2025-06-26

808 Targeted p63 isoform switch corrects dominant mutations in AEC syndrome without disrupting epidermal homeostasis

Di Girolamo, D.; Urciuoli, G.; Sol, S.; Ferniani, M.; Antonini, D.; Marchese, E.; De Stefano, M. A.; Baltissen, M. P.; Ros, M. A.; Dixon, J.; Hadj-Rabia, S.; Missero, C.

10.1101/2025.06.24.661308 — molecular biology — Posted on 2025-06-26

809 Genomic analysis identifies Campylobacter concisus genomospecies 2 as a novel species and proposes the name Campylobacter oralis

Liu, F.; Chen, S.; Biazik, J. M.; Luk, C.; Ravipati, A.; Lan, R.; Riordan, S. M.; Zhang, L.

10.1101/2025.06.24.661227 — microbiology — Posted on 2025-06-26

810 CXCL9 and CXCL13 as Predictive Biomarkers for Autoimmune-like Phenotype in Chronic Hepatitis C: Evidence for Viral-Induced Autoimmune Hepatitis Transition

Alwaeely, F. A.; Yousif, Z. A. A.-A.; AlKhero, Z. F.; hassan, J. S.

10.1101/2025.06.24.661312 — microbiology — Posted on 2025-06-26

811 Early transcriptional signatures of MeCP2 positive and negative cells in Rett syndrome

Li, Y.; Anderson, A. G.; Qi, G.; Wu, S.-R.; Revelli, J.-P.; Liu, Z.; Zoghbi, H. Y.

10.1101/2025.06.26.661761 — neuroscience — Posted on 2025-06-26

812 Effects of contrast water therapy on performance, circulatory function, and fatigue in collegiate freestyle swimmers

Kino, K.; Neya, M.; Watanabe, Y.; Kida, N.

10.1101/2025.06.17.660270 — physiology — Posted on 2025-06-26

813 Laminar Shear Stress Increases the Cytosolic Pool of PINK1 in Endothelial Cells and Enhances Mitophagic Sensitivity Toward Dysfunctional Mitochondria

Hong, S.-G.; Shin, J.; Saredy, J.; Choi, S. Y.; Wang, H.; Park, J. Y.

10.1101/2025.06.21.660867 — physiology — Posted on 2025-06-26

814 The AhR is a Critical Regulator of the Pulmonary Response to Cannabis Smoke

Wilson, E. T.; Gorgani, R.; Heimbach, N. S.; Bartolomucci, A.; Tsering, T.; Burnier, J. V.; Eidelman, D. H.; Baglole, C. J.

10.1101/2025.06.24.660596 — pharmacology and toxicology — Posted on 2025-06-26

815 Comprehensive investigation of SARS-CoV-2 intestinal pathogenesis in Drosophila

EL KAMALI, L.; NAGY, P.; GIRARD, J.; BUCHON, N.; MAVINGUI, P.; EL KALAMOUNI, C.; OSMAN, D.

10.1101/2025.06.25.661044 — pathology — Posted on 2025-06-26

816 Paclitaxel-induced mitotic arrest results in a convergence of apoptotic dependencies that can be safely exploited by BCL-XL degradation to overcome cancer chemoresistance

Qin, X.; Presser, A.; Johnson, L.; Matoba, Y.; Shay, B.; Xu, W.; Choiniere, J.; Fraser, C.; Garbicz, F.; Spetz, J. K. E.; Yu, S.; Florido, M. H. C.; Picucci, F.; Yang, Y.; Drapkin, R.; Hill, S. J.; Carrasco, D. R.; Liu, J.; Matulonis, U.; Brugge, J.; Rueda, B.; Zhou, D.; Stover, E.; Sarosiek, K.

10.1101/2025.06.24.661170 — cancer biology — Posted on 2025-06-26

817 Direct observation of interdependent and hierarchical kinetochore assembly on individual centromeres

Hu, C.; Popchock, A. R.; Latino, A. A.; Asbury, C. L.; Biggins, S.

10.1101/2025.06.25.661565 — biophysics — Posted on 2025-06-26

818 Low ultimate tensile strain in atherosclerotic plaques is linked to the presence of neovascularisation: insights from ex vivo uniaxial tensile testing

Lally, C.; Guendouz, Y.; Tornifoglio, B.; Digeronimo, F.

10.1101/2025.06.18.660485 — bioengineering — Posted on 2025-06-26

819 Shear-Induced Macrophage Secretome Promotes Endothelial Permeability

Jui, E.; Kingsley, G.; Jimenez, S.; Birla, R. K.; Keswani, S.; Grande-Allen, K. J.

10.1101/2025.06.20.660831 — bioengineering — Posted on 2025-06-26

820 CellSpliceNet: Interpretable Multimodal Modeling ofAlternative Splicing Across Neurons in C. elegans

Afrasiyabi, A.; Kovalic, J.; Liu, C.; Castro, E.; Weinreb, A.; Varol, E.; Miller, D.; Hammarlund, M.; Krishnaswamy, S.

10.1101/2025.06.22.660966 — genetics — Posted on 2025-06-26

821 Genetic mapping of lifespan and mitochondrial stress response in C. elegans

Li, X.; Li, W.; Gao, A. W.; Zhu, Y.; Katsyuba, E.; Overmyer, K. A.; Li, T.; Wang, Z.; Legon, L.; Plantade, L.; Mouchiroud, L.; Cornaglia, M.; Li, H.; Houtkooper, R.; Auwerx, J.

10.1101/2025.06.26.661693 — genetics — Posted on 2025-06-26

822 Rapid genetic diversification of Bacteroides thetaiotaomicron in mono-associated mice revealed through deep population-level sequencing

Zioutis, C.; Lang, M.; Pereira, F. C.; Bochkareva, O. O.; Kolodyazhnaya, E.; Osvatic, J.; McCoy, K.; Künzel, S.; Fokt, H.; Baines, J. F.; Berry, D.

10.1101/2025.06.24.661302 — microbiology — Posted on 2025-06-26

823 Asymmetric increase in episodic and procedural memory interference in older adults

Celik, B.; Kamal, L.; Goldstein, D.; Alpert, G.; Gonzalez, S.; Nguyen, V.; Freedberg, M. V.

10.1101/2025.06.19.660650 — neuroscience — Posted on 2025-06-26

824 Comparative Systematic Analysis of Gray Matter BiophysicalModels on a Public Dataset

Mezzano, S.; Uhl, Q.; Pavan, T.; Nguyen-Du, J. N.-D.; Lee, H.; Huang, S.; Jelescu, I.

10.1101/2025.06.19.660512 — neuroscience — Posted on 2025-06-26

825 Integration of customizable 3D printed mixing printheads for controlled and tuneable material and stiffness gradient fabrication with high cell viability in extrusion-based bioprinting

Hofmann, F.; Faber, J.; Moser, F.; Cianciosi, A.; Murenu, N.; Schenk, J.; Heinze, K.; Schaefer, N.; Budday, S.; Jungst, T.

10.1101/2025.06.22.659147 — bioengineering — Posted on 2025-06-26

826 Scanning for Representation: A Scoping Review of Racial and Ethnic Diversity in MRI Studies of the Maternal Brain

Orchard, E. R.; Murray, C. L.; Wall, K. M.; Levy, J. C. P.; Shin, J. Y.; Gaebler, C. G.; Hart-Derrick, V. R.; Ayala, K.; Adodo, A.; Day, M. J.; Funaro, M. C.; Guan, K.; Parker, T. C.; Ricard, J. A.; Penner, F.; Yatziv, T.; Rutherford, H. J. V.

10.1101/2025.06.20.660240 — neuroscience — Posted on 2025-06-26

827 NAD+ boosting by oral nicotinamide mononucleotide administration regulates key metabolic and immune pathways through SIRT1 dependent and independent mechanisms to mitigate diet-induced obesity and dyslipidemia in mice.

Majeed, Y.; Halabi, N. M.; Engelke, R.; Sarwath, H.; Al-Noubi, M. N.; Choi, S.; Madani, A. Y.; Agha, M. V.; Vakayil, M.; Schmidt, F.; Mazloum, N. A.

10.1101/2025.06.20.660826 — physiology — Posted on 2025-06-26

828 N'-(1-phenylethylidene)-benzohydrazide cytotoxicity is LSD1 independent and linked to Fe-S cluster disruption in Ewing sarcoma

Sherman, J. W.; Rask, G. C.; Xiong, B.; Tokarsky, E. J.; Duncan, A.; Weerapana, E.; Theisen, E. R.

10.1101/2025.06.20.660795 — pharmacology and toxicology — Posted on 2025-06-26

829 Neuromechanical Simulation with NEURON and MuJoCo

Fietkiewicz, C.; Tran, L.; McDougal, R.; Jackson, C.; Quinn, R. D.; Chiel, H. J.; Thomas, P. J.

10.1101/2025.06.17.660217 — neuroscience — Posted on 2025-06-26

830 Signed, Sealed, Delivered: A Generalizable Model for Probiotic Delivery and Metabolism in the Gut

DeVito, V. L.; Karamched, B. R.

10.1101/2025.06.20.660673 — systems biology — Posted on 2025-06-26

831 Decoding the Microbiome-Disease Axis with Interpretable Graph Neural Networks

Ivanov, V. A.; Hartman, W. H.; Soheilypour, M.

10.1101/2025.06.23.659608 — systems biology — Posted on 2025-06-26

832 Behavioral heterogeneity in host-seeking and post-feedingsuppression among disease vector mosquitoes

Uehara, T.; Dong, L.; Duvall, L. B.

10.1101/2025.06.18.660345 — animal behavior and cognition — Posted on 2025-06-26

833 MITScan: Score-Based Genome-Wide Association Analysis of the Microbiome and Host Transcriptome

Hao, Y.; Kafri, T.; Zou, F.

10.1101/2025.06.24.661342 — genomics — Posted on 2025-06-26

834 miRNA/mRNA analysis of increased TGF-β pathways drive epithelial-mesenchymal transition and regulatory T cell differentiation

Darville, T.; Sun, X.; Zhang, Y.; O'Connell, C. M.; Mokashi, N.; Tang, W.; Bhardwaj, A.; Duncan, B.; Andrews, C. W.; Weisenfeld, H.; Zheng, X.

10.1101/2025.06.23.661210 — genomics — Posted on 2025-06-26

835 Haplotype-aware long-read error correction

Barak, P.; Gibney, D.; Jain, C.

10.1101/2025.06.23.661108 — genomics — Posted on 2025-06-26

836 Expanding the utility of transcriptome analysis for mutation detection in high-risk childhood precision oncology

Mayoh, C.; Barahona, P.; Lin, A.; Cui, L.; Ajuyah, P.; Altekoester, A.; Lau, L. M.; Khuong-Quang, D.-A.; Sullivan, P.; Senapati, A.; Nagabushan, S.; Sullivan, A.; Omer, N.; Moore, A. S.; Nicholls, W.; Endersby, R.; Gottardo, N. G.; McCowage, G. B.; Dalla Pozza, L.; Hansford, J. R.; Khaw, S.-L.; Wood, P. J.; Trahair, T. N.; Marshall, G. M.; Ziegler, D. S.; Tyrrell, V.; Haber, M.; Wong, M.; Ekert, P. G.; Cowley, M. J.

10.1101/2025.06.25.661445 — genomics — Posted on 2025-06-26

837 The 3D architecture of the ctenophore aboral organ and the evolution of complex integrative centers in animals

Ferraioli, A.; Digel, L.; Sturm, D.; Colgren, J.; Le Goff, C.; Jan, A.; Soto-Angel, J. J.; Naumann, B.; Kittelmann, M.; Burkhardt, P.

10.1101/2025.06.26.659588 — evolutionary biology — Posted on 2025-06-26

838 Thyroid hormones act as a timer for the postnatal maturation of parvalbumin neurons in the neocortex

Ren, J.; Markossian, S.; Guyot, R.; Aubert, D.; Brocard, J.; Wong, J.; Flamant, F.; Richard, S.

10.1101/2024.12.13.628336 — developmental biology — Posted on 2025-06-26

839 A combination TLR7/8 and RIG-I agonist adjuvant reverts asthmatic allergic sensitization and prevents aggravated influenza infection in OVA-sensitized mice.

Diego, J. G.-B.; Burgess, E.; Chang, L. A.; Prellberg, M.; Noureddine, M.; Sadek, N.; Chen, Y.; El-Ayache, F.; Laghlali, G.; Park, S.-C.; Yan, V.; Wong, P. T.; De Geest, B. G.; Tomalka, J. A.; Schotsaert, M.

10.1101/2025.06.23.659362 — immunology — Posted on 2025-06-26

840 Mapping the projectional architecture of the mouse midbrain dopaminergic system using cell type-specific barcoding

Kim, H.; Xu, C.; Washington, C.; Lowmann, M.; Kebschull, J. M.

10.1101/2025.06.25.661405 — neuroscience — Posted on 2025-06-26

841 Tissue Factor Expression in Penile Squamous Cell Carcinoma: A Marker of HPV-Independent Disease

Jackson, J.; Johns, A.; Campos Clemente, L.; Manuel, C. M.; Qiao, W.; Lu, W.; Khan, K.; Solis Soto, L. M.; Chahoud, J.; Rao, P.; Campbell, M. T.; Pettaway, C. A.; Zacharias, N.

10.1101/2025.06.21.658950 — pathology — Posted on 2025-06-26

842 YAP signaling promotes resistance to MEK and AKT inhibition in NF1-related MPNSTs

McGee, L. E.; Grit, J. L.; Essenburg, C. J.; Agrusa, S.; Tovar, E. A.; Turner, L.; Becker, K.; Zbieg, J.; Dey, A.; Klomp, J. E.; Klomp, J. A.; Adams, M.; Beddows, I.; Wolfrum, E.; Fu, Z.; Hirbe, A. C.; Graveel, C. R.; Steensma, M. R.

10.1101/2025.06.16.659334 — cancer biology — Posted on 2025-06-26

843 Comprehensive Survey of Gut Microbiome Associations with Health Conditions in the Human Phenotype Project

Weissglas-Volkov, D.; Reisner, Y.; Shor, T.; Diament, A.; Jankelow, A.; Godneva, A.; Dhir, R.; Segal, E.

10.1101/2025.06.26.661672 — genomics — Posted on 2025-06-26

844 Mapping and reprogramming microenvironment-induced cell states in human disease using generative AI

Akbarnejad, A.; Steele, L.; Jafree, D. J.; Birk, S.; Sallese, M. R.; Rademaker, K.; Boxall, A.; Rumney, B.; Tudor, C.; Patel, M.; Prete, M.; Makarchuk, S.; Li, T.; Stanley, H.; Foster, A. R.; Roberts, K.; Trinh, A. L.; Villa, C. E.; Testa, G.; Mahil, S.; Mehrjou, A.; Smith, C.; Vakili, S.; Clatworthy, M. R.; Mitchell, T.; Bayraktar, O. A.; Haniffa, M.; Lotfollahi, M.

10.1101/2025.06.24.661094 — genomics — Posted on 2025-06-26

845 The reference-free pangenome of Arabidopsis thaliana

Obinu, L.; Guarracino, A.; Trivedi, U.; Porceddu, A.

10.1101/2025.06.25.661508 — genomics — Posted on 2025-06-26

846 Towards Scalable Age-Grading of Aedes albopictus mosquito using Mid-Infrared Spectroscopy and Machine Learning

Foti, M.; Micocci, M.; Pazmino Betancourth, M.; Casas Gomez-Uribarri, I.; Serini, P.; Caputo, B.; della Torre, A.; Baldini, F.

10.1101/2025.06.20.660660 — ecology — Posted on 2025-06-26

847 Disease progression is associated with differential neutrophil maturation in Mycobacterium tuberculosis-infected macaques

Dinko, S. B.; Joly, C.; Mazet, P.; Sandillon, G.; Magneron, V.; Nunez, N.; Mayet, C.; Diry, S.; Gaspar, C.; Leonec, M.; Luccantoni, S.; Ludot, C.; Delache, B.; Jougla, E.; Morin, J.; Zouaoui-Frigui, W.; Brosch, R.; Contreras, V.; Galloüet, A.-S.; Bosquet, N.; Relouzat, F.; Pascal, Q.; Jean, B.; Holzapfel, M.; Lambotte, O.; Naninck, T.; Le Grand, R.; Lemaitre, J.

10.1101/2025.06.23.661022 — immunology — Posted on 2025-06-26

848 Learning, sleep replay and consolidation of contextual fear memories: A neural network model

Werne, L.; Chadwick, A.; Series, P.

10.1101/2025.06.20.660661 — neuroscience — Posted on 2025-06-26

849 Disentangling the Functional Roles of Pre-Stimulus Oscillations in Crossmodal Associative Memory Formation via Sensory Entrainment

Ostrowski, J.; Maack, M. C.; Rose, M.

10.1101/2025.06.24.661289 — neuroscience — Posted on 2025-06-26

850 Mitochondrial Energy Transformation Capacity Influences Brain Activation During Sensory, Affective, and Cognitive Tasks

Bo, K.; Kelly, C.; Trumpff, C.; Hirano, M.; Picard, M.; Wager, T.

10.1101/2025.06.25.661482 — neuroscience — Posted on 2025-06-26

851 An Antagonistically Pleiotropic Gene Regulates Vertebrate Growth, Maturity and Aging

Moses, E.; Franek, R.; Atlan, T.; Chrzanowski, H.; Duxbury, E. M. L.; Kinreich, S.; Maklakov, A. A.; Harel, I.

10.1101/2023.05.01.538839 — genetics — Posted on 2025-06-26

852 The evolution of mutation rates in the light of development and cell-lineage selection

Majic, P.; Srivastava, M.; Crocker, J.

10.1101/2025.01.16.633395 — evolutionary biology — Posted on 2025-06-26

853 Pre-sleep experiences shape neural activity and dream content in the sleeping brain

Kumral, D.; Palmieri, J.; Gais, S.; Schoenauer, M.

10.1101/2023.07.29.551087 — neuroscience — Posted on 2025-06-26

854 Spatial dynamics of the tumor microenvironment associated with emerging resistance to targeted therapy in EGFR-mutated non-small cell lung cancer

Nakamura, S.; Shibahara, D.; Tanaka, K.; Kishikawa, Y.; Hashisako, M.; Nakatomi, K.; Nakagaki, N.; Kohno, M.; Azuma, K.; Ibusuki, R.; Otsubo, K.; Yoneshima, Y.; Iwama, E.; Oda, Y.; Okamoto, I.

10.1101/2025.02.10.637543 — cancer biology — Posted on 2025-06-26

855 RNA virus polymerase-helicase coupling enables rapid elongation throughduplex RNA

America, P.; BERA, S. C.; Das, A.; Anderson, T. K.; Marecki, J. C.; Papini, F. S.; Arnold, J. J.; Kirchdoerfer, R.; Cameron, C. E.; Raney, K. D.; Depken, M.; Dulin, D.

10.1101/2025.03.05.641625 — biophysics — Posted on 2025-06-26

856 Scale Invariance of Mechanical Properties in the DevelopingMammalian Retina

Shelton, E. R.; Frischmann, M.; Brinkop, A. T.; James, R. M.; Hüttl, L. M.; Serwane, F.

10.1101/2024.10.21.619491 — bioengineering — Posted on 2025-06-26

857 Host-specific adaptation and fitness trade-off of Barley Yellow Dwarf Viruses suggested by experimental evolution through aphid inoculation on multiple Poaceae species

Tamisier, L.; Colson, C.; Maclot, F.; Zhang, P.; Wang, X.; Francis, F.; Baurain, D.; Massart, S.

10.1101/2025.06.20.660669 — evolutionary biology — Posted on 2025-06-26

858 Context-Dependent Adaptation in Structured Environments

Karita, Y.; Rodriguez-Sanchez, G. T.; Brambilla, E.; Hernandez-Beltran, J. C. R.; Schwarz, M.; Rainey, P. B.

10.1101/2025.04.29.651346 — evolutionary biology — Posted on 2025-06-26

859 Inter-individual variability in immune responses to AAV-mediated ocular gene delivery across species impedes reliable immunomonitoring profile

REN, D.; CHAUVEAU, G.; VENDOMELE, J.; CABON, E.; PINEIRO, A.; VIGNAL-CLERMONT, C.; SALIBA, H.; RONZITTI, G.; GALY, A.; DALKARA, D.; PULMAN, J.; AIL, D.; FISSON, S.

10.1101/2025.06.02.656863 — immunology — Posted on 2025-06-26

860 Uncovering dynamic human brain phase coherence networks

Olsen, A. S.; Brammer, A.; Fisher, P. M.; Moerup, M.

10.1101/2024.11.15.623830 — neuroscience — Posted on 2025-06-26

861 NNMT drives innate sensitivity to NAMPT inhibition in YAP-dependent stem-like/ mesenchymal prostate cancer

Carreira, A. S. A.; Ciuffreda, M.; Thongon, N.; Haughey, C. M.; Pickard, A.; Eddie, S. L.; Steele, R. E.; Cerri, E.; Belli, R.; Peroni, D.; Facen, E.; Caffa, I.; Ghanem, M.; Nencioni, A.; Lunardi, A.; Tebaldi, T.; Mills, I.; Provenzani, A.

10.1101/2025.04.29.651153 — cancer biology — Posted on 2025-06-26

862 Structure-function analysis of lithium-ion selectivity of voltage-gated sodium channel

Maeda, Y. K.; Kojima, K.; Nakamura, T. Y.; Nakatsu, T.; Irie, K.

10.1101/2025.05.26.656081 — biophysics — Posted on 2025-06-26

863 Hierarchical affinity landscape navigation through learning a shared pocket-ligand space

Feng, B.; Liu, Z.; Li, H.; Yang, M.; Zou, J.; Cao, H.; Li, Y.; Zhang, L.; Wang, S.

10.1101/2025.02.17.638554 — bioinformatics — Posted on 2025-06-26

864 Benchmarking Software for DDA-PASEF Immunopeptidomics

Chen, Y.; Preikschat, A.; Arnold, A.; Pecori, R.; Gomez-Zepeda, D.; Tenzer, S.

10.1101/2025.05.28.656277 — bioinformatics — Posted on 2025-06-26

865 16,000 combinatorial DNA rings">Assembling a true "Olympic Gel" from >16,000 combinatorial DNA rings

Speed, S.; Peng, Y.-H.; Atabay, A.; Gupta, K.; Müller, T.; Fischer, C.; Hermes, I. M.; Sommer, J.-U.; Lang, M.; Krieg, E.

10.1101/2024.07.12.603212 — bioengineering — Posted on 2025-06-26

866 Biodiversity modulates the cross-community scaling relationship in changing environments

Gjoni, V.; Altermatt, F.; Garnier, A.; Palamara, G. M.; Seymour, M.; Pontarp, M.; Pennekamp, F.

10.1101/2025.03.07.642014 — ecology — Posted on 2025-06-26

867 Directional alignment of different cell types organizes planar cell polarity

Arata, M.; Koyama, H.; Fujimori, T.

10.1101/2025.05.13.653899 — developmental biology — Posted on 2025-06-26

868 Cell Adhesion-Dependent Biphasic Axon Outgrowth Elucidated by Femtosecond Laser Impulse

Yamada, S.; Baba, K.; Inagaki, N.; Yoichiroh, H.

10.1101/2021.10.10.463848 — cell biology — Posted on 2025-06-26

869 Dynamic feedforward and feedback influences on left ventral occipitotemporal cortex: evidence from word and pseudoword reading

You, J.; Hauk, O.; Salmelin, R.; van Vliet, M.

10.1101/2025.06.20.660651 — neuroscience — Posted on 2025-06-26

870 NERVE GROWTH FACTOR IS SUFFICIENT TO CAUSE MULTIPLE OSTEOARTHRITIS-RELEVANT PATHOLOGICAL FEATURES IN NAIVE MURINE KNEE JOINTS

Obeidat, A. M.; Newton, M. D.; Li, J.; Hu, B.; Ishihara, S.; Lammlin, L.; Junginger, L. M.; Farrell, E. C.; Ko, F. C.; Miller, R. J.; Scanzello, C. R.; Maerz, T.; Miller, R. E.; Malfait, A.-M.

10.1101/2025.06.20.660696 — neuroscience — Posted on 2025-06-26

871 Biocultural vulnerability of traditional crops in the Indian Trans Himalaya

Jaggi, H.; Anand, A.; Solari, K. A.; Echeverri, A.; Tobge, R.; Tsewang, T.; Suryawanshi, K.; Tuljapurkar, S. D.

10.1101/2024.10.22.619747 — plant biology — Posted on 2025-06-26

872 Scutellarin inhibits ferroptosis by promoting cellular antioxidant capacity through regulating the Nrf2 signaling

Yang, H.-y.; Chan, O.-k.; Huang, X.; Yan, L.; Sun, N.; Li, Y.-p.; Shi, Z.-j.; Zha, Q.-b.; Ouyang, D.-y.; Li, J.; He, X.-h.

10.1101/2025.06.20.660655 — pharmacology and toxicology — Posted on 2025-06-26

873 Host iron deficiency protects against Plasmodium infection and drives parasite molecular reprofiling.

Clucas, D.; Bennett, C.; Harding, R.; Pettikiriarachchi, A.; Baldi, A.; Randall, L. M.; Steel, R.; Mellin, R.; Hobbs, M.; Caiazzo, S.; Mwangi, M. N.; Fielding, K. L.; Hickey, P. F.; Baldwin, T. M.; Amann-Zalcenstein, D.; Emery-Corbin, S. J.; Mzembe, G.; Moya, E.; Braat, S.; Jex, A.; Demir, A. Y.; Verhoef, H.; Phiri, K. S.; Biggs, B.-A.; Tham, W.-H.; Boddey, J. A.; Pasricha, S.-R.; Ataide, R.

10.1101/2025.06.24.660981 — cell biology — Posted on 2025-06-26

874 Herpes simplex virus 1 strain 17+ with R2 mutation in UL37 has residual retrograde transport

Walter, M.; Haick, A. K.; Massa, P. A.; Klouser, L. M.; Stensland, L.; Santo, T. K.; Xie, H.; Jerome, K. R.

10.1101/2025.06.25.661543 — microbiology — Posted on 2025-06-26

875 Neural correlates of evidence accumulation in social-affective decision-making under perceptual ambiguity

Sun, S.; Xie, T.; Chen, Y.; Wang, J.; Li, X.; Yu, R.; Brunner, P.; Willie, J.; Wang, S.; Yu, H.

10.1101/2025.06.24.660932 — neuroscience — Posted on 2025-06-26

876 Anterior cingulate folding pattern is altered in autism spectrum disorder

Willbrand, E. H.; Maboudian, S. A.; Ludwig, J. J.; Weiner, K. S.

10.1101/2025.06.24.661411 — neuroscience — Posted on 2025-06-26

877 Gamma - Theta - Spike Coupling Coordinates Sequential Memory in Human MTL

Prakash, M. J.; Niediek, J.; Surges, R.; Mormann, F.; Liebe, S.

10.1101/2025.06.24.661371 — neuroscience — Posted on 2025-06-26

878 Misinterpreting electrophysiology in human cognitiveneuroscience

Popov, T.

10.1101/2025.06.25.661032 — neuroscience — Posted on 2025-06-26

879 Context-aware sequence-to-activity model of human gene regulation

Aksu, E. D.; Vingron, M.

10.1101/2025.06.25.661447 — genomics — Posted on 2025-06-25

880 Melanocortin-responsive Kiss1 neurons of the arcuate nucleus drive energy expenditure through glutamatergic signaling to the dorsomedial hypothalamus.

Talbi, R.; Stincic, T. L.; Lynch, N.; Torres, E.; Ferrari, K.; Hae, C. J.; Medve, E.; Walec, K.; Zdon, S. T.; Pereira, S. A.; Mahoney, C. E.; Bosch, M. A.; Zweifel, L.; Ronnekleiv, O. K.; Machado, N. L. S.; Kelly, M. J.; Navarro, V. M.

10.1101/2025.06.25.661567 — neuroscience — Posted on 2025-06-25

881 Multiple autism genes influence GABA neuron remodeling via distinct developmental trajectories

Zoga, K.; Villiere, S.; Tikiyani, V.; Edwards-Cintron, A. F.; Thokachichu, P.; Nicodemus, P.; Camara, P. G.; Hart, M. P.

10.1101/2025.06.25.661546 — neuroscience — Posted on 2025-06-25

882 A scalable, all-optical method for mapping synaptic connectivity with cell-type specificity

Moya, M. V.; Cunningham, W. J.; Vincent, J. P.; Wang, T.; Economo, M. N.

10.1101/2025.06.25.661552 — neuroscience — Posted on 2025-06-25

883 Stimulation modulates cell assemblies linked with gene networks in the human temporal cortex ex vivo

Moore, H.; Dehnad, M.; Freelin, A.; Granger, B.; Subramanian, S.; Kulkarni, A.; Berto, S.; Lega, B.; Konopka, G.

10.1101/2025.06.25.661589 — neuroscience — Posted on 2025-06-25

884 Spatial isoform sequencing at sub-micrometer single-cell resolution reveals novel patterns of spatial isoform variability in brain cell types

Michielsen, L.; Prjibelski, A. D.; Foord, C.; Hu, W.; Jarroux, J.; Hsu, J.; Tomescu, A. I.; Hajirasouliha, I.; Tilgner, H. U.

10.1101/2025.06.25.661563 — neuroscience — Posted on 2025-06-25

885 Systematic evaluation of de novo mutation calling tools using whole genome sequencing data

Shah, A.; Monger, S.; Troup, M.; Ip, E. K.; Giannoulatou, E.

10.1101/2024.08.28.610208 — bioinformatics — Posted on 2025-06-25

886 Rac1 Selectively Binds a Specific Lamellipodin Isoform via a Noncanonical Helical Interface

Gao, T.; Wu, J.

10.1101/2025.06.24.661328 — biochemistry — Posted on 2025-06-25

887 Nanopore duplex sequencing reveals patterns of asymmetric states of 5hmC and 5mC in the medaka brain genome

Santana Garcia, W.; Fitzgerald, T.; Loosli, F.; Wittbrodt, J.; Birney, E.

10.1101/2025.06.24.661039 — genomics — Posted on 2025-06-25

888 Weak evidence for heritable changes in response to selection by aphids in Arabidopsis accessions

Schmid, M. W.; Kropivsek, K.; Wuest, S. E.; Schmid, B.; Grossniklaus, U.

10.1101/2025.01.21.634027 — evolutionary biology — Posted on 2025-06-25

889 Flower clades and fruit clades: trade-offs in color diversification across angiosperms

Sinnott-Armstrong, M.; Maier, L.; Smith, S.; Dellinger, A.

10.1101/2025.06.20.660771 — evolutionary biology — Posted on 2025-06-25

890 In-situ structures of the Legionella Dot/Icm T4SS identify the DotA-IcmX complex as the gatekeeper for effector translocation

Yue, J.; Heydari, S.; Park, D.; Chetrit, D.; Tachiyama, S.; Guo, W.; Botting, J. M.; Wu, S.; Roy, C. R.; Liu, J.

10.1101/2025.06.23.660953 — molecular biology — Posted on 2025-06-25

891 Uncovering the hidden diversity and functional roles of root endophytic Streptomyces under drought stress

Garcia, C. F.; Pettinga, D.; Caddell, D.; Ploemacher, H.; Louie, K.; Bowen, B.; Park, J.; Sanchez, J.; Zimic, A.; Traxler, M. F.; Northen, T.; Coleman-Derr, D.

10.1101/2025.06.25.661566 — microbiology — Posted on 2025-06-25

892 Pepper RNA variants reveal decoupling of HBC530 binding thermodynamics and fluorescence activation

Aidoo, E. K.; Jayasekera, V.; Dlamini, N. T.; Dussault, P. H.; Eichhorn, C. D.

10.1101/2025.06.24.660466 — biophysics — Posted on 2025-06-25

893 A Compartmental Model for Simulating the Gut-Brain Axis in Gastric Function Regulation

Fernandes, S. Q.; Kothare, M. V.

10.1101/2025.06.19.660643 — biophysics — Posted on 2025-06-25

894 Linker Length and Composition within Disordered Binding Motifs modulates the Avidity and Reversibility of a Multivalent Protein Interaction Switch

Chatterjee, K. S.; Martinez-Yamout, M. A.; Dyson, J.; Wright, P. E.

10.1101/2025.06.06.658374 — biophysics — Posted on 2025-06-25

895 Oral octanoylcarnitine alleviates exercise intolerance in mouse models of long-chain fatty acid oxidation disorders

Solo, K. J.; Zhang, Y.; Bharathi, S.; Zhang, B. B.; Richert, A. C.; Schmidt, A. V.; Basu, S.; Van't Land, C.; D'Annibale, O.; Wood, T. C.; Vockley, J.; Goetzman, E. S.

10.1101/2025.06.24.661304 — biochemistry — Posted on 2025-06-25

896 Crosslinking by ZapD drives the assembly of short FtsZ filaments into toroidal structures in solution

Merino-Salomon, A.; Schneider, J.; Babl, L.; Krohn, J.-H.; Sobrinos-Sanguino, M.; Schäfer, T.; Luque-Ortega, J. R.; Alfonso, C.; Jimenez, M.; Jasnin, M.; Schwille, P.; Rivas, G.

10.1101/2023.01.12.523557 — biochemistry — Posted on 2025-06-25

897 A pair-rule-like transcription network coordinates neural tube closure in a proto-vertebrate

Ostlund-Sholars, G.; Lemaire, L. A.; Levine, M. S.

10.1101/2025.06.18.660479 — developmental biology — Posted on 2025-06-25

898 A supracellular actin network transmits forces over long distances at the apical surface of squamous carcinoma cells

Marpeaux, L.; Baudouin, C.; Delsin, l. E. A.; Plutoni, C.; Emery, G.

10.1101/2025.01.10.632450 — cell biology — Posted on 2025-06-25

899 Gαq-stimulated gene expression is insensitive to Bromo extra terminal domain inhibitors in HEK 293 cells

Jain, A.; Page, V.; Devost, D.; Petrin, D.; Hebert, T. E.; Tanny, J. C.

10.1101/2025.06.23.661130 — molecular biology — Posted on 2025-06-25

900 Lateral lipid packing governs bilayer solubilization by styrene-maleic acid copolymers: a case study with cardiolipin-containing membranes

Iovine, J. C.; Alder, N. N.

10.1101/2025.06.23.659572 — molecular biology — Posted on 2025-06-25

901 Cultivation of Methanonezhaarchaeia, the third class of methanogens within the phylum Thermoproteota

Kohtz, A. J.; Nupp, S.; Hatzenpichler, R.

10.1101/2025.06.25.661132 — microbiology — Posted on 2025-06-25

902 Chain-length regulation by WzzE is necessary for, but genetically separable from, cyclic enterobacterial common antigen synthesis

Carr, J. F.; Rudolf, J. S.; Warzecha, D. J.; Rezenom, Y. H.; Mitchell, A.

10.1101/2025.06.25.661564 — microbiology — Posted on 2025-06-25

903 Genetic potential for denitrification in SAR11 and other ubiquitous lineages of marine bacteria isolated from the northern Benguela Upwelling System

Morris, R. M.; Mattes, T. E.; Bubphamanee, K.; Sadler, M. C.; Calderaro, L. A.; Karolewski, J.; Casciotti, K. L.; Mason, O. U.

10.1101/2025.06.18.660415 — microbiology — Posted on 2025-06-25

904 Competition between tool and hand motion impairs movement planning in limb apraxia

Thibault, S.; Yates, J. B.; Buxbaum, L. J.; Wong, A. L.

10.1101/2025.04.07.647589 — neuroscience — Posted on 2025-06-25

905 Single-Nucleus Neuronal Transcriptional Profiling of Male C. elegans Uncovers Regulators of Sex-Specific and Sex-Shared Behaviors

Morillo, K. S.; St. Ange, J.; Weng, Y.; Kaletsky, R.; Murphy, C.

10.1101/2024.12.12.628226 — neuroscience — Posted on 2025-06-25

906 Pentose Sugars Encode Sequence-Dependent DNA-RNA Segregation for Biomimetic Multiphase Condensates

Guo, W.; Chen, F.; Kinghorn, A. B.; Li, X.; Pan, Y.; Luo, R.; Wang, Y.; Lau, K. K.; Mao, T.; Wang, F.; Yang, Z.; Li, X.; Chen, Y.; Liu, S.; Zhang, Y.; Song, Y.; Zeng, X.; Shum, H. C.

10.1101/2025.06.23.656378 — biophysics — Posted on 2025-06-25

907 Predictive Analysis of Methylation Patterns in Oral Squamous Cell Carcinoma (OSCC) Using Machine Learning

Sarkar, D.

10.1101/2025.06.19.660641 — bioinformatics — Posted on 2025-06-25

908 CagY sequence and structural motifs are associated with ancestry and 1 disease in world-wide Helicobacter pylori strains

Lopez-Luis, M. A.; Torres, R. C.; Solnick, J. V.; Camargo, M. C.; Mendez-Tenorio, A.; Torres, J.

10.1101/2025.06.20.660796 — bioinformatics — Posted on 2025-06-25

909 Genetically-programmed Hypervesiculation of Lactiplantibacillus plantarum Increases Production of Bacterial Extracellular Vesicles with Therapeutic Efficacy in a Preclinical Inflammatory Bowel Disease Model

Pirolli, N. H.; Levy, D.; Schledwitz, A.; Sampaio Moura, N.; Solomon, T. J.; Powsner, E. H.; Nowak, R.; Mamczarz, Z.; Bridgeman, C. J.; Khan, S.; Reus, L.; Anne, N.; Bentley, W. E.; Raufman, J.-P.; Jay, S. M.

10.1101/2025.06.20.660770 — bioengineering — Posted on 2025-06-25

910 Recognition and catalytic mechanism of tRNA m3C methyltransferase METTL6

Aupic, J.; Magistrato, A.

10.1101/2025.06.25.660299 — biochemistry — Posted on 2025-06-25

911 Biocatalytic Construction of a CEST MRI Nucleoside Probe: Synthesis and Evaluation of 5-Methyl-5,6-dihydrothymidine

Al-Hilfi, A.; Franco, E. A. C.; Grady, C. J.; Mohanta, Z.; McMahon, M. T.; Bazayeva, M.; Li, Z.; Merz, K. M.; Gilad, A. A.

10.1101/2025.06.25.661137 — biochemistry — Posted on 2025-06-25

912 Evaluation of a prototype Orbitrap Astral Zoom mass spectrometer for quantitative proteomics - Beyond identification lists

Hsu, C.; Shulman, N.; Stewart, H.; Petzoldt, J.; Pashkova, A.; Plubell, D.; Denisov, E.; Hagedorn, B.; Damoc, E.; MacLean, B. X.; Remes, P. M.; Canterbury, J. D.; Makarov, A.; Hock, C.; Zabrouskov, V.; Wu, C. C.; MacCoss, M. J.

10.1101/2025.05.30.657132 — biochemistry — Posted on 2025-06-25

913 Single-molecule analysis of gap and nick binding by LIG1 and LIG3α at the final step of DNA repair

Balu, K.; Lee, K. M.; Chatterjee, S.; Caglayan, M.

10.1101/2025.06.25.661597 — biochemistry — Posted on 2025-06-25

914 Item recognition is associated with gut microbiota composition in healthy humans

Oyarzun, J. P.; Kuntz, T. M.; Morgan, X. C.; Davachi, L.; Huttenhower, C.; LeDoux, J. E.; Phelps, E. A.

10.1101/2025.04.10.648258 — animal behavior and cognition — Posted on 2025-06-25

915 16S-23S-5S rRNA Database: a comprehensive integrated database of archaeal and bacterial rRNA sequences, alignments, intragenomic heterogeneity, and secondary structures

Chodvadiya, J.; Shukla, G.; Sharma, G.

10.1101/2025.06.23.661116 — genomics — Posted on 2025-06-25

916 NucleoBench: A Large-Scale Benchmark of Neural Nucleic Acid DesignAlgorithms

Shor, J.; Strand, E.; McLean, C. Y.

10.1101/2025.06.20.660785 — genomics — Posted on 2025-06-25

917 Mapping Fusarium Wilt and Sterility Mosaic Disease Resistance-Associated Genomic Regions and Haplotype Variants in Pigeonpea

Rangari, S. K.; Krishnappa, S.; Sharma, M.; Sharma, V. K.; Dube, N.; Gangurde, S. S.; Sharma, V.; Abbai, R.; Bomma, N.; Belliappa, S.; Bhutia, K. L.; Thudi, M.; Gangashetty, P. I.; Pandey, M. K.

10.1101/2025.06.19.660531 — genomics — Posted on 2025-06-25

918 Genomic analysis reveals the interplay between ABA-GA in determining dormancy duration in groundnut

Mohinuddin, D. K.; Gangurde, S. S.; Khan, H.; Bomireddy, D.; Sharma, V.; Shah, P.; Sagar, U. N.; Dube, N.; Senthil, R.; Tembhurne, B. V.; Nayak, V. H.; Amaregouda, A.; Babu, K.; Singh, K.; Janila, P.; Guo, B.; Liao, B.; Varshney, R. K.; Pandey, M. K.

10.1101/2025.06.20.660118 — genomics — Posted on 2025-06-25

919 Whole-Genome Sequencing, Annotation and Phenotypic Taxonomic Confirmation of a Multidrug-Resistant Escherichia coli Strain Isolated from the Blood of a Sepsis Patient

Eze, P. M.; Dillon, L.; Gani, J.; Planche, T.; Oyama, L.; Creevey, C.

10.1101/2025.03.21.644136 — genomics — Posted on 2025-06-25

920 R-loops shape chromatin architecture to promote balanced lineage allocation during differentiation

Chao, C.-H.; Fazzio, T. G.

10.1101/2025.06.23.661125 — genomics — Posted on 2025-06-25

921 A trove of antiviral TRIM family E3 ligases in reptiles

Boys, I. N.; Quinlan, M. R.; Elde, N. C.

10.1101/2025.06.23.661133 — evolutionary biology — Posted on 2025-06-25

922 Going green: Recycling transcriptomes to infer evolutionary relationships, gene duplication, gene tree conflict, and patterns of molecular evolution in the Apocynaceae

Arreguin, S.; Walker-Hale, N.; Casagrande, M. R.; Bishop, S.; Pugacewicz, E.; Ramizuddin, M.; Savitzky, C.; Morales, N.; Dhan, A.; Dybas da Natividade, B.; Madrid, V.; Simmons, C.; Diaz, A.; Ahmed, D.; Ho, Z.; Nieto Pellecer, J.; Diaz, S.; Mathew, T.; Mirshed, T.; Simon, B. M. M.; Thai, N.; Dufault-Hunter, S.; Hampton-Marcell, J.; Walker, J. F.

10.1101/2025.06.20.660724 — evolutionary biology — Posted on 2025-06-25

923 Epigenetic age prediction using N6-methyladenine in the bumblebee Bombus terrestris

Renard, T.; Boseret, M.; Aron, S.

10.1101/2025.06.20.660749 — evolutionary biology — Posted on 2025-06-25

924 Wound-induced eyespots on butterfly wings at the intersection of immune response and pigmentation development

Jeronimo, M. A. G.; Garizo, A. R. C.; Atencio, G. W.; Duneau, D.; Beldade, P.

10.1101/2025.06.22.660915 — evolutionary biology — Posted on 2025-06-25

925 Host-specific adaptation and fitness trade-off of Barley Yellow Dwarf Viruses suggested by experimental evolution through aphid inoculation on multiple Poaceae species

Tamisier, L.; Colson, C.; Maclot, F.; Zhang, P.; Wang, X.; Francis, F.; Baurain, D.; Massart, S.

10.1101/2025.06.20.660669 — evolutionary biology — Posted on 2025-06-25

926 The transcriptomic signature of age and sex is not conserved in human primary myocytes

Lamon, S.; Soria, M.; Williams, R. M.; Critchlow, A.; Van Belleghem, K.; Garnham, A.; Varshney, A.; Beilharz, T.; Hiam, D.; Ziemann, M.

10.1101/2024.12.17.629041 — cell biology — Posted on 2025-06-25

927 Structural insights into DNA annealing and recombination by herpesviral DNA-binding proteins ICP8 and BALF2

Apte, G. R.; Patra, S.; Czarnocki-Cieciura, M.; Jabeen, A.; Jackiewicz, J.; Poznanski, J.; Nowotny, M.; Figiel, M.

10.1101/2025.06.25.661518 — molecular biology — Posted on 2025-06-25

928 Transglutaminase mediated crosslinking of pea protein: from rheology to proteomics

Mukherjee, A.; Van Pee, J.; Duijsens, D.; Grauwet, T.; Van de Voorde, I.; Fraeye, I.; Weiland, F.

10.1101/2025.06.24.661300 — molecular biology — Posted on 2025-06-25

929 Glycerol-3-phosphate activates ChREBP, FGF21 transcription and lipogenesis in Citrin Deficiency

Tiwari, V.; Jin, B.; Sun, O.; Lopez Gonzalez, E. D. J.; Chen, M.-H.; Wu, X.; Shah, H.; Zhang, A.; Herman, M. A.; Spracklen, C. N.; Goodman, R. P.; Brenner, C.

10.1101/2024.12.27.630525 — molecular biology — Posted on 2025-06-25

930 MTALTCO1: a 259 amino-acid long mtDNA-encoded alternative protein that challenges conventional understandings of mitochondrial genomics

Robitaille, F.; Campbell, A.; Ben Hadj, A.; Cornet, S.; Nadeau-Lachance, L.; Niaison, T.; Choquette, T.; Roucou, X.; Angers, A.; Breton, S.

10.1101/2024.09.22.614361 — molecular biology — Posted on 2025-06-25

931 Airway microbiome-host transcriptome networks link microbial dysbiosis to survival outcomes and therapeutic opportunities in severe COVID-19

Chen, K.-P.; Huang, C.-H.; Chen, K.-Y.; Hsu, C.-L.; Huang, H.-C.; Juan, H.-F.

10.1101/2025.06.24.661228 — microbiology — Posted on 2025-06-25

932 Defining the minimal structural requirements of DivIVA in filamentous Actinomycetota

Lubbers, M.; Bajramovic, B.; Ongenae, V.; Willemse, J.; de Bruin, D.; Mulder, N.; Vriesendorp, B.; Barona-Gomez, F.; Briegel, A.; van Wezel, G.; Flardh, K.; Claessen, D.

10.1101/2025.06.24.661030 — microbiology — Posted on 2025-06-25

933 The Renin-Angiotensin System Modulates SARS-CoV-2 Entry via ACE2 Receptor

Gagliardi, S.; Hotchkin, T.; Tibebe, H.; Hillmer, G.; Marquez, D.; Izumi, C.; Chang, J.; Diggs, A.; Ezaki, J.; Suzuki, Y. J. J.; Izumi, T.

10.1101/2025.06.25.661409 — microbiology — Posted on 2025-06-25

934 Endoplasmic reticulum-anchored nonstructural proteins drive human astrovirus replication organelle formation

Bengert, B.; Mehri, S.; Holliday, M.; Lennemann, N. J.

10.1101/2025.06.25.661519 — microbiology — Posted on 2025-06-25

935 Capsular specificity in temperate phages of Klebsiella pneumoniae is driven by diverse receptor-binding enzymes

Otwinowska, A.; Koszucki, J.; Panicker, V. R.; Leconte, J.; Olejniczak, S.; Holt, K.; Feil, E. J.; Rocha, E. P. C.; Smug, B.; Maciejewska, B.; Drulis-Kawa, Z.; Mostowy, R. J.

10.1101/2025.06.25.661490 — microbiology — Posted on 2025-06-25

936 Biogeochemical function of slicks in coastal surface waters of the Baltic Sea

Peter, C.; Giebel, H.-A.; Chai, B. C.; Serafim, T. S. G.; Lehners, C.; Wurl, O.; Osterholz, H.; Rahlff, J.

10.1101/2025.06.25.660598 — microbiology — Posted on 2025-06-25

937 Cell cycle dysregulation of globally important SAR11 bacteria resulting from environmental perturbation

Cheng, C.; Bennett, B. D.; Savalia, P.; Asrari, H.; Biel, C.; Evans, K. A.; Tang, R.; Thrash, C.

10.1101/2025.06.25.661606 — microbiology — Posted on 2025-06-25

938 DRP1/DMNL-1-mediated mitochondrial fission augments Rickettsia parkeri replication in macrophages

Kelly, N.; Collins, E.; Abuaita, B. H.; Martinez, J. J.

10.1101/2025.06.25.661470 — microbiology — Posted on 2025-06-25

939 Magnesium depletion unleashes two unusual modes of colistin resistancewith different fitness costs

Hsieh, Y.-Y. P.; O'Keefe, I. P.; Sun, W.; Wang, Z.; Yang, H.; Vu, L. M.; Ernst, R. K.; Dandekar, A. A.; Malik, H. S.

10.1101/2024.10.15.618514 — microbiology — Posted on 2025-06-25

940 Malassezia and the Asian menopausal skin

Davient, B.; Rikhraj, J. K.; Ravikrishnan, A.; Rozario, P.; Leong, C.; Mohamed Naim, A. N.; Chan, N.; The HELIOS Study Team, ; Common, J.; Chambers, J. C.; Yew, Y. W.; Loh, M.; Nagarajan, N.; Dawson, T. L.

10.1101/2025.06.24.660996 — microbiology — Posted on 2025-06-25

941 A single extracellular vesicle-based platform supporting both RBD protein and mRNA vaccination against SARS-CoV-2

Chung, J.; Kim, K. H.; An, S. H.; Bae, D.; Kim, J. H.; Kwon, K.; Kim, S.-H.

10.1101/2025.06.23.661193 — immunology — Posted on 2025-06-25

942 Neuropixels reveal structure-function relationships in monkey V1 in vivo

Carr, N.; Zhu, S.; Chen, X.; Lee, E. K.; Perliss, A.; Moore, T.; Chandrasekaran, C.

10.1101/2025.05.14.653875 — neuroscience — Posted on 2025-06-25

943 Individualized AI-driven neuromodulation enhances tongue motor and sensory control networks: a platform for neurorehabilitation in cancer survivors and patients with neurodegenerative disease.

Papageorgiou, T. D.; Webb, J.; Allam, A.; Reddy, S.; Huynh, D.; Hekmati, R.; Rohren, E. M.; Sturgis, E. M.; Hilsenbeck, S. G.; Heilbronner, S. R.; Hutcheson, K. A.; Thompson, A. M.; Neblett, C.; Froudarakis, E.

10.1101/2025.04.30.651533 — neuroscience — Posted on 2025-06-25

944 Generative Phenomenology of form perception: Perceptograms and cortical models for amblyopic phantom percepts

Maruya, A.; Ramakrishnan, B.; Olianezhad, F.; Wang, J.; Alonso, J. M.; Zaidi, Q.

10.1101/2025.06.24.661078 — neuroscience — Posted on 2025-06-25

945 Cortical Serotonin Type 2A Receptor Activation Shields Episodic-like Memories from Retroactive Interference in Rodents

Morici, J. F.; Zanoni, M. B.; Sacson, A.; Bekinschtein, P.; Weisstaub, N.

10.1101/2025.06.25.661375 — neuroscience — Posted on 2025-06-25

946 AKT2 modulates astrocytic nicotine responses in vivo.

Lombardi, A. M.; Griffioen, M.; Wong, H.; Milstead, R.; Borski, C.; Bower, M. E.; Shiely, E.; Schmitt, E.; LaPlante, L. E.; Ehringer, M. A.; Stitzel, J. A.; Hoeffer, C. A. A.

10.1101/2024.05.31.596856 — neuroscience — Posted on 2025-06-25

947 Adult-neurogenesis allows for representational stability and flexibility in early olfactory system

Chen, Z.; Padmanabhan, K.

10.1101/2024.07.02.601573 — neuroscience — Posted on 2025-06-25

948 Effects of matric versus osmotic potential changes on Variovorax beijingensis transcription

Kim, J.; Shockey, B.; Hofmockel, K. S.; Gao, X.; Masiello, C. A.; Silberg, J. J.

10.1101/2025.06.20.660813 — systems biology — Posted on 2025-06-25

949 Cellular characterization of the mouse collecting lymphatic vessels reveals that lymphatic muscle cells are the innate pacemaker cells

Zawieja, S. D.; Pea, G. A.; Broyhill, S. E.; Patro, A.; Bromert, K. H.; Norton, C. E.; Kim, H. J.; Sivasankaran, S. K.; Li, M.; Castorena-Gonzalez, J. A.; Drumm, B. T.; Davis, M. J.

10.1101/2023.08.24.554619 — physiology — Posted on 2025-06-25

950 Comparative Approaches for Quantification of Product Yield in the Production of Recombinant Green Fluorescent Protein (GFPuv) Expressed in E. coli

Rusch, G.; Wang, J.; Breau, K. A.; Kilgour, K.; Gilleskie, G.; Keele, J.; Selle, K.; Magness, S. T.; Menegatti, S.; Daniele, M.

10.1101/2024.06.24.600411 — biochemistry — Posted on 2025-06-25

951 Linked OXTR Variants Are Associated With Social Behavior Differences in Bonobos (Pan paniscus)

Skiba, S. A.; McCall, R.; Byers, A.; Waldron, S.; Epping, A. J.; Taglialatela, J. P.

10.1101/2023.12.22.573122 — evolutionary biology — Posted on 2025-06-25

952 Facilitating Analysis and Dissemination of Proteomics data through Metadata Integration in MaxQuant

Viegener, W.; Urazbakhtin, S.; Ferretti, D.; Cox, J.; Xiao, J.

10.1101/2025.06.20.660677 — bioinformatics — Posted on 2025-06-25

953 EZ-FRCNN: A Fast, Accessible and Robust Deep Learning Package for Object Detection Applications from Ethology to Cell Biology

Shappell, E.; Wheelock, J.; Aubry, G.; Lu, H.

10.1101/2025.06.19.660198 — bioengineering — Posted on 2025-06-25

954 Modeling Spectroradiometric Measurements of Oral Mucosal Autofluorescence

Farrell, J. E.; Mou, X.; Wandell, B. A.

10.1101/2025.06.19.660587 — bioengineering — Posted on 2025-06-25

955 Smooth muscle expression of RNA editing enzyme ADAR1 controls activation of RNA sensor MDA5 in atherosclerosis

Weldy, C. S.; Li, Q.; Monteiro, J. P.; Peters, T. S.; Guo, H.; Galls, D.; Gu, W.; Cheng, P. P.; Ramste, M.; Li, D. Y.; Palmisano, B. T.; Sharma, D.; Worssam, M. D.; Zhao, Q.; Bhate, A.; Kundu, R.; Nguyen, T.; Mokry, M.; Miller, C. L.; van der Laan, S. W.; Li, J. B.; Quertermous, T.

10.1101/2024.07.08.602569 — genomics — Posted on 2025-06-25

956 A protein complex in the extreme distal tip of vertebrate motilecilia controls their organization, length, and function

Hong, J.; Lee, C.; Madhu, G.; Papoulas, O.; Pan, J.; Takagishi, M.; Manzi, N.; Dickinson, D.; Horani, A.; Brody, S.; Marcotte, E.; Prakash, V. N.; Park, T. J.; Wallingford, J. B.

10.1101/2025.02.19.639145 — cell biology — Posted on 2025-06-25

957 Aging-associated Increase of GATA4 levels in Articular Cartilage is Linked to Impaired Regenerative Capacity of Chondrocytes and Osteoarthritis

Makarczyk, M.; Zhang, Y.; Aguglia, A.; Bartholomew, O.; Hines, S.; Sinkar, S.; Liu, S.; Duvall, C.; Lin, H.

10.1101/2025.03.18.643933 — cell biology — Posted on 2025-06-25

958 Atom-level mechanism of tapasin-independent peptide editing by Major Histocompatibility Complex class I molecules

Turner, S.; Darley, R.; Essex, J. W.; Sim, M. J. W.; van Hateren, A.; Elliott, T.

10.1101/2025.06.20.660712 — immunology — Posted on 2025-06-25

959 SLAy-ing oversplitting errors in high-density electrophysiology spike sorting

Koukuntla, S.; DeWeese, T.; Cheng, A.; Mildren, R.; Lawrence, A.; Graves, A. R.; Colonell, J.; Harris, T. D.; Charles, A. S.

10.1101/2025.06.20.660590 — neuroscience — Posted on 2025-06-25

960 Multi-omics comparative analyses of synucleinopathy models reveal distinct targets and relevance for drug development

Lizama, B. N.; Shin, R.; North, H. A.; Look, G.; Reaver, A.; Pandey, K.; Duong, D.; Seyfried, N. T.; Caggiano, A. O.; Hamby, M. E.

10.1101/2025.06.20.660336 — neuroscience — Posted on 2025-06-25

961 Amphetamine and Nicotine Reduce Sucrose Self-Administration Independent of Sex

Fulco, C.; Cordero, C.; George, K.; Roseberry, A. G.

10.1101/2025.06.20.660788 — neuroscience — Posted on 2025-06-25

962 Infection-Specific Reprogramming of Microglia Reveals Distinct Virulence Pathways Linking Periodontal Pathogens to Alzheimer's Disease

Kaminska, M.; Dudzinska, N.; Klapper, A.; Geissler, S.; Taudte, N.; Greiser, S.; Potempa, J.; Cynis, H.; Mydel, P.

10.1101/2025.06.06.658266 — neuroscience — Posted on 2025-06-25

963 Transient chromatin decompaction by histone deacetylation inhibition preferentially radiosensitizes cancerous breast epithelial cells at lower radiation doses

Li, H.; Maben, C.; Pal, D.; Davern, S.; McCord, R. P.

10.1101/2025.06.20.660786 — cancer biology — Posted on 2025-06-25

964 Integrated in silico and experimental screening identifies novel ligands that target precursor microRNA-31 at the Dicer cleavage site

Arhin, G.; Haghpassand, L.; Keane, S. C.

10.1101/2025.06.20.660744 — biophysics — Posted on 2025-06-25

965 TEITbase: a database for transposable element (TE)-initiated transcripts in human cancers

Zhang, Y.; She, J.; Hu, X.; Jin, Y.; Tao, C.; Du, M.; Yang, E.

10.1101/2025.05.19.654796 — bioinformatics — Posted on 2025-06-25

966 SpliceImpactR maps alternative RNA processing events driving protein functional diversity

Wakefield, Z. P.; Fiszbein, A.

10.1101/2025.06.20.660706 — bioinformatics — Posted on 2025-06-25

967 Two-Photon Lithography-Fabricated Deterministic Lateral Displacement Microfluidic System for Efficient Minicell Purification in Cancer Therapy

Sharavu, S. H.; Bhagwat, S.; Konak, B. M. K.; Di Ventura, B.; Pezeshkpour, P.; Rapp, B. E.

10.1101/2025.06.19.660580 — bioengineering — Posted on 2025-06-25

968 3-Dimensional Piezoelectric Fibrous Constructs for Muscle Regeneration

Karagiorgis, X.; Balatsoukas, G.; Baghini, M. S.; Maung, M.; Zong, J.; Niar, S.; Kumar, C.; Rodrigo-Navarro, A.; Mulvihill, D. M.; Skabara, P. J.; Garcia Nunez, C.; Dobre, O.

10.1101/2025.06.19.660455 — bioengineering — Posted on 2025-06-25

969 Network-based genetic monitoring of landscape fragmentation

Peled, O.; Kim, J.; Greenbaum, G.

10.1101/2025.06.18.660081 — genetics — Posted on 2025-06-25

970 Mutation accumulation underpins evolution of lifespan extension by dietary restriction

Irish, S. D.; Kimberley, A.; Immler, S.; Moorad, J.; Maklakov, A. A.

10.1101/2025.06.18.660314 — evolutionary biology — Posted on 2025-06-25

971 Tracking polygenic adaptation: phenotypic stasis after rapid adaptation in large populations of Drosophila

Ramirez-Lanzas, C.; Dolezal, M.; Signor, S.; Schlötterer, C.; Barghi, N.

10.1101/2025.06.09.658643 — evolutionary biology — Posted on 2025-06-25

972 Quantifying phenology in the deciduous tree and phytophagous insect system: a methodological comparison

Morley, L. M.; Crofts, S. J.; Cole, E. F.; Sheldon, B. C.

10.1101/2025.01.30.635661 — ecology — Posted on 2025-06-25

973 Cell cycle-coupled transcriptional network orchestrates human B cell fate bifurcation

Pease, N. A.; Fan, J.; Keshari, S.; Stratton, J.; Gerges, P.; Ann Varghese, B.; Nampoothiri VP, N.; McGinnnis, C. S.; Zhang, W.; Gierlack, S. B.; Swaminathan, T.; Sachan, A.; Manakkat Vijay, G.; Mena Hernandez, L.; Heidari Rarani, Z.; Macedo, C.; Metes, D.; Satpathy, A. T.; Jain, A. K.; Sahni, N.; Stallaert, W.; Das, J.; Singh, H.

10.1101/2025.04.23.649973 — immunology — Posted on 2025-06-25

974 Simulating Scalp EEG from Ultrahigh-Density ECoG Data Illustrates Cortex to Scalp Projection Patterns

Shirazi, S. Y.; Onton, J.; Makeig, S.

10.1101/2025.06.24.660870 — neuroscience — Posted on 2025-06-25

975 Functional recovery of the adult murine hippocampus after cryopreservation by vitrification

German, A.; Akdas, E. Y.; Fluegel-Koch, C.; Fejtova, A.; Winkler, J.; Alzheimer, C.; Zheng, F.

10.1101/2025.01.22.634384 — neuroscience — Posted on 2025-06-25

976 Does stimulus order affect central tendency and serial dependence in vestibular path integration?

Willemsen, S. C. M. J.; Oostwoud Wijdenes, L.; van Beers, R. J.; Koppen, M.; Medendorp, W. P.

10.1101/2025.06.20.660787 — neuroscience — Posted on 2025-06-25

977 Synergistic effects of APOE ϵ4 and Alzheimer's pathology on the neural correlates of episodic remembering in cognitively unimpaired older adults

Trelle, A. N.; Sheng, J.; Wilson, E. N.; Romero, A.; Park, J.; Deutsch, G. K.; Sha, S. J.; Greicius, M. D.; Andreasson, K. I.; Kerchner, G. A.; Mormino, E. C.; Wagner, A. D.

10.1101/2025.06.20.660774 — neuroscience — Posted on 2025-06-25

978 Maternal singing synchronizes the preterm infants' brain

Benis, D.; Margaria, J.; Barcos-Munoz, F.; Miehlbradt, J.; Lavezzo, L.; Grandjean, D.; Vollenweider, A.; Henriot, S.; Huppi, P. S.; Filippa, M.

10.1101/2025.06.24.660986 — neuroscience — Posted on 2025-06-25

979 Characterization of the BRAF interactome identifies BRAFV600E<=>TP53 interaction in melanoma

O'Toole, K. T.; Martinez, A.; Murphy, B.; Proveyeka, A.; Fort, G.; Al-Sudani, F.; Boggaram, S.; Paine, E. L.; Baral, D.; Andersen, J. L.; Parkman, G.; Snyder, E. L.; Judson-Torres, R.; McMahon, M.

10.1101/2025.06.20.660711 — cancer biology — Posted on 2025-06-25

980 Hornbills Adjust Response Speed According to Solvability of Patterned-Strings Problems

Xue, C.; Garcia-Pelegrin, E.

10.1101/2025.06.25.661464 — animal behavior and cognition — Posted on 2025-06-25

981 Female assortment in Gouldian Finch (Chloebia gouldiae) Flocks: A case of female-driven social niche construction?

Kohn, G. M.; Mateo, T.; Gibson, A.; Galloway, C.

10.1101/2025.06.22.660960 — animal behavior and cognition — Posted on 2025-06-25

982 "Spatial pattern of herbaceous seed dispersal by ungulates in grasslands of the Donana National Park (SW Spain)".

Leiva, M. J.; Fedriani, J. M.

10.1101/2025.06.19.660649 — ecology — Posted on 2025-06-25

983 The superficial tufted and mitral cell output neurons of the mouse olfactory bulb have a dual role in insulin sensing

Kolling, L. J.; Marcinkiewcz, C.; Fadool, D. A.

10.1101/2025.04.15.648999 — neuroscience — Posted on 2025-06-25

984 Activation of Infralimbic cortex neurons projecting to the nucleus accumbens shell suppresses discriminative stimulus-triggered relapse to cocaine seeking in rats

Algallal, H.; Laplante, I.; Casale, D.; Najafipashaki, S.; Pomerleau, A.; Paquette, T.; Samaha, A.-N.

10.1101/2025.06.23.661090 — neuroscience — Posted on 2025-06-25

985 Novel mouse model of cerebral microbleeds created by Crispr/Cas9-mediated Col4a1 deletion in adult brain microvessels

Kim, H.; Seo, Y.; Kho, H.; Singh, S. S.; Lee, J.; Lee, H.; Hwang, J.-W.; Riew, T.-R.; Koh, S.; Choi, J. Y.; Roh, H. W.; Son, S. J.; Kim, G. T.; Cho, S. K.; Jin, H.-S.; Jeong, S.-Y.; Lee, K. I.; Lee, J. Y.; Kim, B. G.

10.1101/2025.06.22.660900 — neuroscience — Posted on 2025-06-25

986 Harnessing cell-encapsulated hydrogels to study astrocyte mechanoresponse in 4D

Strat, A. N.; Patel, S.; Ho Thanh, M. T.; Kirschner, A.; Ghosh, S.; Geiss, M. P.; Viapiano, M.; Liu, Y.; Patteson, A. E.; Herberg, S.; Ganapathy, P. S.

10.1101/2025.06.20.660800 — neuroscience — Posted on 2025-06-25

987 Creativity Potential Networks: Brain Markers for Novelty and Feasibility of Upcoming Divergent Thinking Solutions

Huang, Y. T.; Wu, C.-T.; Chao, Z. C.

10.1101/2025.06.24.661027 — neuroscience — Posted on 2025-06-25

988 Humans Optimally Integrate Cutaneous and Proprioceptive Cues In Haptic Size Perception

Allen, K. S.; Goldreich, D.

10.1101/2025.06.24.661403 — neuroscience — Posted on 2025-06-25

989 Regulation of Adult Zebrafish Retinal Regeneration by Lamβ1b-Chain-Containing Laminins

Serjanov, D.; Twist, J.; Jiang, H.; Hyde, D. R.

10.1101/2025.06.24.661136 — neuroscience — Posted on 2025-06-25

990 Blocking somatic repeat expansion and lowering huntingtin via RNA interference synergize to prevent Huntingtons disease pathogenesis in mice

Belgrad, J.; Summers, A.; Landles, C.; Greene, J. R.; Hildebrand, S.; Knox, E.; Sapp, E.; Yamada, N.; Furgal, R.; Miller, R.; Osborne, G. F.; Chase, K.; Luu, E.; Freedman, J.; Bramato, B.; McHugh, N.; Benoit, V.; OReilly, D.; Greer, P.; Bates, G. P.; Vogt, T. F.; Lee, R.; Howland, D.; DiFiglia, M.; Aronin, N.; Khvorova, A.

10.1101/2025.06.24.661398 — neuroscience — Posted on 2025-06-25

991 Spatially resolved mapping of histones reveal selective neuronal response in Rett syndrome

Lahiri, S.; Schäfer, F.; De Rocco, G.; Völker-Albert, M.; Forne, I.; Landsberger, N.; Imhof, A.

10.1101/2025.06.23.661075 — neuroscience — Posted on 2025-06-25

992 Contralesional grey matter volume as an index of macrostructural plasticity in patients with brain tumors

Manso-Ortega, L.; Gisbert-Munoz, S.; Amoruso, L.; Bermudez, G.; Gil-Robles, S.; Pomposo-Gastelu, I.; Carreiras, M.; Quinones, I.

10.1101/2025.06.24.661278 — neuroscience — Posted on 2025-06-25

993 A spatial atlas of chemoradiation therapy in pancreatic cancer identifies cellular and microenvironmental determinants of persister populations

Bernard, V.; Ku, L.-T.; Wang, T.; Acevedo-Diaz, A.; Rajapakshe, K. I.; Jacobson, G.; Tovar, D.; Min, J.; Pei, G.; Tat, C.; Suresh, A.; Tzeng, C.-W. D.; Katz, M. H.; Bhutani, M. S.; Wang, H.; Wolff, R. A.; Haymaker, C.; Ludmir, E. B.; Huang, H.; Chen, X.; Li, L.; Koong, A. C.; Wang, L.; Navin, N. E.; Jiang, D.; Li, Z.; Maitra, A.; Koay, E. J.

10.1101/2025.06.20.660757 — cancer biology — Posted on 2025-06-25

994 Phosphoinositide 3-kinase regulates wild-type RAS signaling to confer resistance to KRAS inhibition

Ge, X.; Singh, J.; Li, W.; Markham, C. S.; Ruiz, C. F.; Bhattacharyya, M.; Liu, Y.; Muzumdar, M. D.

10.1101/2025.06.20.660715 — cancer biology — Posted on 2025-06-25

995 A Geometrical Optics Model of Individual Ommatidia in Compound Eyes and a Hypothesis for Monocular Stereopsis

Ding, Y.; Ding, D.; Ding, D.; Jiang, R.

10.1101/2025.06.19.660517 — biophysics — Posted on 2025-06-25

996 Criticality-driven enhancer-promoter dynamics in Drosophila chromosomes

Ganesh, G.; Fiche, J.-B.; Nöllmann, M.; Mozziconacci, J.

10.1101/2025.06.20.660702 — biophysics — Posted on 2025-06-25

997 Biological point-light displays scanning by the principal eyes of a jumping spider

De Agro, M.; Winsor, A.; Walsh, W.; Shamble, P. S.; Jakob, E.

10.1101/2025.06.23.661007 — animal behavior and cognition — Posted on 2025-06-25

998 Predictability of preference from acceptance: influence of visual and olfactory stimuli in the Mediterranean fruit fly

Facon, B.; Ravigne, V.; Foucaud, J.; Fraimout, A.; Robejean, M.; Serrate, B.; Chauve, M.

10.1101/2025.06.20.660717 — animal behavior and cognition — Posted on 2025-06-25

999 SelNeTime: a python package inferring effective population size and selection intensity from genomic time series data

Uhl, M.; Bunel, P.; de Navascues, M.; boitard, s.; Servin, B.

10.1101/2024.11.06.622284 — evolutionary biology — Posted on 2025-06-25

1000 Bird species with color polymorphism have greater ecological success

Kazuya, H.; Sato, E.; Sekercioglu, C. H.; Noriyuki, S.; Takahashi, Y.

10.1101/2025.06.19.660624 — ecology — Posted on 2025-06-25

1001 Protein kinase C inhibitor suppresses 2-cell stage development and perinuclear vesicle formation in mouse zygotes

Suzuki, T.; Sakamaki, Y.

10.1101/2025.06.23.661161 — developmental biology — Posted on 2025-06-25

1002 Cockroach bacteriocytes migrate into the ovaries for vertical transmission of the bacterial endosymbiont Blattabacterium

Noda, T.; Harumoto, T.; Katsuno, T.; Moriyama, M.; Fukatsu, T.

10.1101/2025.06.22.660904 — developmental biology — Posted on 2025-06-25

1003 The generation of viable, structurally integrated human-mouse chimaeras through enhanced hPSCs proliferation

Sato, H.; Yanagida, A.; Kasai, M.; Mizuno, N.; Mizutani, E.; Yamamoto, H.; Ishii, S.; Hihara, T.; Yamazaki, K.; Uchikura, A.; Nakano, K.; Ito, M.; Nagashima, H.; Masaki, H.; Nakauchi, H.

10.1101/2025.06.24.661270 — developmental biology — Posted on 2025-06-25

1004 Asperous coordinates regenerative timing by regulating damage-induced WNT Signaling

Cave, S. A.; Sonowal, M.; Van Hazel, C.; Fromme, P.; Harris, R. E.

10.1101/2025.06.24.661394 — developmental biology — Posted on 2025-06-25

1005 Beyond Pairwise Interactions: Charting Higher-Order Models of Brain Function

Santoro, A.; Neri, M.; Poetto, S.; Orsenigo, D.; Diano, M.; Gatica, M.; Petri, G.

10.1101/2025.06.24.661306 — neuroscience — Posted on 2025-06-25

1006 MEGaNorm: Normative Modeling of MEG Brain Oscillations Across the Human Lifespan

Zamanzadeh, M.; Verduyn, Y.; de Boer, A. A. A.; Ros, T.; Wolfers, T.; Dinga, R.; Safar Postma, M.; Marquand, A. F.; van Wingerden, M.; Kia, S. M.

10.1101/2025.06.23.660997 — neuroscience — Posted on 2025-06-25

1007 Safety processing shifts from hippocampal to network engagement across adolescence

Zhang, Y.; Coates, M.; Garrido, M. I.; Tashjian, S. M.

10.1101/2025.06.23.661189 — neuroscience — Posted on 2025-06-25

1008 Social Jetlag Has Detrimental Effects on Hallmark Characteristics of Adolescent Brain Structure, Circuit Organization and Intrinsic Dynamics

Risner, M.; Katz, E.; Stamoulis, C.

10.1101/2025.06.22.660935 — neuroscience — Posted on 2025-06-25

1009 Autophagy activators normalize aberrant Tau proteostasis and rescue synapses in human familial Alzheimer's disease iPSC-derived cortical organoids

Labra, S. R.; Compher, J.; Prabhavalkar, A.; Almaraz, M.; Cedeno Kwong, C.; Baal, C.; Talantova, M.; Dolatabadi, N.; Pina-Sanz, J.; Wang, Y.; Yoon, L.; Ghatak, S.; Gao, Z.; Zhang, Y.; Trudler, D.; Massey, L.; Lin, W.; Balistreri, A.; Bula, M.; Mondala, T. S.; Schork, N. J.; Head, S. R.; Kelly, J. W.; Lipton, S. A.

10.1101/2025.06.25.661453 — neuroscience — Posted on 2025-06-25

1010 Oscillatory markers of interoceptive attention: beta suppression as a neural signature of heartbeat processing

Pultsina, K.; Parviainen, T.; Karjalainen, S.

10.1101/2025.06.24.660939 — neuroscience — Posted on 2025-06-25

1011 Testing Sensorimotor Timing in a Living Laboratory: Behavioral Signatures of a Neural Oscillator

Serre, H.; Harrigian, K.; Park, S.-W.; Sternad, D.

10.1101/2025.06.25.661347 — neuroscience — Posted on 2025-06-25

1012 Healthy human eyes misaligned optical components: Binocular Listings law

Turski, J.

10.1101/2025.06.23.661014 — neuroscience — Posted on 2025-06-25

1013 A Deep Learning Framework for Predicting Functional Visual Performance in Bionic Eye Users

Skaza, J.; Murlidaran, S.; Varshney, A.; Wen, Z.; Wang, W.; Eckstein, M. P.; Beyeler, M.

10.1101/2025.06.23.660990 — neuroscience — Posted on 2025-06-25

1014 Perceptual processes as charting operators

Neri, P.

10.1101/2025.06.25.661475 — neuroscience — Posted on 2025-06-25

1015 Similar Dynamic Frontal Cortex Representations of Auditory Stimuli Cueing Opposite Actions and Rewards

Yin, P.; Radtke-Schuller, S.; Fritz, J.; Shamma, S.

10.1101/2025.06.22.660924 — neuroscience — Posted on 2025-06-25

1016 Ocular delivery of different VCP inhibitory formulations prevents retinal degeneration in rhodopsin 255 isoleucine deletion mice

Cao, B.; Muehlfriedel, R.; Sen, M.; Almansa Garcia, A. C.; Seeliger, M.; Petremann-Dume, A.-S.; Kilger, E.; Vollert, A.; Bolz, S.; Henes, C.; Caliceti, P.; Salmaso, S.; Ueffing, M.; Arango-Gonzalez, B.

10.1101/2025.06.25.661245 — neuroscience — Posted on 2025-06-25

1017 The impact of contingency awareness on the neurocircuitry underlying pain-related fear and safety learning

Labrenz, F.; Elsenbruch, S.; Icenhour, A.

10.1101/2025.06.25.661520 — neuroscience — Posted on 2025-06-25

1018 Gut microbial diversity and inferred capacity to produce butyrate modulate cortisol reactivity following acute stress in healthy adults

Karner, T.; Forbes, P. A. G.; Berry, D.; Wagner, I. C.

10.1101/2025.06.24.661294 — neuroscience — Posted on 2025-06-25

1019 Fine-grained alignment of cortical signals to smartphone touchscreen temporal pattern

Wan, W.; Ghosh, A.

10.1101/2025.06.22.660920 — neuroscience — Posted on 2025-06-25

1020 Disentangling the Functional Roles of Pre-Stimulus Oscillations in Crossmodal Associative Memory Formation via Sensory Entrainment

Maack, M. C.; Ostrowski, J.; Rose, M. C.

10.1101/2025.06.24.661289 — neuroscience — Posted on 2025-06-25

1021 Multiple groups of neurons in the superior colliculus convert value signals into saccadic vigor.

Gopal, A.; Hikosaka, O.

10.1101/2025.06.24.661386 — neuroscience — Posted on 2025-06-25

1022 Mitochondrial Energy Transformation Capacity Influences Brain Activation During Sensory, Affective, and Cognitive Tasks

Bo, K.; Kelly, C.; Trumpff, C.; Hirano, M.; Wager, T.; Picard, M.

10.1101/2025.06.25.661482 — neuroscience — Posted on 2025-06-25

1023 β-bursting as a sensitive neural marker of inhibitory control in healthy older adults: a linear mixed-effects modelling and threshold-free cluster approach

Warden, A. C. M.; Cruse, D.; McAllister, C.; MacDonald, H. J.

10.1101/2025.06.21.660835 — neuroscience — Posted on 2025-06-25

1024 Bidirectional regulation of glycoprotein nonmetastatic melanoma protein B by β-glucocerebrosidase deficiency in GBA1 isogenic dopaminergic neurons from a patient with Gaucher disease and parkinsonism

Chen, C.; Ma, C.; Sam, R.; Lichtenberg, J.; Chen, T.; Hao, Y.; Li, Z.; Kowal, I.; Andersh, K.; Qi, Y. A.; Perez, G.; Hertz, E.; Li, Y.; Williams, D.; Henderson, M. J.; Park, M.; Jiang, X.; Jerez, P. A.; Blauwendraat, C.; Sidransky, E.; Chen, Y.

10.1101/2025.06.23.661126 — neuroscience — Posted on 2025-06-25

1025 Tracking the Morphological Evolution of Neuronal Dendrites by First-Passage Analysis

Kreten, F.; Niemeyer, B.; Santen, L.; Shaebani, R.

10.1101/2024.10.13.618072 — neuroscience — Posted on 2025-06-25

1026 Optogenetic activation of entorhinal projection neurons alters the target recognition and circuit development without enhancing axon regeneration after axotomy in organotypic slices.

Wells-Cembrano, K.; Riu-Villanueva, M.; Lopez-Jimenez, J. J.; Segura-Feliu, M.; Gavin, R.; del Rio, J. A.

10.1101/2025.06.22.660916 — neuroscience — Posted on 2025-06-25

1027 Neural mechanisms of training in Brain-Computer Interface: ABiophysical modeling approach

Debnath, A.; Venot, T.; Corsi, M.-C.; Verma, P.

10.1101/2025.06.21.660834 — neuroscience — Posted on 2025-06-25

1028 Cerebral vascular tortuosity and aneurysm formation and rupture: a novel vessel tortuosity scale

Knott, M. V.; Hamad, N.; Rodrigues, P. B.; Sanikommu, S.; Suon, J. S.; Hernandez-Cuervo, H.; Toledo, J.; Abdelsalam, A.; Eatz, T. A.; Del Brutto, V. J.; Luther, E. M.; Bhattacharya, S. K.; Hare, J. M.; Toborek, M.; Vazquez-Padron, R. I.; Thompson, J. W.; Starke, R. M.

10.1101/2025.06.24.661364 — neuroscience — Posted on 2025-06-25

1029 Profiling Lysosomal and Mitochondrial Dysfunction in Neurodegenerative Diseases Using Human Fibroblasts for Translational Therapeutic Screening

Leite, D. M.; Lenham, R.; Malko, P.; Thomson, S.; Phillips, T.; Rosenstock, T. R.; Mirza, N. R.

10.1101/2025.06.24.661057 — neuroscience — Posted on 2025-06-25

1030 Early life food insecurity impairs memory function during adulthood

Kao, A. E.; Moody, O. P.; Noble, E. E.; Myers, K. P.; Kanoski, S. E.; Hayes, A. M. R.

10.1101/2025.06.22.660913 — neuroscience — Posted on 2025-06-25

1031 Evolutionary Perspectives on Anxiety: Telencephalic Circuitry and the Anxiogenic Role of TrkB Signaling in Tuberous Sclerosis Complex

Doszyn, O.; Zmorzynska, J.

10.1101/2025.06.23.661056 — neuroscience — Posted on 2025-06-25

1032 Kappa opioid receptors control a stress-sensitive brain circuit and drive cocaine seeking

Damonte, V. M.; Bailey, L. G.; Thakar, A.; Stralka, J.; Brown, T. E.; Kauer, J. A.

10.1101/2025.06.23.661181 — neuroscience — Posted on 2025-06-25

1033 Multiomics analysis identifies VPA-induced changes in neural progenitor cells, ventricular-like regions, and cellular microenvironment in dorsal forebrain organoids

Yentuer, Z.; Sarieva, K.; Branco, L.; Kagermeier, T.; Kulka, C.; Jarboui, M. A.; Becker, K.; Mayer, S.

10.1101/2025.06.24.661272 — neuroscience — Posted on 2025-06-25

1034 Peroxisomal import is circadian in glia and regulates sleep and lipid metabolism

Das, A.; Serna, I. M. R.; Kumar, A.; Kalita, H.; Sherpa, L.; Vaughen, J. P.; Bai, H.

10.1101/2025.06.23.661129 — neuroscience — Posted on 2025-06-25

1035 Generative Phenomenology of form perception: Perceptograms and cortical models for amblyopic form distortions

Maruya, A.; Ramakrishnan, B.; Olianezhad, F.; Wang, J.; Alonso, J. M.; Zaidi, Q.

10.1101/2025.06.24.661078 — neuroscience — Posted on 2025-06-25

1036 The Effects of Ketamine on Methamphetamine Withdrawal-Induced Anxiety and Drug-Seeking Behaviors in the Rat

Ghilotti, M. G.; Unterwald, E.; Stern, D.; Petrilli Fortuna, R.; Osei-Abrefa Ayensu, K.

10.1101/2025.06.24.661345 — neuroscience — Posted on 2025-06-25

1037 Substrate properties and actin polymerization speed dictate universal modes of cell migration: gripping, slipping, and stick-slip

Ye, Y.; Lin, J.

10.1101/2025.06.20.660727 — biophysics — Posted on 2025-06-25

1038 Zinc-induced folding and solution structure of the eponymous novel zinc finger from the ZC4H2 protein

Harris, R. E.; Rua, A. J.; Alexandrescu, A. T.

10.1101/2025.06.19.660640 — biophysics — Posted on 2025-06-25

1039 Novel algal modular LOV domain proteins expand opto-biotechnological avenues for controlling of eukaryotic riboswitching, translational and proteolytic processes.

Manisha, ; Singh, R.; KATERIYA, S.

10.1101/2025.06.20.660589 — bioinformatics — Posted on 2025-06-25

1040 Dissociable effects of curiosity and hedonic valence on reinforcement learning

Rothenhoefer, K. M.; Romac, M. D.; Henderson, K.; Costa, V. D.

10.1101/2025.06.24.660807 — animal behavior and cognition — Posted on 2025-06-25

1041 Tropical montane and temperate hummingbirds incubate in small installments over long periods

Baldwin, J.; Munoz, M. A. L.; Sandoval-H., J.; Robinson, S. K.; Martinez, A.; Londono, G. A.

10.1101/2025.06.19.660382 — ecology — Posted on 2025-06-25

1042 Stay or Stray: Lpar1 regulates neutrophil retention and epidermal homeostasis in early zebrafish development

Li, S.-C.; Lin, Y.-C.; Hsiao, C.-D.; Lee, S.-J.

10.1101/2025.06.22.660980 — developmental biology — Posted on 2025-06-25

1043 Transgenerational effects induced by thiacloprid in Anterior prostate tissue are associated with alterations in DNA methylation at developmental genes.

Dali, O.; Diba Lahmidi, C.; Belkhir, T. M.; De Gestas, T.; Kervarrec, C.; Kernanec, P.-Y.; Smagulova, F.

10.1101/2025.06.20.660738 — developmental biology — Posted on 2025-06-25

1044 A role for the nuclear RNAi pathway in global transcriptional silencing in C. elegans primordial germ cells

Chien, E.; Belew, M. D.; Michael, W. M.

10.1101/2025.06.25.661390 — developmental biology — Posted on 2025-06-25

1045 Immune tracheal intercellular signalling coordinates the muscle injury response in Drosophila

Ammar, N.; Josse, O.; Guillou, A.; Perochon, J.; Boukhatmi, H.

10.1101/2025.06.25.661466 — developmental biology — Posted on 2025-06-25

1046 Retinoic acid-regulated epigenetic marks identify Alx1 as a direct target gene required for optic cup formation

Berenguer, M.; Duester, G.

10.1101/2025.06.24.661406 — developmental biology — Posted on 2025-06-25

1047 Dolutegravir Developmental Toxicity is Mitigated by Magnesium and Folate in Zebrafish Embryos

Cabrera, R. M.; Mohamed, A.; Minowa, R.; Neugebauer, K. A.; Gorelick, D. A.

10.1101/2025.06.24.661395 — developmental biology — Posted on 2025-06-25

1048 Fetal Dehydroepiandrosterone from Hair Samples at Birth Predicts Language Development

Reimann-Ayikoez, M.; Preiss, J.; Reisenberger, E.; Florea, C.; Angerer, M.; Schabus, M.; Roehm, D.; Schaadt, G.; Maennel, C.

10.1101/2025.06.24.661252 — developmental biology — Posted on 2025-06-25

1049 Altered cognitive processes shape tactile perception in autism.

Semelidou, O.; Tortochot-Megne Fotso, M.; Winderickx, A.; Frick, A.

10.1101/2025.06.25.661477 — neuroscience — Posted on 2025-06-25

1050 Tracing infant sleep neurophysiology longitudinally from 3 to 6 months: EEG insights into brain development

Beaugrand, M.; Jaramillo, V.; Muhlematter, C.; Schoch, S. F.; Reicher, V.; Markovic, A.; Kurth, S.

10.1101/2025.06.25.661476 — neuroscience — Posted on 2025-06-25

1051 Single-Cell and Population-Level Neuromodulation Dynamics in Dual-Electrode Intracortical Stimulation

Kim, K.; Sonego, V.; Strohmer, B.; Chang, B.; Liu, X.; Yonza, A. K. I.; Kucharz, K.; Asiminas, A.; Lind, B. L.; Tao, L.; zhang, X.; Fried, S.; Han, A.; Cai, C.

10.1101/2025.06.25.661479 — neuroscience — Posted on 2025-06-25

1052 Smaller stepping thresholds in older adults might be related to reduced ability to suppress conflicting sensory information

Carey, H. D.; De Groote, F.

10.1101/2025.06.25.661273 — neuroscience — Posted on 2025-06-25

1053 Cortical Serotonin Type 2A Receptor Activation Shields Episodic-like Memories from Retroactive Interference in Rodents

Morici, J. F. F.; Zanoni, M. B.; Sacson, A.; Bekinschtein, P.; Weisstaub, N.

10.1101/2025.06.25.661375 — neuroscience — Posted on 2025-06-25

1054 Self-inactivating AAV-CRISPR at different ages enables sustained amelioration of Huntington's disease deficits in BAC226Q mice

Dai, Y.; Abudujielili, Z.; Ding, Y.; Huang, W.; Yin, J.; Ou, L.; Hu, J.; Zheng, S.; Li, C.

10.1101/2025.06.24.661435 — neuroscience — Posted on 2025-06-25

1055 Spatial transcriptomic profiling of human paravertebral sympathetic chain ganglia reveals diabetes-induced neuroplasticity

Moreno, M. M.; Patel, P.; Goss, K.; Mian, S. M.; Nakisli, S.; Inturi, N. N.; Shiers, S.; Horton, P.; Cervantes, A.; Funk, G.; Khan, T.; Vines, E.; Klein, R. M.; Henze, D. A.; Tavares-Ferreira, D.; Price, T. J.; Yousuf, M. S.

10.1101/2025.06.24.661373 — neuroscience — Posted on 2025-06-25

1056 T-401 binding to monoacylglycerol lipase (MAGL) in the brains of patients and mice with temporal lobe epilepsy

Aripaka, S. S.; Pazarlar, B. A.; Pinborg, L. H.; Bonde-Larsen, K.; Gastambide, F.; Bang-Andersen, B.; Bastlund, J. F.; MIKKELSEN, J. D.

10.1101/2025.06.24.661388 — neuroscience — Posted on 2025-06-25

1057 Genetically encoded nAChR upregulation is neuroprotective in female parkinsonian mice

Pandey, G.; Garcia, R. C.; Das, D.; Pollock, D.; Karthik, N.; Nalluri, S.; Nguyen, T.; Polo, C.; Zarate, S. M.; Srinivasan, R.

10.1101/2025.06.23.661175 — neuroscience — Posted on 2025-06-25

1058 Oscillatory Control of Cortical Space as a Computational Dimension

Chen, Z.; Brincat, S. L.; Lundqvist, M.; Loonis, R. F.; Warden, M. R.; Miller, E. K.

10.1101/2025.06.24.661361 — neuroscience — Posted on 2025-06-25

1059 Interpretable abstractions of artificial neural networks predict behavior and neural activity during human information gathering

D'Ambrogio, S.; Grohn, J.; Khalighinejad, N.; Mattar, M.; Hunt, L. T.; Rushworth, M. F.

10.1101/2025.06.24.661282 — neuroscience — Posted on 2025-06-25

1060 Mosaic human cortical organoids model mTOR-related focal cortical dysplasia through DEPDC5 loss-of-function

Maletic, M.; Bizzotto, S.; Ribierre, T.; Guerdoud, K.; Raoux, C.; Doladilhe, M.; Dalle, C.; Picard, F.; Baulac, S.

10.1101/2025.06.25.661323 — neuroscience — Posted on 2025-06-25

1061 EEG-GAN: A Generative EEG Augmentation Toolkit for Enhancing Neural Classification

Williams, C. C.; Weinhardt, D.; Hewson, J.; Plomecka, M. B.; Langer, N.; Musslick, S.

10.1101/2025.06.23.661164 — neuroscience — Posted on 2025-06-25

1062 Expectations and uncertainty shape pain perception during learning

Lacombe-Thibault, M.; Coll, M.-P.

10.1101/2025.06.24.661242 — neuroscience — Posted on 2025-06-25

1063 Vitamin D attenuates TNF-α-mediated neurotoxicity and improves functional recovery in experimental intracerebral haemorrhage

Cheng, S. Y.; Kiang, K. M.; Zhong, Z.; Leung, G. K.-K.

10.1101/2025.06.22.660985 — neuroscience — Posted on 2025-06-25

1064 Lysosomal Enhancement Prevents Infection with PrPSc, α-Synuclein & Tau Prions

Mercer, R. C. C.; Le, N. T.; Mirza-Romero, N.; Flaherty, E.; Lavigna, G.; Orbe, I. C.; Gatdula, J. R. P.; Fraser, D. G.; Sundaravadivelu, A.; Vultaggio, J. S.; Beeler, A. B.; Chiesa, R.; Telling, G. C.; Harris, D. A.

10.1101/2025.06.24.661349 — neuroscience — Posted on 2025-06-25

1065 ALE Meta-Analysis Reveals Neural Substrates for the Impact of Prematurity on Executive Functioning in Children and Adults

Youngkin, A. E.; Snetkov, G.; Grady, C.; Puglia, M. H.; Frazier, K.; Pelphrey, K. A.; Fairchild, K.; Goodkin, H. P.; Evans, T. M.

10.1101/2025.06.24.661281 — neuroscience — Posted on 2025-06-25

1066 Decision-making components and times revealed by the single-trial electro-encephalogram

Weindel, G.; Borst, J. P.; van Maanen, L.

10.1101/2025.06.25.661505 — neuroscience — Posted on 2025-06-25

1067 Evidence for divergent cortical organisation in Parkinsons disease and Lewy Body Dementia

Zarkali, A.; Thomas, G. E. C.; Hannaway, N.; Dobreva, I.; Grant-Peters, M.; Ryten, M.; Callaghan, M. F.; Weil, R. S.

10.1101/2025.06.25.661456 — neuroscience — Posted on 2025-06-25

1068 TBRS-associated DNMT3A mutations disrupt cortical interneuron differentiation and neuronal networks

Chapman, G.; Determan, J.; Edwards, J. R.; Huettner, J. E.; Crump, S.; Jetter, H.; Gabel, H. W.; Kroll, K. L.

10.1101/2025.06.24.661324 — neuroscience — Posted on 2025-06-25

1069 Theory of Temporal Pattern Learning in Echo State Networks

Hakim, V.; Karma, A.

10.1101/2025.06.23.661158 — neuroscience — Posted on 2025-06-25

1070 Medial Frontal Theta Reduction Impairs Rule Switching via Prediction Error

Zhang, Y.; Deng, F.; Liao, J.; Verguts, T.; Chen, Q.

10.1101/2025.06.24.661140 — neuroscience — Posted on 2025-06-25

1071 Altered therapeutic capacities of olfactory ensheathing cells caused by a lesion in an autologous transplantation model for the treatment of spinal cord injury.

Delarue, Q.; Brodier, M.; Neveu, P.; moncomble, L.; Raimond, C.; Robac, A.; Hugede, A.; Blondin, A.; Semprez, F.; Lecras, P.; Riou, G.; Guerout, N.

10.1101/2025.06.20.660789 — neuroscience — Posted on 2025-06-25

1072 In vivo cartography of state-dependent signal flow hierarchy in the human cerebral cortex

Oh, Y.; Ann, Y.; Lee, J.; Ito, T.; Froudist-Walsh, S.; Paquola, C.; Milham, M.; Spreng, R. N.; Margulies, D.; Bernhardt, B.; Woo, C.-W.; Hong, S.-J.

10.1101/2025.06.24.660962 — neuroscience — Posted on 2025-06-25

1073 Disassociating cerebral vasomotion from low frequency spontaneous neurovascular coupling

Wang, R.; Patel, P.; Boorman, L.; Okun, M.; Howarth, C.; Berwick, J.

10.1101/2025.06.23.661067 — neuroscience — Posted on 2025-06-25

1074 Deceptive safety? The impact of costly pain avoidance on the modulation and extinction of visceral pain-related fear

Labrenz, F.; Kalenbach, A.; Elsenbruch, S.; Icenhour, A.

10.1101/2025.06.25.661529 — neuroscience — Posted on 2025-06-25

1075 Identifiability of Bayesian Models of Cognition

Hahn, M.; Wang, E.; Wei, X.-X.

10.1101/2025.06.25.661321 — neuroscience — Posted on 2025-06-25

1076 Controlling a simple model of bipedal walking to adapt to a wide range of target step lengths and step frequencies

Mehdizadeh, S.; Donelan, J. M.

10.1101/2025.06.23.661013 — neuroscience — Posted on 2025-06-25

1077 Protein kinase CK2 alpha prime as a dual modulator of immune signaling and synaptic dysfunction in Tauopathy

White, A.; Gavrilyuk, P.; Falcon Moya, R.; Thurston, R.; Fickak, A.; Rozema, N. B.; Keshavaram, P.; Vermilyea, S.; Schlichte, R.; Meints, J.; Zhang, Y.; Araque, A.; Lee, M. K.; Gomez-Pastor, R.

10.1101/2025.06.24.661391 — neuroscience — Posted on 2025-06-25

1078 Theoretical and data-driven study of the influence of gene regulatory network on expression plasticity

Petit, A. J. R.; Genissel, A.; Le Rouzic, A.

10.1101/2024.03.11.584403 — systems biology — Posted on 2025-06-25

1079 Hydraulic Activation of the AsLOV2 photoreceptor

Maity, S.; Sheppard, J.; Russell, H.; Han, C.-T.; Epstein, L.; Johnson, B. A.; Price, B. D.; Han, R.; Potnuru, L. R.; Cui, J.; Sherwin, M. S.; Shea, J.-E.; Lovett, J. E.; Gardner, K. H.; Han, S.

10.1101/2025.06.19.660617 — biophysics — Posted on 2025-06-25

1080 If memory serves: Multisensory male display improves female memory during mate sampling

Hamilton, O.-R. M.; James, L. S.; Page, R. A.; Ryan, M. J.; Taylor, R. C.; Hunter, K.

10.1101/2025.06.25.660905 — animal behavior and cognition — Posted on 2025-06-25

1081 Dissociable effects of curiosity and hedonic valence on reinforcement learning

Rothenhoefer, K. M.; Romac, M. D.; Henderson, K.; Costa, V. D.

10.1101/2025.06.24.660807 — animal behavior and cognition — Posted on 2025-06-25

1082 The recognition of behaviorally distinct sleep stages in Drosophila melanogaster uncovers previously obscured homeostatic and circadian control of sleep.

Abhilash, L.; Shafer, O. T.

10.1101/2025.06.23.661143 — animal behavior and cognition — Posted on 2025-06-25

1083 Fission or fusion: shoaling adaptations in green chromides (Etroplus suratensis) across multiple manipulations

Desai, C.; Nariani, D.; Dave, R.; Ghosal, R.

10.1101/2025.06.24.661235 — animal behavior and cognition — Posted on 2025-06-25

1084 cpCST: A New Continuous Performance Test for High-Precision Assessment of Attention Across the Lifespan

MacKay-Brandt, A.; Garcia-Barnett, D.; Gan, K. X.; Ripley, O.; Gazes, Y.; Milham, M.; Colcombe, S. J.

10.1101/2025.06.22.660941 — animal behavior and cognition — Posted on 2025-06-25

1085 ASC contributes to sustained glial reactivity and mild cognitive impairment after closed-head injury

Li, T.; Castro-Gomez, S.; Botella Lucena, P.; Vieira-Saecker, A.; Schwartz, S.; Deng, Y.; Ding, Y.; Stein, V.; Latz, E.; Heneka, M. T.

10.1101/2025.06.19.660521 — neuroscience — Posted on 2025-06-25

1086 Independence-based causal discovery analysis reveals statistically non-significant regions to be functionally significant

Lewis, M. T.; Eack, S.; Theis, N.; Keshavan, M. S.; Prasad, K. M.

10.1101/2025.06.19.660609 — neuroscience — Posted on 2025-06-25

1087 Tumor Cells Enriched for Interferon and Inflammatory Programs Pre-Exist in High Grade Serous Ovarian Cancer and are Proportionately Significantly Increased Post Chemotherapy

Winterhoff, B. J.; Girnius, N. A.; Liu, M.; Kang, J.; Shetty, M.; Martinez-Gakidis, M. A.; Xu, W.; Thomas, M.; Lahmadi, L.; Henstridge, A. Z.; Baldominos, P.; Talukdaer, S.; Chang, Z.; Mattson, J.; Gruner, M.; Mullany, S. A.; Argenta, P.; Konecny, G. E.; Slamon, D. J.; Drapkin, R.; Nelson, A. C.; Starr, T. K.; Brugge, J. S.

10.1101/2025.06.24.661404 — cancer biology — Posted on 2025-06-25

1088 Multiplexed Brain and Visceral Two-Photon Imaging Using a Simulation-Guided Ultrafast Three-Color Fiber Laser

Edelmann, M.; Matamoros Angles, A.; Shafiq, M.; Pergament, M.; Kaertner, F. X.; Glatzel, M.

10.1101/2025.06.19.660526 — biophysics — Posted on 2025-06-25

1089 Clinical breakthrough: Biomimetic Scaffolds Based on Soluble Collagen for Regenerating Large Volumes of Highly Functional Tissues

He, X.; Luo, Z.; He, S.

10.1101/2025.06.19.660623 — bioengineering — Posted on 2025-06-25

1090 3-Dimensional Piezoelectric Fibrous Constructs for Muscle Regeneration

Karagiorgis, X.; Balatsoukas, G.; Baghini, M. S. S.; Maung, M.; Zong, J.; Niar, S.; Kumar, C.; Rodrigo-Navarro, A.; Mulvihill, D. M.; Skabara, P. J.; Garcia Nunez, C.; Dobre, O.

10.1101/2025.06.19.660455 — bioengineering — Posted on 2025-06-25

1091 A mouse model of PTEN Hamartoma Tumour Syndrome reveals that loss of the nuclear function of PTEN drives macrocephaly, lymphoid overgrowth, and late-onset cancer

Tibarewal, P.; Rathbone, V.; Conduit, S.; Classen, G. A. E.; Black, F.; Danesh, M. A.; Constantinou, G.; Asgarian, Z.; Tohyama, K.; Nisha, N.; Alvarez Garcia, V.; Foxall, E.; Belarbi, D.; Leverve, M.; Pearce, W.; Adil, M.; Varyova, Z.; Conde, L.; Alves, A.; Masson, G.; Williams, R. L.; Flanagan, A. M.; Herrero, J.; Stroud, K.; Tischkowitz, M.; Lachlan, K.; Scott, M.; Leslie, N.; Kessaris, N.; Vanhaesebroeck, B.

10.1101/2025.06.20.660297 — genetics — Posted on 2025-06-25

1092 Stochastic modelling of prostate progenitor architecture

Morison, C.; Baena, E.; Huang, W.

10.1101/2025.06.19.660586 — evolutionary biology — Posted on 2025-06-25

1093 A CLONAL LEGACY? REPRODUCTIVE MODE VARIATION IN HARD AND SOFT BOTTOM GRACILARIA VERMICULOPHYLLA POPULATIONS

Oetterer, A.; Stoeckel, S.; Ryan, W.; Krueger-Hadfield, S.

10.1101/2025.06.19.660572 — evolutionary biology — Posted on 2025-06-25

1094 Status of Florida's pillar coral population: in situ declines and ex situ successes

Neely, K. L.; Morgan, R.; O'Neil, K.; Cox, N.; Gilliam, D.; Mair, M.; Walker, B. K.; Zummo, A.; Harrell, C.; Ellis, A.

10.1101/2025.06.19.660574 — ecology — Posted on 2025-06-25

1095 GATA6 Mediates Endoderm and Mesoderm Progenitor Fate Driven by WNT and NODAL Signaling

Gordillo, M.; Wu, R.; Banks, K. M.; de Silva, N.; Evans, T.

10.1101/2025.06.20.660704 — developmental biology — Posted on 2025-06-25

1096 Wounding induces preexisting multinucleated cells to survive and thrive as leader cells

Takahashi, Y.; Matsuzawa, K.; Ikenouchi, J.

10.1101/2025.06.24.661427 — cell biology — Posted on 2025-06-25

1097 Cell Growth Simulator: a user-friendly web server for growth balance analysis

Ghaffarinasab, S.; Dourado, H.

10.1101/2025.05.14.653971 — cell biology — Posted on 2025-06-25

1098 Tau endo-lysosomal processing in human iPSC-derived microglia is impacted by tau aggregation state, but not by microglial activation status

Shultz, A.; Vincze, A.; Yau, T. T.; Poirier, E. L.; Rauch, J. N.

10.1101/2025.06.23.661190 — cell biology — Posted on 2025-06-25

1099 Disrupted Energy Landscape in Individuals with Mild Cognitive Impairment: Insights from Network Control Theory

Neumann, D. L.; Razlighi, Q.; Stern, Y.; Devanand, D. P.; Jamison, K.; Kuceyeski, A.; Tozlu, C.

10.1101/2025.06.19.660545 — neuroscience — Posted on 2025-06-25

1100 Towards Optimizing Target Engagement in Non-Invasive Trigeminal Nerve Stimulation: Anatomical Characterization and Computational Modeling of the Human Trigeminal Nerve

Perrault, J. L.; Kozma, K. D.; Zeng, W.; Nkana, Z.; Albano, N. J.; Gunderson, K. A.; Hurley, S. A.; Lake, W. B.; Williams, J. C.; Poore, S. O.; Ludwig, K. A.; Dingle, A. M.; Suminski, A. J.

10.1101/2025.06.19.660375 — neuroscience — Posted on 2025-06-25

1101 The synergistic interactions of low-dimensional brain modes

Herzog, R.; Vohryzek, J.; Luppi, A.; Geli, S.; Kringelbach, M. L.; Tagliazucchi, E.; Deco, G.; Sanz-Perl, Y.

10.1101/2025.06.19.660516 — neuroscience — Posted on 2025-06-25

1102 Rapid Computation of High-Level Visual Surprise

Richter, D.; Pena, P.; Ruz, M.

10.1101/2025.06.20.660166 — neuroscience — Posted on 2025-06-25

1103 Spectral imprint of structural embedding in effective connectivity

Greaves, M. D.; Novelli, L.; Pang, J. C.; Fornito, A.; Razi, A.

10.1101/2025.06.19.660638 — neuroscience — Posted on 2025-06-25

1104 A pre-menopausal single-cell atlas for ovarian drug discovery

VanBenschoten, H.; Nugmanova, Z.; Olmsted, A. M.; Gingerich, I.; Kratka, C.; Huang, R.; Duncan, F.; Kholod, O.; Goods, B.

10.1101/2025.06.20.660779 — bioinformatics — Posted on 2025-06-25

1105 All-Atom Protein Sequence Design using Discrete Diffusion Models

Villegas-Morcillo, A.; Admiraal, G. J.; Reinders, M. J. T.; Weber, J. M.

10.1101/2025.06.13.659451 — bioinformatics — Posted on 2025-06-25

1106 The AlphaFold Database Ages

Tsitsa, I.; Conev, A.; David, A.; Islam, S. A.; Sternberg, M. J. E.

10.1101/2025.06.22.660930 — bioinformatics — Posted on 2025-06-25

1107 Bayes factor for linear mixed model in genetic association studies

Guan, Y.; Levy, D.

10.1101/2024.05.28.596229 — bioinformatics — Posted on 2025-06-25

1108 De novo designed bright, hyperstable rhodamine binders for fluorescence microscopy

Chen, Y.; Yserentant, K.; Hong, K.; Kuang, Y.; Bhowmick, A.; Charles-Orszag, A.; Lord, S. J.; Lu, L.; Hou, K.; Mann, S. I.; Grimm, J. B.; Lavis, L. D.; Mullins, R. D.; DeGrado, W. F.; Huang, B.

10.1101/2025.06.24.661379 — bioengineering — Posted on 2025-06-25

1109 Investigating the Impact of Hypoxia and Syncytialization on Lipid Nanoparticle-Mediated mRNA Delivery to Placental Cells

Young, R. E.; Vijayakumar, T.; Darji, K.; Hofbauer, S. I.; Alameh, M.-G.; Weissman, D.; Riley, R. S.

10.1101/2025.06.23.661191 — bioengineering — Posted on 2025-06-25

1110 Flow-driven construction of capillary-scale vessels with predefined geometries in natural hydrogels

Ono, A.; Ouchi, R.; Kumagai, Y.; Suda, M.; Yamashita, T.; Taguchi, Y.; Sudo, R.

10.1101/2025.06.19.660502 — bioengineering — Posted on 2025-06-25

1111 Allostery is a widespread cause of loss-of-function variant pathogenicity

Liao, X.; Lehner, B.

10.1101/2025.06.20.660737 — genomics — Posted on 2025-06-25

1112 Hicberg: Reconstruction of contact signals from repeated elements

Gradit, S.; Ortion, S.; Larrous, P.; Delouis, M.; Koszul, R.; Cournac, A.

10.1101/2025.06.20.660295 — genomics — Posted on 2025-06-25

1113 Whole genome duplication enables rapid evolution of male-biased sex allocation in Galax urceolata

Williams, J. H.

10.1101/2025.06.19.660553 — evolutionary biology — Posted on 2025-06-25

1114 Photo-based individual identification is more reliable than visible implant elastomer tags or toe clipping in young agile frogs

Nemeshazi, E.; Ujhegyi, N.; Miko, Z.; Kasler, A.; Lente, V.; Bokony, V.

10.1101/2025.06.19.660530 — ecology — Posted on 2025-06-25

1115 Sequential PIDD1 auto-processing is essential for ploidy control in liver and heart

Eichin, F.; Sladky, V. C.; Reiner, M.; Leone, M.; Abila, E.; Rendeiro, A. F.; Dahlhoff, M.; Kolbe, T.; Boettcher, R.; Villunger, A.

10.1101/2025.06.23.660994 — cell biology — Posted on 2025-06-25

1116 Tau Clearance Reverses Neuronal Dysfunction in Both Young and Aged C. elegans

Carroll, T. A.; nehrke, k. A.; Johnson, G. V.

10.1101/2025.06.23.661052 — cell biology — Posted on 2025-06-25

1117 Characterization of cellular wound resistance in the giant ciliate Stentor coeruleus

Paul, R.; Nadkarni, A. V.; Sipkova, J.; Sato, J. E.; Zhang, K. S.; Barone, V.; Marshall, W. F.; Tang, S. K. Y.

10.1101/2025.06.23.661154 — cell biology — Posted on 2025-06-25

1118 YAP/TAZ activation in fibroblasts coordinates fibrotic remodeling, fibroinflammation, and epithelial dysfunction in pulmonary fibrosis

Mia, M. M.; Selvan, A.; Nilanthi, U.; Singh, M. K.

10.1101/2025.06.23.661212 — cell biology — Posted on 2025-06-25

1119 InDels in an intronic region of gene Ccsmd04 coding for dormancy/auxin-associated protein controls sterility mosaic disease resistance in pigeonpea

Rangari, S. K.; Dube, N.; Sharma, V.; Gangurde, S. S.; Sharma, M.; Gangashetty, P. I.; Saxena, R. K.; Moghiya, A.; Sharma, V. K.; Bhutia, K. L.; Kant, R.; Thudi, M.; Naik SJ, S.; Pratap, A.; Dixit, G. P.; Mayes, S.; Pandey, M. K.

10.1101/2025.06.19.660552 — genomics — Posted on 2025-06-25

1120 The study of differential expressions of MCPH and Seckel syndrome genes and their paralogues

Mohsin, M.; Riaz, S.; Imran, M.; Cox, J. J.; Khurshid, M.

10.1101/2025.05.21.655339 — genetics — Posted on 2025-06-25

1121 Exploring the Human-Coronavirus protein-protein interaction network from the perspective of a novel host-virus association

Acharya, D.; Dutta, T. K.

10.1101/2024.01.12.575398 — evolutionary biology — Posted on 2025-06-25

1122 Intracellular pH dynamics respond to extracellular matrix stiffening and mediate vasculogenic mimicry through β-catenin

Lund, L. M.; Marchi, A. N.; Alderfer, L.; Hall, E. A.; Hammer, J.; Moremen, R.; Asilebo, I.; Trull, K. J.; Hanjaya-Putra, D.; White, K. A.

10.1101/2024.06.04.597454 — cell biology — Posted on 2025-06-25

1123 Image-based profiling of healthy donor immune cells with Blood Cell Painting reveals novel genotype-phenotype associations

Hogel-Starck, C.; Timonen, V. A.; Atarsaikhan, G.; Mogollon, I.; Polso, M.; Hassinen, A.; Honkanen, J.; David Sarmento, C.; Koski, J.; Soini, J.; Urpa, L.; Ruokoranta, T.; Ahlnas, T.; Juvila, J.; Miettinen, J. J.; Rodosthenous, R.; FinnGen, ; Kilpivaara, O.; Arvas, M.; Heckman, C. A.; Partanen, J.; Daly, M.; Palotie, A.; Ollila, H. M.; Paavolainen, L.; Pietiainen, V.; Pitkanen, E.

10.1101/2024.05.17.594648 — cell biology — Posted on 2025-06-25

1124 PmaI-dependent pH gradients initiate inter- and intraspecies germling fusion in filamentous fungi

Rudolph, A. Y.; Rothermund, N.; Vasilevska, N.; Fleissner, A.; Nordzieke, D. E.

10.1101/2025.06.24.661326 — microbiology — Posted on 2025-06-25

1125 Identification of Chlamydia pneumoniae and NLRP3 inflammasome activation in Alzheimer's disease retina

Gaire, B. P.; Koronyo, Y.; Vit, J.-P.; Hutton, A.; Swerdlow, N.; Fuchs, D.-T.; Rentsendorj, A.; Shahin, S.; Subedi, L.; Robinson, E.; Ljubimov, A. V.; Schneider, L. S.; Hawes, D.; Graham, S. L.; Gupta, V. K.; Mirzaei, M.; Black, K. L.; Meyer, J. G.; Arditi, M. A.; Crother, T. R.; Koronyo-Hamaoui, M.

10.1101/2025.06.19.660619 — neuroscience — Posted on 2025-06-25

1126 Continuous theta-burst stimulation of the prefrontal cortex in the macaque monkey: no behavioral evidence for within-target inhibition or neural evidence for cross-hemisphere disinhibition

Lehmann, S. J.; Corneil, B. D.

10.1101/2025.04.28.651079 — neuroscience — Posted on 2025-06-25

1127 AI-Driven Virtual Screening and First-in-Class Conformational Biosensor Enable the Discovery of a GPR183 Inverse Agonist

Andersson, L.; Roggia, M.; Wangriatisak, K.; Gil, M.; Chemin, K.; Cosconati, S.; Kozielewicz, P.

10.1101/2025.06.19.659764 — pharmacology and toxicology — Posted on 2025-06-25

1128 Unraveling Resistance and Thresholds in Phage Therapy Using Staphylococcus aureus In Vitro Models

Royet, K.; Blazere, L.; Helluin, E.; Coignet, L.; Plumet, L.; Bonhomme, M.; Kolenda, C.; Garreau, R.; Valour, F.; Medina, M.; Laurent, F.; Goutelle, S.

10.1101/2025.04.25.650594 — pharmacology and toxicology — Posted on 2025-06-25

1129 MYD88 mutations in clonal hematopoiesis promote inflammation and hematopoietic stem cell expansion

Yeung, J.; Philbrook, S. Y.; Uible, E.; Lee, L.; Choi, K.; Agarwal, P.; Clough, C. A.; Patel, P.; Wikenheiser-Brokamp, K. A.; Hueneman, K.; Reinhardt, H. C.; Doong, T.-J.; Lozanski, A.; Lozanski, G.; Haque, T.; Hertlein, E.; Byrd, J. C.; Starczynowski, D. T.

10.1101/2025.06.19.660202 — cancer biology — Posted on 2025-06-25

1130 Developing in vitro patient derived CERvical Cancer OrganoidS (CERCOS) as a potential preclinical tool in cervical cancer research

Singla, S.; Bagga, R.; Srinivasan, R.; Bhatia, P.; Bhattacharyya, S.

10.1101/2025.06.19.660648 — cancer biology — Posted on 2025-06-25

1131 The effect of acute and prolonged acidosis on a panel of carcinoma cell lines.

Mejlvang, J.; Dravecka, M.; Wells, C.; Seternes, O. M.

10.1101/2025.06.19.660541 — cancer biology — Posted on 2025-06-25

1132 Obesity promotes conserved inflammatory and metabolic transcriptional programs in mouse and human colon tumors

Glenny, E. M.; Lin, T.; Bandera, V. M.; Mirminachi, B.; Khumukcham, S. S.; Gigic, B.; Warby, C. A.; Aksonova, O.; Coleman, M. F.; Carpanese, A.; Busch, C.; Himbert, C.; Ose, J.; Nix, D. A.; Boucher, K.; Schirmacher, P.; Strehli, I.; Hardikar, S.; Cohan, J. N.; Jedrzkiewicz, J.; Brobeil, A.; Schneider, M. A.; Kahlert, C.; Siegel, E. M.; Byrd, D. A.; Toriola, A. T.; Shibata, D.; Li, C. I.; Figueiredo, J. C.; Tan, A. C.; Roper, J.; Ulrich, C. M.; Hursting, S. D.

10.1101/2025.06.19.660576 — cancer biology — Posted on 2025-06-25

1133 Tumbleweed: an artificial motor protein that walks along a DNA track

Nilsson, P.; Robertson, N. O.; Gustafsson, N.; Davies, R.; Liew, C.; Lyons, A.; Eichhorn, R.; Niman, C.; Blab, G.; Bromley, E.; Whitten, A. E.; Duff, A.; Unksov, I. N.; Beech, J.; Jönsson, P.; Böcking, T.; Höcker, B.; Woolfson, D.; Forde, N. R.; Linke, h.; Curmi, P.

10.1101/2025.03.07.641123 — biophysics — Posted on 2025-06-25

1134 MUDflow: Combining Neural Networks, UMAP and DBM Clustering to Identify Cell Populations Accurately, Quickly and Easily in Mass and Fluorescence Cytometry

Meehan, C.; Meehan, S.; Ebrahimian, J.; Moore, W.; Parks, D.; Walther, G.; Herzenberg, L. A.

10.1101/2025.06.19.660626 — bioinformatics — Posted on 2025-06-25

1135 Scalable data harmonization for single-cell image-based profiling with CytoTable

Bunten, D.; Tomkinson, J.; Serrano, E.; Lippincott, M. J.; Brewer, K. I.; Rubinetti, V.; Alquaddoomi, F.; Way, G. P.

10.1101/2025.06.19.660613 — bioinformatics — Posted on 2025-06-25

1136 A k-mer-based estimator of the substitution rate between repetitive sequences

Wu, H.; Blanca, A.; Medvedev, P.

10.1101/2025.06.19.660607 — bioinformatics — Posted on 2025-06-25

1137 EVODEX: A Mechanistic Framework for Extracting, Structuring, and Predicting Enzymatic Reactivity

Conceicao, L. L.; Lin, H.; Tai, D.; Xue, G.; Zhang, H.; Zhang, C.; Anderson, J. C.

10.1101/2025.06.19.660615 — bioinformatics — Posted on 2025-06-25

1138 Enhancing RNA 3D Folding Prediction via Transformer and Equivariant Architectures under Resource Constraints

Mehra, R.; Mehra, A.

10.1101/2025.06.19.660625 — bioinformatics — Posted on 2025-06-25

1139 Serum Lewis fucosylation reports on survivorship of patients with septic shock upon admission to intensive care unit

Chau, T. H.; Chatterjee, S.; Caulfield, L.; Chernykh, A.; Traini, M.; Hwang, H.; Kawahara, R.; Meyer, E. J.; Torpy, D. J.; Thaysen-Andersen, M.

10.1101/2025.06.23.661221 — biochemistry — Posted on 2025-06-25

1140 Decoupling of emigration timing and skill acquisition in a saturated population of golden eagles

Bronnvik, H.; Scacco, M.; Chimento, M.; Bassi, E.; Fiedler, W.; Hatzl, J. S.; Sumasgutner, P.; Tschumi, M.; Wikelski, M.; Zimmermann, S.; Safi, K.; Nourani, E.

10.1101/2025.04.21.649390 — animal behavior and cognition — Posted on 2025-06-25

1141 Genomic Foundationless Models: Pretraining Does Not Promise Performance

Vishniakov, K.; Viswanathan, K.; Medvedev, A.; Kanithi, P.; Pimentel, M. A.; Rajan, R.; Khan, S.

10.1101/2024.12.18.628606 — genomics — Posted on 2025-06-25

1142 Whole-Genome Sequencing, Annotation and Taxonomic Confirmation of a Multidrug-Resistant Escherichia coli Isolated from the Blood of a Sepsis Patient

Eze, P. M.; Dillon, L.; Gani, J.; Planche, T.; Oyama, L.; Creevey, C.

10.1101/2025.03.21.644136 — genomics — Posted on 2025-06-25

1143 The population genetics of biological noise

Weinreich, D. M.; Sgouros, T.; Raynes, Y.; Burtsev, H.; Chang, E.; Rajakumar, S.; Bravo, I. G.; Petak, C.

10.1101/2025.01.11.632402 — evolutionary biology — Posted on 2025-06-25

1144 The economic strategies of superorganisms

Leahy, L.; Riskas, H. L.; Halliwell, B.; Wright, I. J.; Carlesso, A. G.; Sanders, N. J.; Bishop, T. R.; Parr, C. L.; Chown, S. L.; Shik, J. Z.; Andersen, A. N.; Gibb, H.

10.1101/2025.02.21.639603 — ecology — Posted on 2025-06-25

1145 Codon decoding by split-tRNA: revisiting the tRNA selection mechanism

Mureev, S.; Wu, Y.; Cui, Z.; Alexandrov, K.

10.1101/2024.11.24.624523 — molecular biology — Posted on 2025-06-25

1146 Neutralizing human monoclonal antibodies that target the PcrV component of the Type III Secretion System of Pseudomonas aeruginosa act through distinct mechanisms

Desveaux, J.-M.; Faudry, E.; Contreras-Martel, C.; Cretin, F.; Dergan-Dylon, L. S.; Amen, A.; Bally, I.; Tardivy-Casemajor, V.; Chenavier, F.; Fouquenet, D.; Caspar, Y.; Attree, I.; Dessen, A.; Poignard, P.

10.1101/2024.10.19.619220 — microbiology — Posted on 2025-06-25

1147 The unique synaptic circuitry of specialized olfactory glomeruli in Drosophila melanogaster

Gruber, L.; Cantera, R.; Pleijzier, M. W.; Steinert, M.; Pertsch, T.; Hansson, B. S.; Rybak, J.

10.1101/2022.09.30.510181 — neuroscience — Posted on 2025-06-25

1148 RubyACRs Enable Red-Shifted Optogenetic Inhibition in Freely Behaving Drosophila

Bushey, D.; Shiozaki, H. M.; Shuai, Y.; Zheng, J.; Jayaraman, V.; Kolb, I.; Hasseman, J. P.; GENIE Project Team, ; Turner, G. C.

10.1101/2025.06.13.659144 — neuroscience — Posted on 2025-06-25

1149 Global Neuron Shape Reasoning with Point Affinity Transformers

Troidl, J.; Knittel, J.; Li, W.; Zhan, F.; Pfister, H.; Turaga, S. C.

10.1101/2024.11.24.625067 — neuroscience — Posted on 2025-06-25

1150 The cost of cognition: Measuring the energy consumption of non-equilibrium computation

Deco, G.; Sanz Perl, Y.; Luppi, A.; Gini, S.; Gozzi, A.; Chandaria, S.; Kringelbach, M. L.

10.1101/2025.06.18.660368 — neuroscience — Posted on 2025-06-25

1151 Single cell multi-omics reveals rare biosynthetic cell types in the medicinal tree Camptotheca acuminata

Bui, V.-H.; Wood, J. C.; Vaillancourt, B.; Hamilton, J. P.; Carlton, L. H.; Dang, T.-T. T.; Buell, C. R.; Li, C.

10.1101/2025.04.22.650021 — plant biology — Posted on 2025-06-25

1152 The titin N2A-MARP signalosome constrains muscle longitudinal hypertrophy in response to stretch

Van der Pijl, R.; Gohlke, J.; Strom, J.; Peters, E.; Shen, S.; Conijn, S.; Hourani, Z.; Lange, S.; Chen, J.; Langlais, P.; Labeit, S.; Granzier, H. L.; Ottenheijm, C.

10.1101/2025.06.19.660595 — physiology — Posted on 2025-06-25

1153 Early NOTCH1 mutation is positively selected but epistatically suppresses evolution of later esophageal squamous-cell carcinoma drivers

Glasmacher, K. A.; Mandell, J. D.; Jackson, M.; Fisk, N.; Cannataro, V. L.; Townsend, J. P.

10.1101/2023.11.03.565535 — cancer biology — Posted on 2025-06-25

1154 Homodimerized Arpins: Binding to Arp2/3 Complexes with Positive Synergy to Inhibit Lamellipodia-Dependent Tumor Metastasis

Liu, L.; Zhang, X.; Zhu, Y.; Pu, M.; Geng, Y.; Wang, M.; Zhang, R.; Ge, S.; Ye, S.

10.1101/2025.06.24.661301 — cancer biology — Posted on 2025-06-25

1155 LexicMap: efficient sequence alignment against millions of prokaryotic genomes

Shen, W.; Lees, J.; Iqbal, Z.

10.1101/2024.08.30.610459 — bioinformatics — Posted on 2025-06-25

1156 Generative model of SARS-CoV-2 variants under immune pressure unveils viral escape potential

Huot, M.; Rosenbaum, P.; Planchais, C.; Mouquet, H.; Monasson, R.; Cocco, S.

10.1101/2025.05.12.653592 — bioinformatics — Posted on 2025-06-25

1157 KLP-6 is a kinesin superfamily protein resistant to ADP inhibition

Kita, T.; Niwa, S.

10.1101/2025.02.11.637744 — biochemistry — Posted on 2025-06-25

1158 Same data, different results? Machine learning approaches in bioacoustics

Wierucka, K.; Murphy, D.; Watson, S. K.; Falk, N.; Fichtel, C.; Leon, J.; Leu, S. T.; Kappeler, P. M.; Briefer, E. F.; Manser, M. B.; Phaniraj, N.; Scheumann, M.; Burkart, J. M.

10.1101/2024.04.14.589403 — animal behavior and cognition — Posted on 2025-06-25

1159 Human-specific gene expansions contribute to brain evolution

Soto, D. C.; Uribe-Salazar, J. M.; Kaya, G.; Valdarrago, R.; Sekar, A.; Haghani, N. K.; Hino, K.; La, G. N.; Mariano, N. A. F.; Ingamells, C.; Baraban, A. E.; Jamal, Z.; Turner, T. N.; Green, E. D.; Simo, S.; Quon, G.; Andres, A.; Dennis, M. Y.

10.1101/2024.09.26.615256 — genomics — Posted on 2025-06-25

1160 Three Open Questions in Polygenic Score Portability

Wang, J. Y.; Lin, N.; Zietz, M.; Mares, J.; Rathouz, P. J.; Harpak, A.

10.1101/2024.08.20.608703 — genetics — Posted on 2025-06-25

1161 Copy number variation shapes structural genomic diversity associated with ecological adaptation in the wild tomato Solanum chilense

Wei, K.; Stam, R.; Tellier, A.; Silva Arias, G. A.

10.1101/2023.07.21.549819 — evolutionary biology — Posted on 2025-06-25

1162 Virulence evolution: thinking outside of the host

Silva, L. M.; Koella, J. C.

10.1101/2024.05.23.595559 — evolutionary biology — Posted on 2025-06-25

1163 Habitat complexity reduces feeding strength of freshwater predators

Aranbarri, M.; Flores, L.; de Guzman, I.; Larranaga, A.; Rall, B. C.; Reiss, J.

10.1101/2025.02.22.639633 — ecology — Posted on 2025-06-25

1164 Vocal species are more central in Eastern Himalayan Mixed-Species bird flocks

Gupta, S.; Bharadwaj, A.; Bhat, A.; Thapa, A.; Biswakarma, A.; Tamang, B.; Munda, B.; Biswakarma, B.; Pradhan, D.; Tamang, D.; Rai, M.; Rai, R.; Rai, S.; Srinivasan, U.

10.1101/2024.12.06.626929 — ecology — Posted on 2025-06-25

1165 Testosterone-Induced Metabolic Changes in Seminal Vesicle Epithelial cells Alter Plasma Components to Enhance Sperm Motility

Yamanaka, T.; Xiao, Z.; Tsujita, N.; Awad, M.; Umehara, T.; Shimada, M.

10.1101/2024.01.16.575926 — cell biology — Posted on 2025-06-25

1166 Tissue-specific I-Smad mechanisms revealed by structure-function analysis in Drosophila

Simoncek, A. M.; Sviridoff, S. J.; Hays, J. N.; Graichen, N. N.; Sulkowski, M. J.

10.1101/2025.06.20.660739 — cell biology — Posted on 2025-06-25

1167 The second messenger c-di-AMP controls natural competence via ComFB signaling protein

Samir, S.; Doello, S.; Zimmer, E.; Haffner, M.; Enkerlin, A. M.; Mueller, T.; Dengler, L.; Lambidis, S. P.; Sivabalasarma, S.; Albers, S.-V.; Selim, K. A.

10.1101/2023.11.27.568819 — microbiology — Posted on 2025-06-25

1168 Lacticaseibacillus rhamnosus P118 enhances host tolerance to Salmonella infection by promoting microbe-derived indole metabolites

Wang, B.; Peng, X.; Zhou, X.; Jin, X.; Siddique, A.; Yao, J.; Zhang, H.; Li, W.; Li, Y.; Yue, M.

10.1101/2024.07.09.602698 — microbiology — Posted on 2025-06-25

1169 Reactivation of threat conditioning memory in humans: disentangling the effects on emotional memory and cognitive biases.

Picco, S.; cavallino, l.; Hoijer, P.; Beron, J. C.; Fernandez, R.; Pedreira, M. E.

10.1101/2025.06.23.661086 — neuroscience — Posted on 2025-06-25

1170 A comprehensive mechanosensory connectome reveals a somatotopically organized neural circuit architecture controlling stimulus-aimed grooming of the Drosophila head

Calle-Schuler, S. A.; Santana-Cruz, A. E.; Kmecova, L.; Hampel, S.; Seeds, A. M.

10.1101/2025.05.19.654894 — neuroscience — Posted on 2025-06-25

1171 Inferring Neural Communication Dynamics from Field Potentials Using Graph Diffusion Autoregression

Schwock, F.; Bloch, J.; Khateeb, K.; Zhou, J.; Atlas, L.; Yazdan-Shahmorad, A.

10.1101/2024.02.26.582177 — neuroscience — Posted on 2025-06-25

1172 Attention is all you need (in the brain): semantic contextualization in human hippocampus

Katlowitz, K.; Belanger, J. L.; Ismail, T.; Chavez, A. G.; Chericoni, A.; Franch, M. C.; Mickiewicz, E. A.; Mathura, R. K.; Paulo, D.; Bartoli, E.; Piantadosi, S. T.; Provenza, N. R.; Watrous, A. J.; Sheth, S. A.; Hayden, B. Y.

10.1101/2025.06.23.661103 — neuroscience — Posted on 2025-06-25

1173 Studying time-resolved functional connectivity via communication theory: on the complementary nature of phase synchronization and sliding window Pearson correlation.

Wiafe, S.-L.; Asante, N.; Calhoun, V.; Faghiri, A.

10.1101/2024.06.12.598720 — neuroscience — Posted on 2025-06-25

1174 Central infusion of prostaglandin E2 reveals a unified representation of sickness in the mouse insular cortex

Kamm, G. B.; Boffi, J. C.; Abd El Hay, M.; Rajot, D.; Cukic, A.; Havenith, M.; Scholvinck, M.; Renier, N.; Asari, H.; Prevedel, R.

10.1101/2025.04.28.651028 — neuroscience — Posted on 2025-06-25

1175 Phytochemical Screening, Radical Scavenging and Antimicrobial Activities of the Crude Ethanolic, Methanolic, Ethyl Acetate and Chloroform Leaf Extracts of Arayat Pitogo (Cycas riuminiana Porte ex Regel)

Dela Pena, R. A.; Pangilinan, C. R.; Hussain, M. A. S.; Mohamed, M.; Danaphal, A.; Reyes, A.; Banares, A.; Malison, M.; Cayanan, M. M.; Bagunu, J. V.; Totaan, E. V.; Totaan, D.; Gracilla, D. E.

10.1101/2025.06.21.656729 — pharmacology and toxicology — Posted on 2025-06-25

1176 Assessment of high-efficacy agonism in synthetic cannabinoid receptor agonists containing l-tert-leucinate

Lucaj, C.; Oh, S. J.; Pitha, C.; Davis, J.; Yano, H.

10.1101/2024.10.11.617959 — pharmacology and toxicology — Posted on 2025-06-25

1177 Explainable machine learning models for glioma subtype classification and survival prediction

Vershinina, O.; Turubanova, V.; Krivonosov, M.; Trukhanov, A.; Ivanchenko, M.

10.1101/2025.06.24.661085 — bioinformatics — Posted on 2025-06-25

1178 Protein functional site annotation using local structure embeddings

Derry, A.; Tartici, A.; Altman, R. B.

10.1101/2023.10.13.562298 — bioinformatics — Posted on 2025-06-25

1179 Fitness drivers of division of labor in vertebrates

Garcia-Ruiz, I.; Rubenstein, D. R.

10.1101/2024.12.10.627807 — animal behavior and cognition — Posted on 2025-06-25

1180 The chromatin remodeler LET-418/Mi-2 regulates the intracellular pathogen response in the C. elegans intestine

Rajopadhye, S. A.; Lazetic, V.; Rodriguez Crespo, D.; Troemel, E.; Meister, P.; Wicky, C.

10.1101/2025.06.17.659900 — genomics — Posted on 2025-06-25

1181 Landscape and mutational dynamics of G-quadruplexes in the complete human genome and in haplotypes of diverse ancestry

Chantzi, N.; Liew, S. W.; Wijaya, A.; Chan, C.; Mouratidis, I.; Amaral, E. d. O. S.; Uzun, Y.; Hemberg, M.; Vasquez, K. M.; Kwok, C. K.; Georgakopoulos-Soares, I.

10.1101/2025.06.17.660256 — genomics — Posted on 2025-06-25

1182 Chromosome-level genome assembly of the spider mite Tetranychus cinnabarinus

Feng, K.; Wen, X.; Lin, H.

10.1101/2025.06.24.661196 — genomics — Posted on 2025-06-25

1183 DNA methylation insulates genic regions from CTCF loops near nuclear speckles

Roseman, S. A.; Siegenfeld, A. P.; Lee, C.; Lue, N. Z.; Waterbury, A. L.; Liau, B. B.

10.1101/2023.07.26.550645 — genomics — Posted on 2025-06-25

1184 Variation in response to water availability across Phlox species

Steinecke, C.; Tabin, J. A.; Caven, J.; Hale, C. O.; Serrato-Capuchina, A.; Hopkins, R.

10.1101/2025.06.17.660163 — evolutionary biology — Posted on 2025-06-25

1185 mTORC2-mediated cell-cell interactions promote BMP4-induced WNT activation and mesoderm differentiation

Tong, L.; Batool, F.; Chiu, Y.-H.; Wu, P. D.; Zhou, Y.; Ma, X.; Atanur, S.; Cui, W.

10.1101/2024.06.07.597881 — cell biology — Posted on 2025-06-25

1186 Native, Spatiotemporal Profiling of the Global Human Regulome

Pino, L. K.; Canzani, D.; Gutierrez, A.; Robbins, J.; McEllin, B.; Hubbard, E.; Broderick, E.; Prymolenna, A.; Paez, J. S.; Takta, L.; Mercenne, G.; Siebenthall, K.; Fondrie, W. E.; Federation, A. J.

10.1101/2025.06.14.659727 — cell biology — Posted on 2025-06-25

1187 Chromatin activity of IκBα mediates the exit from naïve pluripotency

Palma, L. G.; Alvarez-Villanueva, D.; Maqueda, M.; Barrero, M.; IGLESIAS, A.; Bertran, j.; ALVAREZ, D.; GARCIA-PRIETO, C.; BALLARE, C.; RODRIGUEZ-CORTEZ, V.; BUENO, C.; VIDAL, A.; Villanueva, A.; Menendez, P.; Stik, G.; Di Croce, L.; Payer, B.; Esteller, M.; Espinosa, L.; Bigas, A.

10.1101/2023.07.28.550934 — cell biology — Posted on 2025-06-25

1188 Microbiome variations in osteoarthritis reflect aging and metabolic factors, not the disease

Bevc, K.; Malfertheiner, L.; Neuenschwander, S.; Tran, V. D. T.; Pagni, M.; Pantiukh, K.; Jagura, M.; Niiranen, T.; Knight, R. T.; Salomaa, V.; Havulinna, A. S.; Org, E.; Eklund, K. K.; Barreto, G.; Zenobi, M.; von Mering, C.

10.1101/2025.06.24.661261 — microbiology — Posted on 2025-06-25

1189 Loss of DNA mismatch repair genes leads to acquisition of antibiotic resistance independent of secondary mutations

Bautista, D. E.; Whitehead, C. R.; Mitchell, A. M.

10.1101/2025.06.20.660601 — microbiology — Posted on 2025-06-25

1190 High-resolution taxonomic profiling and metatranscriptomics identify microbial, biochemical, host and ecological factors in peri-implant disease

Szafranski, S. P.; Joshi, A. A.; Steglich, M.; Yang, I.; Qu, T.; Behrens, W.; Muthukumarasamy, U.; Melidis, D.; Schaefer-Dreyer, P.; Grischke, J.; Hegermann, J.; Nejdl, W.; Haeussler, S.; Stiesch, M.

10.1101/2025.06.23.661096 — microbiology — Posted on 2025-06-25

1191 Plasma Proteomic Profiling Reveals Distinct Signatures of Chest CT Phenotypes in Sarcoidosis

Shastry, V.; Leach, S. M.; Elicker, B. M.; Koth, L. L.

10.1101/2025.06.24.661339 — immunology — Posted on 2025-06-25

1192 Detection and localization of conspecifics in ghost knifefish are influenced by the relationship between the spatial organization of receptors and signals.

Ramachandra, K. L.; Milam, O. E.; Pedraja, F.; Cornett, J. D.; Marsat, G.

10.1101/2023.07.20.549925 — neuroscience — Posted on 2025-06-25

1193 Transcriptional responses to chronic oxidative stress require cholinergic activation of G-protein-coupled receptor signaling

Biswas, K.; Moore, C.; Rogers, H.; Wani, K. A.; Higgins, D. P.; Walker, A. K.; Pukkila-Worley, R.; Mullen, G. P.; Rand, J. B.; Francis, M. M.

10.1101/2025.01.06.628021 — neuroscience — Posted on 2025-06-25

1194 Physiological activity within peripheral nerves influences neural output in response to electrical stimulation: an in vivo study

Madden, L. R.; Liu, R.; Ivanescu, S.; Bruns, T.

10.1101/2024.12.17.628956 — neuroscience — Posted on 2025-06-25

1195 Mind the Gap: An Embedding Guide to Safely Travel in Sequence Space

Wu, A.; Trolliet, Q.; Rajendran, A.; Lala, J.; Angioletti-Uberti, S.

10.1101/2025.06.19.660524 — synthetic biology — Posted on 2025-06-25

1196 Identifying gaps between scientific and local knowledge in climate change adaptation for northern European agriculture

Blennow, K.; Carlsson, G.; Grenville-Briggs, L. J.; Hansson, P.; Lankinen, A.

10.1101/2025.06.23.661058 — scientific communication and education — Posted on 2025-06-25

1197 Astrocyte CB1 receptors drive blood-brain barrier disruption in CNS inflammatory disease

Colomer, T.; Sanchez-Martin, E.; Bernal-Chico, A.; Moreno-Garcia, A.; Serrat, R.; Baraibar, A. M.; Uribe-Irusta, A.; Iriarte-Sarria, A.; Skupio, U.; Matute, C.; Tepavcevic, V.; Fernandez-Moncada, I.; Chapouly, C.; Marsicano, G.; Mato, S.

10.1101/2025.06.23.660998 — neuroscience — Posted on 2025-06-24

1198 Repetition-related gamma plasticity in macaque V1 and V2 is highly stimulus specific and robust to stimulus set size

Psarou, E.; Parto-Dezfouli, M.; Grothe, I.; Peter, A.; Roese, R.; Fries, P.

10.1101/2025.06.20.660699 — neuroscience — Posted on 2025-06-24

1199 Hierarchical systems in the default mode network when reasoning about self and other mental states

Christian, I. R.; Nastase, S. A.

10.1101/2025.06.23.661113 — neuroscience — Posted on 2025-06-24

1200 MetaGLIMPSE: Meta Imputation of Low Coverage Sequencing Data for Modern and Ancient Genomes

Kumar, K. H.; Rubinacci, S.; Zoellner, S.

10.1101/2025.06.24.660721 — genomics — Posted on 2025-06-24

1201 Systematic disruption of zebrafish fibrillin genes identifies a translational zebrafish model for Marfan syndrome

De Rycke, K.; Horvat, M.; Caboor, L.; Vermassen, P.; De Smet, G.; Santana Silva, M.; Steyaert, W.; Van Impe, M.; Segers, P.; De Backer, J.; Sips, P. Y.

10.1101/2025.06.21.659830 — genetics — Posted on 2025-06-24

1202 A global map for introgressed structural variation and selection in humans

Hsieh, P.; Soisangwan, N.; Gordon, D.; Athef Javidh, A.; Harvey, W.; Porubsky, D.; Hoekzema, K.; Baker, C.; Munson, K.; Kinipi, C.; Leavesley, M.; Brucato, N.; Cox, M.; RICAUT, F.-X.; Gallego Romero, I.; Eichler, E.

10.1101/2025.06.24.661368 — evolutionary biology — Posted on 2025-06-24

1203 Quantitative live imaging reveals PRICKLE1 controls junctional neural tube morphogenesis independent of Planar Cell Polarity

Wang, J. X.; Alvarez, Y. D.; Tan, S. Z.; Ranie, S. N.; Stehbens, S. J.; White, M.

10.1101/2025.06.23.661208 — developmental biology — Posted on 2025-06-24

1204 The rewiring of a terminal selector regulatory cascade generates convergent neuronal laterality

Castro, D.; Dimov, I. M.; Mackie, M.; Carstensen, H. R.; Barsegyan, M. T.; Hong, R. L.

10.1101/2025.06.24.661243 — developmental biology — Posted on 2025-06-24

1205 Clonal memory of cell division in humans diverges between healthy haematopoiesis and acute myeloid leukaemia

Donada, A.; Hermange, G.; Tocci, T.; Midoun, A.; Prevedello, G.; Hadj Abed, L.; Dupre, D.; SUN, W.; Milo, I.; Tenreira Bento, S.; Pospori, C.; Innes, A.; Willekens, C.; Vargaftig, J.; Michonneau, D.; Lo Celso, C.; Servant, N.; Duffy, K.; Isambert, H.; Cournede, P.-H.; Laplane, L.; Perie, L.

10.1101/2025.06.24.660535 — cell biology — Posted on 2025-06-24

1206 A genetic screen reveals a key role for Reg1 in 2-deoxyglucose sensing and yeast AMPK inhibition

Ballin, A.; Albanese, V.; Miled, S.; Legros, V.; Chevreux, G.; Verraes, A.; Friedrich, A.; LEON, S.

10.1101/2025.06.23.660305 — cell biology — Posted on 2025-06-24

1207 Derivation of human post-mitotic cardiomyocytes from tetraploid iPSCs

Nakajima, I.; Shimane, M.; Holmstrom, G.; Miyaoka, Y.

10.1101/2025.06.23.661005 — cell biology — Posted on 2025-06-24

1208 Single Cell Proteomics in the Developing Human Brain

Wu, T.; jiang, l.; Mukhtar, T.; Wang, L.; jian, r.; Wang, C.; Trinh, T.; Kriegstein, A.; Snyder, M.; Li, J.

10.1101/2025.06.23.660079 — neuroscience — Posted on 2025-06-24

1209 Spatially and non-spatially tuned hippocampal neurons are linear perceptual and nonlinear memory encoders

Daigle, M.; Yan, K.; Corrigan, B.; Gulli, R.; Martinez-Trujillo, J.; Bashivan, P.

10.1101/2025.06.23.661173 — neuroscience — Posted on 2025-06-24

1210 Maternal singing synchronizes the preterm infants' brain

Benis, D.; Margaria, J.; Barcos-Munoz, F.; Miehlbradt, J.; Lavezzo, L.; Grandjean, D.; Vollenweider, A.; Henriot, S.; Huppi, P. S.; Filippa, M.

10.1101/2025.06.24.660986 — neuroscience — Posted on 2025-06-24

1211 Gradual sensory maturation promotes abstract representation learning

Cheon, J.; Paik, S.-B.

10.1101/2025.06.24.661295 — neuroscience — Posted on 2025-06-24

1212 Comparative Analysis of Neonatal Hypomyelination Models Using Spatial Transcriptomics

Fabres, R. B.; da Silva, V. R. C. T.; Zhang, S.; Synowiec, S.; Takada, S. H.; Duan, J.; Drobyshevsky, A.

10.1101/2025.06.23.661209 — neuroscience — Posted on 2025-06-24

1213 AlphaFold 3-enabled in silico exploration of PGAM1 interactions in cancer

Clarke, J. J.; Colcombe, J. L.; Rigden, D. J.

10.1101/2025.06.23.661104 — bioinformatics — Posted on 2025-06-24

1214 Corelative light and electron microscopy (CLEM) image registration by blood vessel axes alignment

Van den Berghe, Y.; Saeys, Y.; Verhaege, D.; Kremer, A.; Vandenbroucke, R.

10.1101/2025.06.23.661033 — bioinformatics — Posted on 2025-06-24

1215 Phosphate sensing by PhoPR regulates the cytotoxicity of Staphylococcus aureus

Palk, N.; Brignoli, T.; Boura, M.; Massey, R. C.

10.1101/2025.06.24.661297 — microbiology — Posted on 2025-06-24

1216 Superficial stromal cell population in the mouse uterus require METTL14 for development and functional competence to support embryo implantation

Zheng, Z.-H.; Jiang, R.-F.; Hong, Y.-Q.; Zhang, Q.-Y.; Deng, Y.-T.; Zhao, J.-Q.; He, J.-P.; Xu, Y.-W.; Yang, S.-H.; Liu, J.-L.

10.1101/2025.06.19.660542 — physiology — Posted on 2025-06-24

1217 Model-based Evaluation of Connexin Hemichannel Permeability

Kraujalis, T.; Kersys, L.; Krisciunas, A.; Calneryte, D.; Cicinskaite, A.; Kraujaliene, L.; Verselis, V. K.; Snipas, M.

10.1101/2025.06.19.660562 — biophysics — Posted on 2025-06-24

1218 Euktect: Enhanced Eukaryotic Sequence Detection and Classification in Metagenomes via the DNA Language Model

Peng, Y.; Ji, B.; Wang, Y.; Lu, H.

10.1101/2025.06.19.660294 — bioinformatics — Posted on 2025-06-24

1219 WHOOPER Web application for Hands-On identification of proteins co-Occurrence among Phyla, focused on user ERgonomics

Marthey, S.; Baffo, N.; Martin, V.; Lodhi, L. Z.; Lisa, M.-N.; Andre, G.

10.1101/2025.06.19.660341 — bioinformatics — Posted on 2025-06-24

1220 Single-Cell Protein Interactomes by the Proximity Network Assay

Karlsson, F.; Simonetti, M.; Galonska, C.; Karlsson, M. J.; van Ooijen, H.; Kallas, T.; Thiagarajan, D.; Schweitzer, M.; Larsson, L.; van Hoef, V.; Tajvar, P.; Dahlberg, J.; De Temmerman, F.; Leijonancker, L.; Geny, S.; Forlin, R.; Negrini, E.; Petkov, S.; Franzen, L.; Bunz, J.; Moge, C.; Everberg, H.; Brodin, P.; Martinez Barrio, A.; Fredriksson, S.

10.1101/2025.06.19.660329 — bioengineering — Posted on 2025-06-24

1221 Synthesis of Metal-Organic Framework (MOF) Based Composites for pH-Responsive Drug Delivery

Kunde, A.; Bhatia, D. D.

10.1101/2025.06.18.660385 — bioengineering — Posted on 2025-06-24

1222 To preen or not to preen: social predictors of allopreening in a wild parrot

Penndorf, J.; Fontana, L.; Martin, J. M.; Aplin, L. M.

10.1101/2025.06.24.661407 — animal behavior and cognition — Posted on 2025-06-24

1223 Giant viruses specific to deep oceans show persistent presence and activity

Liu, W.; Nagasaka, K.; Wu, J.; Ban, H.; Mimick, E.; Meng, L.; Neches, R. Y.; Moniruzzaman, M.; Yoshida, T.; Nishimura, Y.; Endo, H.; Okazaki, Y.; Ogata, H.

10.1101/2025.06.21.660676 — genomics — Posted on 2025-06-24

1224 Sedimentary ancient DNA metagenomic analysis provides new insights into farming in central Norway from the Bronze Age to late Medieval period

La Torre, R.; Kosel, P.; Bieker, V. C.; Bakke Westergaard, K.; Lien Mykkeltvedt, J.; Yildirim, K. L.; Seiler, M.; Philippsen, B.; Macphail, R. I.; Cannell, R. J.; Halvorsen, L. S.; Bronseth Lorentzen, A.; Sauvage, R.; Martin, M. D.; Mjelva Breivik, H.; Martin, S. L.

10.1101/2025.06.19.660509 — genomics — Posted on 2025-06-24

1225 The eutherian-specific histone H3.4 promotes germ cell development and reproductive fitness

Komarov, P. A.; Bammer, P.; Liang, C.-Y.; Hotz, H.-R.; Fanourgakis, G.; Chun, S.; Kohler, H.; Buchholz, T.-O.; Spetz, J.-F.; Peters, A. H. F. M.

10.1101/2025.06.19.660366 — genetics — Posted on 2025-06-24

1226 Targeted sex ratio distortion in the mouse

Bauer, H.; Koch, F.; Lipkowitz, B.; Willert, J.; Blaess, G.; Scholze-Wittler, M.; Waehrisch, S.; Wittler, L.; Herrmann, B.

10.1101/2025.06.19.660540 — genetics — Posted on 2025-06-24

1227 Loci under balancing selection facilitate the emergence of pseudo-overdominance and recombination suppression

Guyot, L.; Giraud, T.; Jay, P.

10.1101/2025.06.19.660549 — evolutionary biology — Posted on 2025-06-24

1228 A critical role for brain nutrition in the life-history decisions of a partially migratory fish

Koene, J. P.; Jacobs, A.; Zavorka, L.; Pilecky, M.; Honkanen, H.; Kainz, M.; Elmer, K. R.; Adams, C.

10.1101/2025.06.19.660559 — ecology — Posted on 2025-06-24

1229 Microbiome diversity of low biomass skin sites is captured by metagenomics but not 16S amplicon sequencing

Markey, L.; Qu, E. B.; Mendall, C.; Finzel, A.; Materna, A.; Lieberman, T. D.

10.1101/2025.06.24.661265 — microbiology — Posted on 2025-06-24

1230 Liquid-liquid phase separation mediated immune evasion of RSV against OAS-RNase L pathway

Hwang, W. Y.; Rosenfeld, M. G.; Oh, S.; Kwon, Y.-C.

10.1101/2025.06.24.661296 — microbiology — Posted on 2025-06-24

1231 PUM2 binds SARS-CoV-2 RNA and PUM1 mildly reduces viral RNA levels, but neither protein affects progeny virus production

Phan, N.; Zaytseva, Y.; Lin, C.-C.; Sun, W.; Mishra, M.; Pawlica, P. A.

10.1101/2025.06.23.661172 — microbiology — Posted on 2025-06-24

1232 Phylogenomic analysis of the collagen-like BclA proteins in Clostridioides difficile

Cid-Rojas, F.; Guerrero-Araya, E.; Brito-Silva, C.; Pizarro-Guajardo, M.; Rodriguez-Sanchez, C.; Paredes-Sabja, D.

10.1101/2025.06.24.661383 — microbiology — Posted on 2025-06-24

1233 Mycobacterial Metallophosphatase MmpE Acts as a Nucleomodulin to Regulate Host Gene Expression and Promote Intracellular Survival

Chen, L.; Duan, B.; Jiang, Q.; Wang, Y.; Chen, Y.; Zhang, L.; Guo, A.

10.1101/2025.06.24.661236 — microbiology — Posted on 2025-06-24

1234 PmaI-dependent pH gradients initiate inter- and intraspecies germling fusion in filamentous fungi

Rudolph, A. Y.; Rothermund, N.; Vasilevska, N.; Fleissner, A.; Nordzieke, D. E.

10.1101/2025.06.24.661326 — microbiology — Posted on 2025-06-24

1235 Unveiling the hidden biodiversity of microbial chemoreceptor genes in the rare biosphere

Sanchis-Lopez, C.; Santamaria-Hernando, S.; Cantalapiedra, C. P.; Pokorny, L.; Gonzalez-Recio, O.; Sunagawa, S.; Lopez-Solanilla, E.; Huerta-Cepas, J.

10.1101/2025.06.24.661292 — microbiology — Posted on 2025-06-24

1236 Integrative microbiome- and metatranscriptome-based analyses reveal diagnostic biomarkers for peri-implantitis

Joshi, A. A.; Szafranski, S. P.; Steglich, M.; Yang, I.; Qu, T.; Xiao, X.; Behrens, W.; Grischke, J.; Haeussler, S.; Stiesch, M.

10.1101/2025.06.24.661241 — microbiology — Posted on 2025-06-24

1237 Bacteriophages target membrane-anchored glycopolymers to promote host cell lysis and progeny release

McKitterick, A. C.; Lyerly, E. W.; Bernhardt, T. G.

10.1101/2025.06.24.661397 — microbiology — Posted on 2025-06-24

1238 High-salinity sporulation in Bacillus subtilis results in coat dependant enhanced resistance to both wet heat and hydrogen peroxide.

Freire, V.; Orera, I.; Condon, S.

10.1101/2025.06.24.660303 — microbiology — Posted on 2025-06-24

1239 Nutrient landscape shapes the genetic diversification of the human gut commensal Bacteroides thetaiotaomicron

Lang, M.; Zioutis, C.; Heberlein, A.; Ivanovova, N.; Schwarz, J.; Koestlbacher, S.; Bochkareva, O.; Flanagan, K. J.; Pereira, F. C.; Berry, D.

10.1101/2025.06.24.661248 — microbiology — Posted on 2025-06-24

1240 Infection-Induced Elevation of Gut Glycosaminoglycans Fosters Microbiota Expansion in Drosophila melanogaster

Arias-Rojas, A.; Rubinic, M.; Albiez, J.; Frahm, D.; Hurwitz, R.; Iatsenko, I.

10.1101/2025.06.24.661374 — microbiology — Posted on 2025-06-24

1241 Structural and functional analysis of the Mycobacterium tuberculosis MmpS5L5 efflux pump presages a pathway to increased bedaquiline resistance

Fountain, A. J.; Böhning, J.; McLaughlin, S. H.; Morgan, T. E.; Edelstein, P. H.; Troll, M.; Lamers, M. H.; Bharat, T. A. M.; Luisi, B. F.; Ramakrishnan, L.

10.1101/2025.06.24.661325 — microbiology — Posted on 2025-06-24

1242 Invasive species drive polymicrobial resistance to amoxicillin in oral biofilms through beta-lactamase release

Seidel, A. L.; Steglich, M.; Qu, T.; Joshi, A. A.; Schneider, M.; Spaic, A.; Yang, I.; Grischke, J.; Rubalskii, E.; Koch, L.; Chichkov, B.; Hegermann, J.; Majewski, P.; Tryniszewska, E.; Slots, J.; Szafranski, S. P.; Stiesch, M.

10.1101/2025.06.24.661089 — microbiology — Posted on 2025-06-24

1243 Identifying Key Hub Genes that Attribute Varying Host Responses: A Longitudinal RNA-seq Analysis of SARS-CoV-2 Delta and Omicron Infections.

Bajracharya, D.; Jansen, R.; Yan, C.; Ramamoorthy, S.

10.1101/2025.06.23.654375 — bioinformatics — Posted on 2025-06-24

1244 Host microRNA Target Prediction in SARS-CoV-2 and Hepatitis E Virus Genomes: Insights from RNAhybrid Analysis

Tasnim, Z.; Islam, F.

10.1101/2025.06.23.661149 — bioinformatics — Posted on 2025-06-24

1245 Action enhances the detection of visuomotor incongruence: A comparison of matched spatial vs temporal manipulations along identical trajectories

Peters, F.; Wang, P.; Limanowski, J.

10.1101/2025.06.18.660374 — animal behavior and cognition — Posted on 2025-06-24

1246 Host species composition, not priority effects, determines infection risk in multihost-multiparasite amphibian communities

Daversa, D. R.; Fenton, A.; Brookes, L.; Rosa, G.; Sergeant, C.; Garner, T.

10.1101/2025.06.18.660433 — ecology — Posted on 2025-06-24

1247 Stimulus effects dwarf task effects in human visual cortex

Mur, M.; Mitchell, D. J.; Brüggemann, S.; Duncan, J.

10.1101/2025.06.18.660183 — neuroscience — Posted on 2025-06-24

1248 The cost of cognition: Measuring the energy consumption of non-equilibrium computation

Deco, G.; Sanz Perl, Y.; Luppi, A.; Gini, S.; Gozzi, A.; Chandaria, S.; Kringelbach, M. L.

10.1101/2025.06.18.660368 — neuroscience — Posted on 2025-06-24

1249 Improving the Scalability of Bayesian Phylodynamic Inference through Efficient MCMC Proposals

Bouckaert, R.; Weidemüller, P.; Esquivel Gomez, L.; Müller, N. F.

10.1101/2025.06.18.660471 — bioinformatics — Posted on 2025-06-24

1250 Growth Arrest of Thoracic Aortic Aneurysms in Aging Marfan Mice

Weiss, D.; Means, C.; Mays, G.; Yeung, N.; Cavinato, C.; Manning, E.; Lam, T. T.; Humphrey, J.

10.1101/2025.06.18.660413 — bioengineering — Posted on 2025-06-24

1251 Structural connectivity-informed dynamic estimation (STRiDE): Multimodal connectivity constrained ICA

Fouladivanda, M.; Iraji, A.; Wu, L.; Chen, J.; Camazon, P. A.; van Erp, T.; Belger, A.; Pearlson, G. D.; Adali, T.; Calhoun, V.

10.1101/2025.06.18.660402 — bioengineering — Posted on 2025-06-24

1252 High-throughput Single Cell Motility Analysis using Nanowell-in-Microwells

Deng, P.; Lyu, W.; Jang, D.; Matthews, K.; Duffy, S. P.; Ma, H.

10.1101/2025.06.18.660403 — bioengineering — Posted on 2025-06-24

1253 Survival and reinfection rates of SCTLD-affected corals treated in situ with amoxicillin

Neely, K. L.; Nowicki, R. J.; Dobler, M. A.; Toth, K. A.; Macaulay, K. A.; Gallagher, S. M.

10.1101/2025.06.18.660395 — ecology — Posted on 2025-06-24

1254 Life on the road: fish communities composition in roadside ditches of the Atlantic Forest

da Costa, J. H. A.; Selinger, A.; Langeani, F.; Souza, U. P.; Duarte, R.

10.1101/2025.06.18.660392 — ecology — Posted on 2025-06-24

1255 Xylazine exacerbates fentanyl-induced respiratory depression and prevents rescue by naloxone in mice

Watkins, J. M.; Hahn, R.; Dempsey, M.; Hohmann, A. G.

10.1101/2025.06.18.660459 — neuroscience — Posted on 2025-06-24

1256 Benefits of dual-tasking on implicit sensorimotor adaptation

Miller-Mills, B.; Kwan, T. C.; Carroll, T. J.; Poh, E.

10.1101/2025.06.18.660484 — neuroscience — Posted on 2025-06-24

1257 Neural Predictors of Functional Genomic Responses to Negative Social Evaluation in Adolescent Females

von Guttenberg, M.; Gassen, J.; Slavich, G. M.

10.1101/2025.06.18.660364 — neuroscience — Posted on 2025-06-24

1258 Botulinum Neurotoxin A1 Signaling in Pain Modulation within Human Sensory Neurons

Gabriel, K.; Hankerd, K.; Barragan Iglesias, P.; Brideau-Andersen, A. D.; Steward, L.; McGaraughty, S.; Vazquez-Cintron, E.; Price, T. J.

10.1101/2025.06.18.660472 — neuroscience — Posted on 2025-06-24

1259 Time-series modeling with neural flow maps

Xu, B.; Ho, Z. E.; Huang, Y.

10.1101/2025.06.18.660388 — systems biology — Posted on 2025-06-24

1260 Exploring the connections between digestion and detoxification in microevolution of insecticide resistance of the tea tortrix moth, Adoxophyes honmai

Lee, T. M.; Nelson, W. A.; Moyes, C. D.

10.1101/2025.06.18.660450 — physiology — Posted on 2025-06-24

1261 Hawkmoths learn best without negative reinforcement in a differential colour association task

Manel, A. N.; Foster, J. J.; Stöckl, A.

10.1101/2025.06.18.660396 — animal behavior and cognition — Posted on 2025-06-24

1262 Inter-brain Synchronization in the Alpha Band during Minimal Tactile Interaction

Loh, C. L.; Zapata-Fonseca, L.; James, M. M.; Dumas, G.; Froese, T.

10.1101/2025.06.18.660494 — animal behavior and cognition — Posted on 2025-06-24

1263 Speak or shout? Nonverbal vocalizations ensure rapid detection of emotions in vocal communication

Pell, M. D.; Cui, H.; Mori, Y.; Jiang, X.

10.1101/2025.06.18.660505 — animal behavior and cognition — Posted on 2025-06-24

1264 Adaptative and ancient co-evolution of integrons with Xanthomonas genomes

Colombi, E.; Ghaly, T. M.; rajabal, v.; Elbourne, L. D. H.; Gillings, M. R.; Tetu, S. G.

10.1101/2025.06.18.660453 — genomics — Posted on 2025-06-24

1265 Coalescent theory of the {psi} directionality index

Lappo, E.; Rosenberg, N. A.

10.1101/2025.06.18.660412 — genetics — Posted on 2025-06-24

1266 A Genetically Based Latitudinal Gradient in Aggressiveness of Root-Knot Nematode Populations on Tomato with the Mi-1 Resistance Gene

Groen, S. C.; Godinez-Vidal, D.; Franco-Navarro, F.; Edwards, S.; Ploeg, A. T.

10.1101/2025.06.18.660456 — evolutionary biology — Posted on 2025-06-24

1267 Tiger diet in Ranthambore Tiger Reserve: how do metabarcoding and mechanical sorting compare?

Mishrikotkar, S. K.; Ghosh-Harihar, M.; Yadav, N.; Goswami, V. R.; Harihar, A.; Ramakrishnan, U.

10.1101/2025.06.18.660266 — ecology — Posted on 2025-06-24

1268 Comparing Brain-Score and ImageNet performance with responses to the scintillating grid illusion

Kraus, M. K.; Verkerk, L.; Keemink, S. W.

10.1101/2025.06.18.660291 — neuroscience — Posted on 2025-06-24

1269 Modular Inter-brain Synchrony Network Associated with Social Difficulty in Autism Spectrum Disorder: a Graph Neural Network-Driven Hyperscanning Study

Li, Y.; Zhu, Y.; Geng, Y.; Feng, D.; Guan, S.; Li, D.; Zhang, Y.; Mei, L.; Ding, X.; Ying, Y.; Tang, J.; Liang, J.; Su, Y.; Xu, Q.; Li, R.

10.1101/2025.06.18.660087 — neuroscience — Posted on 2025-06-24

1270 Predictive modeling of TMS-evoked responses: Unraveling instantaneous excitability states

Ahola, O.; Haxel, L.; Ermolova, M.; Humaidan, D.; Mutanen, T.; Laine, M.; Makkonen, M.; Ukharova, E.; Roine, T.; Lioumis, P.; Guidotti, R.; Ilmoniemi, R.; Ziemann, U.

10.1101/2025.06.18.660274 — neuroscience — Posted on 2025-06-24

1271 TNF-α-induced type I IFN signalling decreases neurogenesis and drives T cell chemotaxis

Nissen, T. A. D.; Baig, A.; Rock, D. T.; Shibu, S.; Lee, H.; O'Neill, L. A.; John, S. S.; Klavinskis, L. S.; Thuret, S.

10.1101/2025.06.18.660440 — neuroscience — Posted on 2025-06-24

1272 Expert drummers replicate neuromechanical signatures of physiological tremor at extreme movement frequencies.

Sarcher, A.; Dorel, S.; Azar, N. R.; Bal, R.; Cattagni, T.; Nordez, A.

10.1101/2025.06.18.660287 — physiology — Posted on 2025-06-24

1273 Urological benchtop and in silico models validated by human penile tissue inflation tests

Akbarzadeh Khorshidi, M.; Bose, S.; Watschke, B.; Mareena, E.; Sinnott, T.; Lally, C.

10.1101/2025.06.18.660316 — bioengineering — Posted on 2025-06-24

1274 Rapid Cell-Free Combinatorial Mutagenesis Workflow Using Small Oligos Suitable for High-Iteration, Active Learning-Guided Protein Engineering

Godin, R.; Hejazi, S. S.; Lange, B.; Aldamak, B.; Reuel, N. F.

10.1101/2025.06.18.660386 — bioengineering — Posted on 2025-06-24

1275 Mutation accumulation underpins evolution of lifespan extension by dietary restriction

Irish, S. D.; Kimberley, A.; Immler, S.; Moorad, J.; Maklakov, A. A.

10.1101/2025.06.18.660314 — evolutionary biology — Posted on 2025-06-24

1276 Evolution of thyroglobulin: an integrated view of its origin and complexity from a structural perspective.

Gomes Pio, M.; Rivolta, C. M.; Targovnik, H. M.

10.1101/2025.06.18.660348 — evolutionary biology — Posted on 2025-06-24

1277 Just add water: Urban blue spaces increase avian richness and functional diversity

Morgan, M. C.; Forster, R. M.; Hopkins, C. R.; Gomez, A.

10.1101/2025.06.18.660350 — ecology — Posted on 2025-06-24

1278 Toward Crosstalk-free All-optical Interrogation of Neural Circuits

YAN, G.; Tian, G.; HE, Y.; SHE, Z.; Chen, K. K. Y.; Semmelhack, J.; Qu, J.

10.1101/2025.06.18.660335 — neuroscience — Posted on 2025-06-24

1279 A Dual-Compartment Scaffolding Role for RACK1 in Hepatic Glucagon Signaling and Gluconeogenesis

Lyu, C. C.; Yang, L.; Chen, S.

10.1101/2025.06.18.660434 — physiology — Posted on 2025-06-24

1280 Fibroblasts drive differential response in immunotherapy via IL-6 in bioengineered 3D cancer constructs

Chakraborty, S.; Rodriguez, M. A.; Skardal, A.

10.1101/2025.06.18.660473 — cancer biology — Posted on 2025-06-24

1281 Biologically Informative NA Deconvolution (BIND) excavates hidden features of the proteome from missing values in large-scale datasets

GUO, W.; JIN, W.; ZHENG, J.; PAN, Y.; WANG, R.; ZHANG, J.; FENG, X.; CHEN, L.; ZHANG, L.

10.1101/2025.06.19.660508 — bioinformatics — Posted on 2025-06-24

1282 Comparative proteomic analysis of the composition of decellularized extracellular matrix (dECM) and dECM-based inks as compared to the native tissue

Irastorza, A.; Vazquez Aristizabal, P.; Zumeta Olaskoaga, L.; Mateo Abad, M.; Guerrero, P.; de la Caba, K.; Izeta, A.

10.1101/2024.09.23.614437 — bioengineering — Posted on 2025-06-24

1283 A general temperature dependence for biological nitrogen fixation across systems and levels of organization

Davis, K. E.; Slein, M. A.; O'Connor, M. I.

10.1101/2025.06.17.660177 — ecology — Posted on 2025-06-24

1284 Microenvironmental TGF-β is an early driver of NF1-associated tumour formation

Power, A.; Stierli, S.; Wright, E. H.; Modol-Caballero, G.; Lloyd, E.; Kouloulia, S.; Casal, G.; Krasinska, L.; Bouricha, O.; Venturini, C.; Ribeiro, S.; Napoli, I.; Clements, M.; Parrinello, S.; Lloyd, A. C.

10.1101/2025.06.23.661037 — cell biology — Posted on 2025-06-24

1285 α-Synuclein aggregates induce mitochondrial damage and trigger innate immunity to drive neuron-microglia communication

Chakraborty, R.; Maya, S.; Testa, V.; Montero-Munoz, J.; Nonaka, T.; Hasegawa, M.; Consiglio, A.; Zurzolo, C.

10.1101/2025.06.23.661105 — cell biology — Posted on 2025-06-24

1286 Single-cell profiling reveals a novel RAB13+ endothelial subpopulation and profibrotic mesenchymal cells in the aged human bone marrow

Cenzano, I.; Cocera, M.; Lopez Perez, A. R.; Campos-Dopazo, L.; Ruiz, J.; Sancho, I.; San Martin-Uriz, P.; Aguirre-Ruiz, P.; Sarvide, S.; Vilas-Zornoza, A.; Ripalda-Cemborain, P.; Alignani, D.; Lopez, A.; Minana Barrios, M.; Quilez Agreda, D.; Ye, J.; Lehmann, R.; Sudupe, L.; Abengozar-Muela, M.; Tamariz-Amador, L.-E.; Muinos-Lopez, E.; Saez, B.; Tegner, J.; A. Calvo, I.; Gomez-Cabrero, D.; Prosper, F.

10.1101/2025.01.28.635238 — molecular biology — Posted on 2025-06-24

1287 Increased contact transmission of contemporary Human H5N1 compared to Bovine and Mountain Lion H5N1 in a hamster model

Mukesh, R.; Kaiser, F.; Schulz, J. E.; Gallogly, S.; Prado-Smith, J.; Wickenhagen, A.; Cordove, K.; Smith, B.; Clancy, C.; Shaia, C.; Saturday, G.; de Wit, E.; van Doremalen, N.; Yinda, C. K.; Munster, V.

10.1101/2025.06.23.661180 — microbiology — Posted on 2025-06-24

1288 A Chaperonin Complex Regulates Organelle Proteostasis in Malaria Parasites

Tissawak, A.; Rosin, Y.; Katz Galay, S.; Qasem, A.; Shahar, M.; Trabelsi, N.; Schueler-Furman, O.; Johnson, S. M.; Florentin, A.

10.1101/2024.11.13.623364 — microbiology — Posted on 2025-06-24

1289 On the Comparability between Studies in Predictive Ecotoxicology

Schuer, C.; Schirmer, K.; Baity Jesi, M.

10.1101/2025.03.04.641385 — pharmacology and toxicology — Posted on 2025-06-24

1290 Molecular prosthetics and CFTR modulators additively increase secretory HCO- flux in cystic fibrosis airway epithelia

Celis, N.; Miller, D. P.; Tarara, T. E.; Weers, J. G.; Thornell, I. M.; Welsh, M. J.; Burke, M. D.

10.1101/2025.06.18.660463 — pharmacology and toxicology — Posted on 2025-06-24

1291 Phase separation of PGL-3 driven by structured domains that oligomerize and interact with terminal RGG motifs.

Kuroiwa, R.; Sharma, P.; Putnam, A.; Fried, S. D.; Seydoux, G.

10.1101/2025.06.23.660947 — biophysics — Posted on 2025-06-24

1292 The cytoplasm of living cells can sustain transient and steady intracellular pressure gradients

Malboubi, M.; Esteki, M. H.; Vaghela, M. B.; Korsak, L. I.; Petrie, R. J.; Moeendarbary, E.; Charras, G.

10.1101/2024.04.22.590593 — biophysics — Posted on 2025-06-24

1293 A Versatile GPMV-Imaging Platform for Quantitative Analysis of Receptor Binding and Membrane Fusion

Yosibash, I.; Khan, S.; Lichtenstein, A.; Dharan, R.; Vaknin, A.; Daniel, S.; Avinoam, O.; Sorkin, R.

10.1101/2025.05.29.656808 — biophysics — Posted on 2025-06-24

1294 Genome-wide rules of transcription factor cooperativity revealed through in silico binding site ablation

He, X.; Einarsson, H.; Palenikova, P.; Rennie, S.; Hu, D.; Cui, R.; Vaagenso, C.; Lage, K.; Krautz, R.; Andersson, R.

10.1101/2025.06.19.660093 — bioinformatics — Posted on 2025-06-24

1295 A new iterative framework for simulation-based population genetic inference with improved coverage properties of confidence intervals

Rousset, F.; Leblois, R.; Estoup, A.; Marin, J.-M.

10.1101/2024.09.30.615940 — bioinformatics — Posted on 2025-06-24

1296 Inverse association between serum vitamin B12 level and abundance of potential B12-producing gut microbes in Indian children

Chandel, N.; Patel, P.; Somvanshi, P. R.; Verma, A. K.; Thakur, V.

10.1101/2025.04.21.649764 — genomics — Posted on 2025-06-24

1297 Multimodal single-cell analyses reveal distinct fusion-regulated transcriptional programs in Ewing sarcoma.

Waltner, O. G.; Apfelbaum, A. A.; Wrenn, E. D.; Bhise, S. S.; Kanaan, S. B.; Gladden, R. G.; Mendoza, M. A.; Volden, R.; Kronenberg, Z.; Patel, A.; Dyer, M.; Sarthy, J. F.; Lawlor, E. R.; Furlan, S. N.

10.1101/2025.06.18.660457 — genomics — Posted on 2025-06-24

1298 A facile method for fluorescent visualization of newly synthesized fibrous collagen by capturing the allysine aldehyde groups serving as cross-link precursors

Kuroda, J.; Fujii, K. K.; Futaki, S.; Hirata, A.; Taga, Y.; Koide, T.

10.1101/2025.06.19.660320 — developmental biology — Posted on 2025-06-24

1299 HMMR/RHAMM recruits SACK1D/FAM83D-CK1α complex at the mitotic spindle to control spindle alignment

Sapkota, G. P.; Cartwright, T. N.; Nakarakanti, N. K.; Dunbar, K.; Fulcher, L.; Bader, S.; Wood, N.; Macartney, T.

10.1101/2025.06.23.661043 — cell biology — Posted on 2025-06-24

1300 A Statistical Framework for Robust and Reproducible BioImage Analysis

Barry, D. J.; Marcotti, S.; Gerontogianni, L.; Kelly, G.

10.1101/2025.02.10.637409 — cell biology — Posted on 2025-06-24

1301 Exosomes are specialized vehicles to induce fibronectin assembly

Sung, B. H.; Emmanuel, M.; Gari, M.; Guerrero, J.; Virumbrales-Munoz, M.; Inman, D.; Krystofiak, E.; Rapraeger, A. C.; Ponik, S. M.; Weaver, A.

10.1101/2025.06.23.661091 — cell biology — Posted on 2025-06-24

1302 Natural Product-Like Fragments Unlock Novel Chemotypes for a Kinase Target - Exploring Options beyond the Flatland

Santura, A.; Mueller, J.; Wolter, M.; Tutzschky, I.-C.; Ruf, M.; Metz, A.; Sandner, A.; Merkl, S.; Klebe, G.; Glinca, S.; Czodrowski, P.

10.1101/2025.06.11.659015 — molecular biology — Posted on 2025-06-24

1303 Age differences in functional connectivity and dedifferentiation of category representations

Pauley, C.; Zeithamova, D.; Sander, M. C.

10.1101/2024.01.04.574135 — neuroscience — Posted on 2025-06-24

1304 Is subjective perceptual similarity metacognitive?

Moharramipour, A.; Zhou, W.; Rahnev, D.; Lau, H.

10.1101/2024.06.13.598769 — neuroscience — Posted on 2025-06-24

1305 Systemic aldehyde storm induced by allyl alcohol exposure results in extensive hepatic ferroptosis in Aldh2*2 knock-in mice

Takami, Y.; Nakamura, J.; Katahira, J.; Maeda, Y.; Tanaka, M.; Kuwamura, M.; Okada, T.; Izawa, T.

10.1101/2025.06.18.660242 — pathology — Posted on 2025-06-24

1306 Homodimerized Arpins: Binding to Arp2/3 Complexes with Positive Synergy to Inhibit Lamellipodia-Dependent Tumor Metastasis

Ye, S.; Liu, L.; Zhang, X.; Zhu, Y.; Pu, M.; Geng, Y.; Wang, M.; Zhang, R.; Ge, S.

10.1101/2025.06.24.661301 — cancer biology — Posted on 2025-06-24

1307 Development of PROTACs for targeted degradation of oncogenic TRK fusions

Kumar, S.; Jiang, J.; Donald-Paladino, M. S.; Chen, J.; Gutierrez, A.; Federation, A. J.; Szulzewsky, F.; Holland, E. C.; Ferguson, F. M.; Nabet, B.

10.1101/2025.06.18.660465 — cancer biology — Posted on 2025-06-24

1308 Transcriptome-Driven Constraint-Based Modelling Reveals Metabolic Targets for Ovarian Cancer

Meeson, K. E.; McGrail, J.; Schwartz, J.-M.; Taylor, S. S.

10.1101/2025.06.24.661329 — cancer biology — Posted on 2025-06-24

1309 Ultra-fast and Efficient Network Embedding for Gigascale Biological Datasets

Knight, R.; Zhao, J.; Pierre Both, J.

10.1101/2025.06.18.660497 — bioinformatics — Posted on 2025-06-24

1310 Fluidic Programmable Gravi-maze Array for High Throughput Multiorgan Drug Testing

Wong, H. C.; Collins, C. J.; Jude Jose, J. A.; Bhakta, I. N.; Collins, A. J.; Katara, G.; Kohana, J.; Saluja, H. S.; Collins, J.

10.1101/2025.06.18.660241 — bioengineering — Posted on 2025-06-24

1311 Auxin-inducible degradation of UNC-116 in C. elegans inhibits bidirectional dense core vesicle transport and worm locomotion on different timescales

Boström, A. H.; Gavrilova, A.; Poulin, G. B.; Allan, V. J.

10.1101/2025.06.23.661018 — cell biology — Posted on 2025-06-24

1312 Loss of CHMP2A implicates an ordered assembly of ESCRT-III proteins during cytokinetic abscission

Kamenetsky, N.; Nachmias, D.; Khan, S.; Avinoam, O.; Hazan, I.; Upcher, A.; Elia, N.

10.1101/2025.06.24.661003 — cell biology — Posted on 2025-06-24

1313 Pre-meiotic H1.1 degradation is essential for Arabidopsis gametogenesis

Li, Y.; Fei, D.; Schubert, J.; Rutowicz, K.; Kaczmarska, Z.; Linares, A.; Giraldo-Fonseca, A.; Bischof, S.; Grossniklaus, U.; Baroux, C.

10.1101/2025.04.18.649492 — plant biology — Posted on 2025-06-24

1314 Sexual reproduction is controlled by successive transcriptomic waves in Podospora anserina

Bidard, F.; Grognet, P.; Lelandais, G.; Imbeaud, S.; Mucchielli-Giorgi, M. H.; Debuchy, R.; Berteaux-Lecellier, V.; Malagnac, F.

10.1101/2024.12.09.627484 — genomics — Posted on 2025-06-24

1315 A Chemostat-Based Model for Growing Bacterial Biofilms

Spagnolo, F.; Caballero, I.; Goldblatt, A.; Loccisano, M. J.; Mahe, M. I.; Mejia, Y.; Melvani, N.; Nagel, A.; Stanciu, A.; Kannoly, S.; Dennehy, J. J.; Trujillo, M.

10.1101/2025.06.22.660958 — microbiology — Posted on 2025-06-24

1316 Elucidating the perception, awareness and biosecurity practices among the live poultry/poultry-meat sellers to mitigate the risk of zoonotic salmonellosis

MIENUR MEHER, M.; Afrin, M.; Bayazid, A. A.; Parajuli, N.; Rahman, M. S.; Islam, M. S.; Ali, M. Z.; Islam, M. M.

10.1101/2025.06.17.660267 — scientific communication and education — Posted on 2025-06-24

1317 Chronological lifespan extension and nucleotide salvage inhibition in yeast by isonicotinamide supplementation

Kalita, A.; Letai, C. T.; Hesles, E. E.; Power, L. N.; Mishra, S.; Saha, S.; Dinda, M.; Wang, D.; Singh, P. K.; Smith, J. S.

10.1101/2021.07.11.451986 — biochemistry — Posted on 2025-06-24

1318 The Synergy between Topography and Lipid Domains in the Plasma Membrane of Mast Cells Controls the Localization of Signaling Proteins and Facilitates their Coordinated Activation

Ghosh, S.; Wagenknecht-Wiesner, A.; Desai, S.; Vyphuis, J.; Ramos, M. S.; Grazul, J. L.; Baird, B.

10.1101/2024.11.22.624791 — immunology — Posted on 2025-06-24

1319 Emergence of a contrast-invariant representation of naturalistic texture in macaque visual cortex

Lee, G. M.; Majaj, N. J.; Rodriguez Deliz, C. L.; Kiorpes, L.; Movshon, J. A.

10.1101/2025.01.03.631258 — neuroscience — Posted on 2025-06-24

1320 Fronto-parietal effective connectivity during working memory in Neurofibromatosis Type 1 adolescents and neurotypical controls

Litwinczuk, M. C.; Garg, S.; Lea-Carnall, C. A.; Trujillo-Barreto, N.

10.1101/2025.04.10.648183 — neuroscience — Posted on 2025-06-24

1321 Biological Reasoning with Reinforcement Learning through Natural Language Enables Generalizable Zero-Shot Cell Type Annotations

Wang, X.; Tan, R.; Wang, B.; Cristea, S.

10.1101/2025.06.17.659642 — bioinformatics — Posted on 2025-06-24

1322 The evolutionary history of plastid outer envelope proteins - a structure-sequence comparison

Bueyuektas, D.; Mehl, J. A.; Engelsdorf, T.; Voll, L. M.; Kunz, H.-H.; Schwenkert, S.; de Vries, S.

10.1101/2025.06.18.660430 — evolutionary biology — Posted on 2025-06-24

1323 Rapid detection of G6PD deficiency SNPs using a novel amplicon-based MinION Sequencing Assay

Tacoli, C.; Kleinecke, M.; Soon Hoon, K.; Trimarsanto, H.; Nadeem, M.; Eam, R.; Khim, N.; Rumaseb, A.; Ley, B.; Sayre, D.; Phok, S.; Lek, D.; Witkowski, B.; Hwang, J.; Auburn, S.; Mueller, I.; Price, R.; Popovici, J.

10.1101/2025.06.23.661218 — microbiology — Posted on 2025-06-24

1324 Prevalence of Pseudomonas aeruginosa in Australian wild birds, native wildlife, livestock and domestic animals

Strickland, K. R.; Jelocnik, M.; Price, E. P.; Sarovich, D. S.

10.1101/2025.06.23.661201 — microbiology — Posted on 2025-06-24

1325 IFN-inducible Human Phospholipid Scramblase 1 (PLSCR1) ProteinRestricts HIV-1 Infection by Inhibiting Membrane Fusion

Liu, Y.; Li, P.; Zheng, Y.-M.; Hikichi, Y.; Ablan, S. D.; Freed, E. O.; Liu, S.-L.

10.1101/2025.06.23.661195 — microbiology — Posted on 2025-06-24

1326 Immunoinformatics Approach to Engineer a Multi-Epitope Vaccine Against SdrG in Skin Commensal Staphylococcus epidermidis

Akter, S.; Silva, G. V. R.; Oliveira, J. I. N.; Fulco, U. L.; Xu, X.; Fu, Y. V.

10.1101/2025.06.18.660506 — immunology — Posted on 2025-06-24

1327 Common Gene Networks Orchestrate Organelle Architecture and Inter-Organelle Metabolic Flows for Mucin Production in High Endothelial and Goblet Cells

Bi, Y.; Brulois, K. F.; Ayesha, A.; Xiang, M.; Ballet, R.; Ocon, B.; Dinh, T.; Wang, Y.; Lazarus, N.; Kunte, M.; Ramos, G.; Bao, E.; Lupu, F.; Lin, J. H.; Butcher, E.; Pan, J.

10.1101/2025.06.19.660616 — immunology — Posted on 2025-06-24

1328 Phytochemical Screening, Radical Scavenging and Antimicrobial Activities of the Crude Ethanolic, Methanolic, Ethyl Acetate and Chloroform Leaf Extracts of Arayat Pitogo (Cycas riuminiana Porte ex Regel)

Gracilla, D. E.; Dela Pena, R. A.; Pangilinan, C. R.; Hussain, M. A. S.; Mohamed, M.; Danaphal, A.; Reyes, A.; Banares, A.; Malison, M.; Cayanan, M. M.; Bagunu, J. V.; Totaan, E. V.; Totaan, D.

10.1101/2025.06.21.656729 — plant biology — Posted on 2025-06-24

1329 Seasonal changes in the physiology and metabolism of grapevine perennating buds

Signorelli, S.; Hermawaty, D.; Feil, R.; Couture, C.; Lunn, J. E.; Considine, J. E.; Considine, M. J.

10.1101/2025.06.17.660214 — plant biology — Posted on 2025-06-24

1330 MdBRC1 and MdFT2 Interaction Fine-Tunes Bud Break Regulation in Apple

Gioppato, H. A.; Estevan, J.; Al Bolbol, M.; Soriano, A.; Garighan, J.; Jeong, K.; Georget, C.; Soto, D. G.; El Khoury, S.; Falavigna, V. d. S.; George, S.; Perales, M.; Andres, F.

10.1101/2025.06.20.660803 — plant biology — Posted on 2025-06-24

1331 Enterobacter sp. SA187-induced coordinated regulation of high-affinity nitrate transporters and ethylene signaling enhances nitrogen content and plant growth under low nitrate

Ilyas, A.; Mauve, C.; Caius, J.; Paysant-Leroux, C.; Hodges, M.; de Zelicourt, A.

10.1101/2025.06.23.660384 — plant biology — Posted on 2025-06-24

1332 Cell layer-specific modification of cell wall is associated with exo-mesocarp split in pistachio (Pistacia vera L.)

Zhang, S.; Wang, M.; Eagle, S.; Chernikova, A.; Bedell, K. M.; Tran, P.; Lee, C.; Adaskaveg, J. A.; Wei, Y.; Lopez, R.; Basco, A.; Gordon, P.; Blanco-Ulate, B.; Monroe, G.; Drakakaki, G.

10.1101/2025.06.18.660460 — plant biology — Posted on 2025-06-24

1333 LIKE EARLY STARVATION is involved in the regulation of starch initiation in potato (Solanum tuberosum cv. Desiree) tubers

Locquet, C.; Berti, M.; Bray, F.; Hulin, H.; Stoclet, G.; Seung, D.; Lourdin, D.; D'Hulst, C.; Wattebled, F.; Szydlowski, N.

10.1101/2025.06.23.661224 — plant biology — Posted on 2025-06-24

1334 Untargeted metabolomics reveals farming practice- and cultivar-driven modulations of pea (Pisum sativum L.) seed metabolome

Kakhkhorov, S. A.; Engelsen, S. B.; Laursen, K. H.; Khakimov, B.

10.1101/2025.06.23.661072 — plant biology — Posted on 2025-06-24

1335 Dual-view microscopy of single-molecule dipole orientations

Sun, Y.; Wang, Q.

10.1101/2025.06.17.660171 — biophysics — Posted on 2025-06-24

1336 PanVA: a visual analytics tool for pangenomic variant analysis

van den Brandt, A.; de Vries, F.; van Esch, R.; Vlugter, S.; van Workum, D.-J. M.; van de Wetering, H.; Vilanova, A.; Smit, S.

10.1101/2025.06.23.661080 — bioinformatics — Posted on 2025-06-24

1337 Genomic and phenotypic insights into the expanding phylogenetic landscape of the Cryptococcus genus

Coelho, M. A.; David-Palma, M.; Yurkov, A. M.; Heitman, J.

10.1101/2025.06.18.660340 — genomics — Posted on 2025-06-24

1338 An atlas of cell type specific regulatory effects in cattle

Li, H.; Zhang, H.; Zhao, P.; Zhang, Q.; Zhu, S.; Shi, T.; Wang, Y.-N.; Lu, J.-S.; Yang, L.; O'Grady, J. F.; MacHugh, D. E.; Wang, Y.; Wei, Z.; Lv, X.; Wang, M.-S.; Han, B.; Zheng, W.; Chen, A.; Akter, S.; Bhowmik, N.; Ma, Y.; Baldwin VI, R. L.; Li, C.; Jiang, J.; Ma, L.; Maltecca, C.; Wang, J.; Gong, M.; Zhu, X.; Lin, Q.; Xi, Y.; Zhu, D.; Teng, J.; GUAN, D.; An, B.; Ren, J.; Hou, Y.; Wang, F.; Li, B.; Frantz, L.; Larson, G.; Cai, Z.; Sahana, G.; Jiang, Y.; Sun, H.; Sun, D.; Liu, G. E.; Fang, L.

10.1101/2025.06.23.661035 — genetics — Posted on 2025-06-24

1339 Plasma membrane folate transport in fungi and plants is mediated by members of the oligopeptide transporter (OPT) family

Vashist, N.; Bachhawat, A.; Laxman, S.; Choudhury, C.; Ahmad, M. S.; Vedula, S.

10.1101/2025.06.23.661034 — genetics — Posted on 2025-06-24

1340 Transposable elements hitchhike on Starships across fungal genomes

Griem-Krey, H.; de Fraga SantAna, J.; Oggenfuss, U.; Calegari-Alves, Y. P.; Marques, A. L.; Berger, M.; Santi, L.; Beys-da-Silva, W. O.; Habig, M.

10.1101/2025.06.18.660325 — evolutionary biology — Posted on 2025-06-24

1341 Quantifying impacts of natural gas development on forest carbon

Shannon, E. S.; Finley, A. O.; May, P. B.

10.1101/2025.06.23.661107 — ecology — Posted on 2025-06-24

1342 A pair-rule-like transcription network coordinates neural tube closure in a proto-vertebrate

Ostlund-Sholars, G.; Lemaire, L. A.; Levine, M. S.

10.1101/2025.06.18.660479 — developmental biology — Posted on 2025-06-24

1343 Nanoparticle-Supported, Rapid, and Electronic Detection of SARS-CoV-2 Antibodies and Antigens at Sub-Femtomolar Level

Choi, Y.; Mirjalili, S.; Ikbal, M. A.; McClure, S.; Kalatehmohammadi, M.; Clemens, S.; Solano, J.; Heggland, J.; Zhang, T.; Zuo, J.; Wang, C.

10.1101/2024.09.04.611305 — microbiology — Posted on 2025-06-24

1344 The bifunctional dynamin-like GTPase switch DynAB modulates both vegetative and sporulation cell division in Streptomyces.

Liu, M.; Zhang, H.; Jiang, Z.; Zeng, Y.; Zhao, Z.; Zhu, Y.; Zhang, P.; Pang, X.

10.1101/2025.06.23.661029 — microbiology — Posted on 2025-06-24

1345 CFIm25-Dependent Alternative Polyadenylation in AKT2 mRNA Programs Macrophage Polarization

Mukherjee, S.; Barua, A.; Naseri, M.; Moore, C.

10.1101/2025.06.19.660629 — immunology — Posted on 2025-06-24

1346 TWEAK Signaling Drives the Transition from Psoriasis to Atopic Dermatitis-like Inflammation in Paradoxical Skin Reactions

Marella, S.; Bogle, R.; Zhang, H.; Fox, J.; Kirma, J.; Xing, X.; Klein, B.; van Drongelen, V.; Feister, Z.; Zagairy, F.; Hamed, M.; Jiang, R.; Dey, P.; Kahlenberg, J. M.; Billi, A. C.; Tsoi, L. C.; Gudjonsson, J.; Cohen Barak, E.

10.1101/2025.06.19.660481 — immunology — Posted on 2025-06-24

1347 Attention is all you need (in the brain): semantic contextualization in human hippocampus

10.1101/2025.06.23.661103 — neuroscience — Posted on 2025-06-24

1348 The origins of time: a systematic review of the neural signatures of temporal prediction in infancy

Rambosson, I.; Benis, D.; Kabdebon, C.; Filippa, M.; Grandjean, D.

10.1101/2025.06.20.659060 — neuroscience — Posted on 2025-06-24

1349 Rapid and Cost-Effective Digital Quantification of RNA Editing and Maturation in Organelle Transcripts

Hua, Z.

10.1101/2025.06.23.661184 — plant biology — Posted on 2025-06-24

1350 Mutualist-pathogen co-colonisation modulates phosphoinositide signatures at host intracellular interfaces

Guyon, A.; Staps, T.; Badot, L.; Schornack, S.

10.1101/2025.06.23.661106 — plant biology — Posted on 2025-06-24

1351 Thriving Across Depths: How Blue Light Shapes a Large PSI Supercomplex and Specic Photosynthetic Traits in the seagrass Posidonia oceanica.

Charras Ferroussier, Q.; Mathiot, C.; Semchonok, D. A.; Elias, E.; Bhatti, A. F.; Lebrun, R.; Guillemain, D.; Siponen, M.; Croce, R.; Jungas, C.

10.1101/2025.06.20.660723 — plant biology — Posted on 2025-06-24

1352 A desert endophyte, Priestia megaterium SI1-IITJ, improves fluoride stress tolerance by reducing fluoride content of plant tissues and perturbing salt tolerance and defense genes of Arabidopsis thaliana

Verma, D.; Sharma, P.; Kumar, R.; Jangir, N.; Prajapat, V.; Marik, D.; Mandi, R.; Raychoudhury, T.; Chauhan, N. S.; SADHUKHAN, A.

10.1101/2025.06.20.660123 — plant biology — Posted on 2025-06-24

1353 Optimizing population simulations to accurately parallel empirical data for digital breeding

Burns, M. J.; Della Coletta, R.; Fernandes, S. B.; Bohn, M. O.; Lipka, A. E.; Hirsch, C. N.

10.1101/2025.06.18.660215 — plant biology — Posted on 2025-06-24

1354 How AlphaFold and related models predict protein-peptide complex structures

Guan, L.; Keating, A. E.

10.1101/2025.06.18.660495 — bioinformatics — Posted on 2025-06-24

1355 Persistent chromatin alterations and gene expression reprogramming follow widespread DNA damage in glioblastoma

Modrek, A. S.; Chandradoss, K. R.; Do, C.; Ezhilarasan, R.; Sakellaropoulos, T.; Karp, J.; Ding, Y.; Zhang, Z.-Y.; Graciani, M.; Cova, G.; Phillips-Cremins, J. E.; Sulman, E. P.; Skok, J. A.

10.1101/2025.06.18.660431 — genomics — Posted on 2025-06-24

1356 Whole genome assembly and annotation of the Bumblebee Wax Moth, Aphomia sociella

Sandholm, R. M.; Vaaje-Kolstad, G.; La Rosa, S. L.

10.1101/2025.06.18.660359 — genomics — Posted on 2025-06-24

1357 Network-based genetic monitoring of landscape fragmentation

Peled, O.; Kim, J.; Greenbaum, G.

10.1101/2025.06.18.660081 — genetics — Posted on 2025-06-24

1358 Longevity in plants impacts phylogenetic and population dynamics

Smith, S. A.; Pease, J. B.; Carruthers, T.; Bradburd, G. S.; Huegele, I. B.; Stull, G. W.; Weaver, W. N.; Yang, Y.; Yi, T.-S.; Beaulieu, J. M.

10.1101/2025.06.20.660758 — evolutionary biology — Posted on 2025-06-24

1359 Nonapeptide molecular evolution during the adaptive radiation of Tanganyika cichlids

Sorigue, P.; Salzburger, W.; Oliveira, R.

10.1101/2025.06.18.660417 — evolutionary biology — Posted on 2025-06-24

1360 Phylogenomic timetree-calibrated speciation clocks for Caenorhabditis nematodes reveal slow but disproportionate accumulation of post-zygotic reproductive isolation

Fusca, D. D.; Dall'Acqua, M. N.; Sanchez-Ramirez, S.; Cutter, A. D.

10.1101/2025.06.18.660443 — evolutionary biology — Posted on 2025-06-24

1361 Arctic defaunation initiated a cascade of mammal-plant interaction shift through dispersal dynamics

Liu, S.; Stoof-Leichsenring, K. R.; Hütt, M.-T.; Biskaborn, B.; Diekmann, B.; Kaufman, D. S.; Meyer, H.; Melles, M.; Pestryakova, L. A.; Herzschuh, U.

10.1101/2025.06.23.661215 — ecology — Posted on 2025-06-24

1362 Host-specific fungal plant pathogens exhibit distinct interactions with the leaf microbiota of wild grasses

Flores-Nunez, V. M.; Dal'Sasso, T. C. S.; Hansen, M.; Reinhardt, G.; Braun, S.; Stukenbrock, E. H.

10.1101/2025.06.24.661283 — microbiology — Posted on 2025-06-24

1363 Two-Point Calibration Protocol for the FRET Indicator Pyronic in Neurons

Baeza-Lehnert, F.; Contreras-Baeza, Y.; Aburto, C.; San Martin, A.

10.1101/2025.06.23.661049 — neuroscience — Posted on 2025-06-24

1364 Rapid replacement of established by exotic genetic lineages of the fungal maize pathogen Exserohilum turcicum in the Swiss Rhine valley

Vidal Villarejo, M.; Hammerschmidt, M.; Oppliger, B.; Oppliger, H.; Schmid, K. J.

10.1101/2025.06.24.661258 — plant biology — Posted on 2025-06-24

1365 Protein quality of Hyptis spicigera syn. Cantinoa americana (amola): a locally valued yet underutilized African food crop adaptable to an uncertain future

Masters, E. T.

10.1101/2025.06.20.660461 — plant biology — Posted on 2025-06-24

1366 Therapeutic potential of oxygen through M101 transportation in reducing vaso-occlusion and hemolysis in a mouse model of sickle cell disease.

Zal, F.; Rignault-Bricard, R.; Demini, L.; Barrou, B.; Lantieri, L.; Hermine, O.; Arlet, J.-B.; Maciel, T. T.

10.1101/2025.06.18.660442 — pathology — Posted on 2025-06-24

1367 Cetuximab increases LGR5 expression and augments LGR5-targeting antibody-drug conjugate efficacy in patient-derived colorectal cancer models

High, P. C.; Liang, Z.; Guernsey-Biddle, C.; Subramanian, S.; Shyu, Y.-M.; Aldana, A. M.; Toh, Y.; Carmon, K. S.

10.1101/2025.06.18.660406 — cancer biology — Posted on 2025-06-24

1368 Developmental Plasticity and Stromal Co-option Shape a Pituitary Neuroendocrine Tumor Transcriptional Continuum

Osorio, R. C.; Oh, J. Y.; Jung, J.; Ehrenberg, A. J.; Saha, A.; Lad, M.; Khela, H.; Brennick, N.; Giannikopoulos, P.; Seeley, W. W.; Grinberg, L. T.; Diaz, A.; Aghi, M. K.

10.1101/2025.06.18.659743 — cancer biology — Posted on 2025-06-24

1369 Soluble E-cadherin Drives Brain Metastasis in Inflammatory Breast Cancer

hu, x.; Xiong, Y.; Villodre, E. S.; zhang, H.; Song, J.; Fowlkes, N.; Krishnamurthy, S.; Rylander, M. N.; Bartholomeusz, C.; Tripathy, D.; The MDACC Inflammatory Breast Cancer Team, ; Woodward, W.; Chen, J.; Debeb, B. G.

10.1101/2025.06.18.660428 — cancer biology — Posted on 2025-06-24

1370 Correction for spurious taxonomic assignments of k-mer classifiers in low microbial biomass samples using shuffled sequences

Sun, S.; Fodor, A. A.

10.1101/2025.06.18.660363 — bioinformatics — Posted on 2025-06-24

1371 MEM-GAN: A Pseudo Membrane Generator for Single-cell Imaging in Fluorescent Microscopy

Wang, Y.; Ding, J.; Wu, L.; Wardhani, A.; Danaher, P.; Wen, H.; Tang, W.; Lu, Q.; Chang, Y.; Lei, Y. L.; Tang, J.; Xie, Y.

10.1101/2023.11.08.566343 — bioinformatics — Posted on 2025-06-24

1372 Perfusable 3D models of ureteric bud and collecting duct tubules

Wolf, K. J.; van Gaal, R. C.; Uzel, S. G. M.; Rubins, J. E.; Klaus, A. N.; Printz, A.; Nair, P.; Kroll, K. T.; Stankey, P.; Satlin, L. M.; Lewis, J. A.

10.1101/2025.06.19.659798 — bioengineering — Posted on 2025-06-24

1373 Multicellularity, Culture Duration, and Hydrogel Stiffness Guide Induced Pluripotent Stem Cell-Derived Endothelial Progenitor Cell Contractility

West, T. M.; Han, J.; Peery, G.; Zoldan, J.; Sacks, M. S.

10.1101/2025.06.18.660409 — bioengineering — Posted on 2025-06-24

1374 Developmental plasticity of hermaphrodite sperm production across environments in Caenorhabditis elegans

Gimond, C.; Poullet, N.; Vielle, A.; Demoinet, E.; Braendle, C.

10.1101/2025.06.18.660282 — evolutionary biology — Posted on 2025-06-24

1375 A connectomics-based analysis of lamina monopolar cells reveals mechanisms of spatial processing in insect motion vision

Bigge, R.; Arikawa, K.; Stoeckl, A.

10.1101/2025.06.19.660550 — neuroscience — Posted on 2025-06-24

1376 Specific anterior-posterior brain-wide input patterns support specialized visuospatial processing in the mouse retrosplenial cortex

Wei, Y.-T.; Couto, J.; Kloosterman, F.; Bonin, V.

10.1101/2025.06.24.661247 — neuroscience — Posted on 2025-06-24

1377 Actin waves guide an outward movement of microclusters in the lymphocyte immunological synapse

Kumari, S.; Zomawia, S. K.; Dey, A.; Colin-York, H.; Fritzsche, M.; Sarkar, S.

10.1101/2025.06.20.660656 — immunology — Posted on 2025-06-24

1378 MAPseq2: a sensitive and cost-effective barcoded connectomics method

Kim, H.; Qi, H.; Washington, C.; Liang, X.; Kebschull, J. M.

10.1101/2025.06.23.661165 — neuroscience — Posted on 2025-06-24

1379 Multisensory integration for active mechanosensation in Drosophila flight

Mills, K. M.; Cowan, N. J.; Suver, M. P.

10.1101/2025.06.20.660728 — neuroscience — Posted on 2025-06-24

1380 Aberrant brain-type neuronal programs in large-cell pancreatic neuroendocrine carcinoma

Debnath, O.; Berger, H.; Detjen, K.; Kirchner, P.; Marinoni, I.; Eichhorn, I.; Bolduan, F.; Conrad, T.; Horst, D.; Eils, R.; Wiedenmann, B.; Perren, A.; Ishaque, N.

10.1101/2025.06.18.660360 — cancer biology — Posted on 2025-06-24

1381 Integrated genetic screening reveals FEN1 as a driver of stemness and temozolomide resistance in glioblastoma

Brakel, B. A.; McKenna, D.; Puri, A.; Shaikh, V. M.; Singh, M.; Saleh, A.; Tomajian, A.-j.; Mikolajewicz, N.; Beltrami, M.; Anand, A.; Miletic, P.; Brown, K. R.; Tieu, D.; Maich, W.; Salim, S.; Suk, Y.; Subapanditha, M.; Gendoo, D. M. A.; Venugopal, C.; Moffat, J.; Katyal, S.; Chokshi, C. R.; Singh, S. K.

10.1101/2025.06.18.660339 — cancer biology — Posted on 2025-06-24

1382 GOLF: A Generative AI Framework for Pathogenicity Prediction of Myocilin OLF Variants

Walton, T. A.; Tsui, D.; Fogel, L.; Huard, D.; Chagas, R.; Lieberman, R. L.; Aghazadeh, A.

10.1101/2025.06.17.660210 — bioinformatics — Posted on 2025-06-24

1383 A Tunable Pulmonary Organoid Model Demonstrates Compositionally Driven Epithelial Plasticity and Immune Polarization

Edelstein, S. E.; Mizoguchi, S.; Gracia, M. T.; Wang, N.; Lee, V.; Kim, H.; Haynes, C.; Danelski, C.; Tsuchiya, T.; Sauler, M.; Raredon, M. S. B.

10.1101/2025.06.05.658120 — bioengineering — Posted on 2025-06-24

1384 Epigenetic genes are differentially methylated in the blood of persons with mild cognitive impairment and Alzheimers disease

Faasen, S. G.; Papale, L. A.; Boruch, A.; Bergmann, P. E.; Hogan, K.; Alisch, R. S.

10.1101/2025.06.18.660344 — genomics — Posted on 2025-06-24

1385 daf-16/FOXO promotes the activity of ligand-bound DAF-12/NHR to coordinate dauer recovery and post-dauer seam cell fate

Wirick, M. J.; Smith, I. T.; Olson, B. S.; Alessi, A. F.; Galagali, H.; Lalk, K.; Schmidt, M. N.; Ranke, K. J.; Kim, J. K.; Karp, X.

10.1101/2025.06.18.660181 — developmental biology — Posted on 2025-06-24

1386 Cis-aconitate therapy protects against influenza mortality by dual targeting of viral polymerase and ERK/AKT/NF-κB signaling

Cezard, A.; Diakite, D.; Vasseur, V.; Wacquiez, A.; Gonzalez, L.; Le Goffic, R.; Da Costa, B.; FOUQUENET, D.; Heumel, S.; Machelart, A.; Hoffmann, E.; Brodin, P.; Trottein, F.; Mathieu, C.; Canus, L.; Jacolin, F.; Vidalain, P.-O.; Perrin-Cocon, L.; Lotteau, V.; Tertigas, D.; Burlaud-Gaillard, J.; Surette, M. G.; Legras, A.; Sizaret, D.; Baranek, T.; Paget, C.; Guillon, A.; Si-Tahar, M.

10.1101/2025.06.18.660279 — immunology — Posted on 2025-06-24

1387 A Multigenerational ''Dirty'' Mouse Model for Studying Trauma-Induced Immune Dysregulation and Infection Susceptibility

Byskosh, A.; Pulford, J.; Murzin, E.; Michael, Z.; Lovell, C. G.; Niu, B.; Seshadri, A.; Brat, G.; Zajdel, A.; Borriello, F.; Lederer, J.

10.1101/2025.06.18.660185 — immunology — Posted on 2025-06-24

1388 Oxytocin neurons signal state-dependent transitions from rest to thermogenesis and behavioral arousal in social and non-social settings

Vandendoren, M.; Landen, J. G.; Rogers, J. F.; Killmer, S.; Alimiri, B.; Pohlman, C.; Tattersall, G. J.; Bedford, N. L.; Nelson, A. C.

10.1101/2024.10.22.619715 — neuroscience — Posted on 2025-06-24

1389 Ablation of hematopoietic stem cell derived adipocytes reduces tumor burden in syngeneic mouse models of high-grade serous carcinoma

Woodruff, E. R.; Bailey, C. A.; To, F.; Manda, V.; Maltzahn, J. K.; Sullivan, T. M.; Boorgula, M. P.; Recouvreux, M. S.; Vianzon, R.; Conrad, B.; Gavin, K. M.; Jordan, K. R.; Klemm, D. J.; Orsulic, S.; Bitler, B. G.; Watson, Z. L.

10.1101/2024.09.19.613924 — cancer biology — Posted on 2025-06-24

1390 Towards site-specific information on PET degrading enzymesusing NMR near operational temperature

Gabrielli, V.; Grga, J.; Gavalda, S.; Perrot, L.; Cantrelle, F.-X.; Boll, E.; Lippens, G.; Charlier, C.

10.1101/2024.09.10.612188 — biophysics — Posted on 2025-06-24

1391 Codon usage bias study of the Vitamin D receptor (VDR) gene of Multiple Sclerosis and Diabetes-1 patients

Barik, S. K.; Turuk, J.; Giri, S.; Pati, S.

10.1101/2023.07.06.547960 — bioinformatics — Posted on 2025-06-24

1392 Inhalable Perfluorocarbon RNA Nanocapsules Bypass Immune Clearance While Targeting Lung Epithelial and Lung Tumor Cells

Siddhanta, K.; Monirvaghef, A.; Sundar, A.; Pinkerton, B. R.; Kumari, N.; Ding, L.; Woslager, C. J.; Kalpana, M. A.; Jogdeo, C. M.; Ravnholdt, A. R.; Poole, J. A.; Santarpia, J.; Talmadge, J. E.; Oupicky, D.

10.1101/2025.06.05.658088 — bioengineering — Posted on 2025-06-24

1393 Septin7 is essential in early hematopoiesis, but redundant at later stages

Ronkina, N.; Verheyden, N.; Gambhir, P.; Laass, K.; Yakovleva, T.; Doerrie, A.; Abbey, M.; Menon, M. B.; Selich, A.; Galla, M.; Rothe, M.; Schambach, A.; Krueger, A.; Kotlyarov, A.; Gaestel, M.

10.1101/2025.04.22.649981 — biochemistry — Posted on 2025-06-24

1394 Stranded short nascent strand sequencing reveals the topology of DNA replication origins in Trypanosoma brucei.

STANOJCIC, S.; BARCKMANN, B.; MONSIEURS, P.; CROBU, L.; GEORGE, S.; Sterkers, Y.

10.1101/2024.12.03.626629 — genomics — Posted on 2025-06-24

1395 PERADIGM: Phenotype Embedding Similarity-based Rare Disease Gene Mapping

Zheng, W.; Xie, Y.; Gu, J.; Li, H.; Somlo, S.; Besse, W.; Zhao, H.

10.1101/2025.04.01.646670 — genetics — Posted on 2025-06-24

1396 L-2-hydroxyglutarate impairs neuronal differentiation through epigenetic activation of MYC expression

Gu, W.; Wang, X.; Solmonson, A.; Cai, L.; Xiao, Y.; Tasdogan, A.; Franklin, J.; Zhang, Y.; Zhang, H.; Westfall, A. K.; Rowe, A.; Trivedi, H.; Faubert, B.; Wu, Z.; Sudderth, J.; Zacharias, L. G.; Afroze, B.; Bezprozvanny, I.; Sudarshan, S.; Cai, F.; McBrayer, S. K.; Mathews, T. P.; DeBerardinis, R. J.

10.1101/2025.04.16.649033 — genetics — Posted on 2025-06-24

1397 Measuring the Strength of Spatial Sorting

Goel, N.; Comerford, M. S.; Bernat, A.; Egan, S. P.; Juenger, T. E.; Keitt, T. H.

10.1101/2025.01.17.633577 — evolutionary biology — Posted on 2025-06-24

1398 Revisiting evolutionary rate-time relationships

De Lisle, S.; Svensson, E. I.

10.1101/2023.12.02.569704 — evolutionary biology — Posted on 2025-06-24

1399 Founders predict trait evolution and population performance after evolutionary rescue

Ravi Kumar, V.; Buddh, S.; Singhal, S.; Prakash, A.; Agashe, D.

10.1101/2025.03.17.640637 — evolutionary biology — Posted on 2025-06-24

1400 Toward improved uncertainty quantification in predictions of forest dynamics: A dynamical model of forest change

Itter, M. S.; Finley, A. O.

10.1101/2024.07.22.604669 — ecology — Posted on 2025-06-24

1401 Vehicle-mounted cameras reveal negative impact of the Fukushima Daiichi nuclear power plant accident on large bird abundance via paddy field abandonment.

Kumada, N.; Fukasawa, K.; Yoshioka, A.; Tsuda, N.; Ouchi, H.

10.1101/2023.05.31.540128 — ecology — Posted on 2025-06-24

1402 Effect of spatial overdispersion on confidence intervals for population density estimated by spatial capture-recapture

Efford, M. G.; Fletcher, D.

10.1101/2024.03.12.584742 — ecology — Posted on 2025-06-24

1403 Vocal species are more central in Eastern Himalayan Mixed-Species bird flocks

Gupta, S.; Bharadwaj, A.; Bhat, A.; Thapa, A.; Biswakarma, A.; Tamang, B.; Munda, B.; Biswakarma, B.; Pradhan, D.; Tamang, D.; Rai, M.; Rai, R.; Rai, S.; Srinivasan, U.

10.1101/2024.12.06.626929 — ecology — Posted on 2025-06-24

1404 Conformational biosensors delineate endosomal G protein regulation by GPCRs

Wysolmerski, B.; Blythe, E. E.; von Zastrow, M.

10.1101/2025.05.12.653522 — cell biology — Posted on 2025-06-24

1405 Natural Product-Like Fragments Unlock Novel Chemotypes for a Kinase Target - Exploring Options beyond the Flatland

Santura, A.; Mueller, J.; Wolter, M.; Tutzschky, I.-C.; Ruf, M.; Metz, A.; Sandner, A.; Merkl, S.; Klebe, G.; Glinca, S.; Czodrowski, P.

10.1101/2025.06.11.659015 — molecular biology — Posted on 2025-06-24

1406 A Cas12a Toolbox for Rapid and Flexible Group B Streptococcus Genomic Editing and CRISPRi

Hillebrand, G. H.; Carlin, S. M.; Giacobe, E. J.; Stephenson, H. A.; Collins, J.; Hooven, T. A.

10.1101/2025.06.20.660720 — microbiology — Posted on 2025-06-24

1407 IL-27 limits HSPC differentiation during infection and protects from stem cell exhaustion

Aldridge, D. L.; Lanzar, Z.; Phan, A.; Christian, D. A.; Pardy, R.; Min, B.; Kedl, R.; Hunter, C. A.

10.1101/2025.01.15.633135 — immunology — Posted on 2025-06-24

1408 MLL1 directs gut-associated antibody responses to helminth and bacterial infections

Zhang, Y.; Chakma, C.; Kirn, A.; Chisanga, D.; Polmear, J.; Zaini, A.; Farighi, R.; Xie, L.; Lopez-Urena, D.; Mileto, S.; Lyras, D.; Zaph, C.; Groom, J. R.; Good-Jacobson, K.

10.1101/2024.08.21.609083 — immunology — Posted on 2025-06-24

1409 Assessing the degree of cortical dislamination through electrical pattern analysis

Aquiles, A.; Pinedo-Vargas, L.; Luna-Munguia, H.; Pena-Ortega, F.; Concha, L.; Rossi-Pool, R.

10.1101/2025.06.16.659942 — neuroscience — Posted on 2025-06-24

1410 Multidimensional feature tuning in category-selective areas of human visual cortex

van Dyck, L. E.; Hebart, M. N.; Dobs, K.

10.1101/2025.06.17.659578 — neuroscience — Posted on 2025-06-24

1411 Cognitive reserve linked to network-specificbrain-ventricle coupling modes

Campo, F. F.; Brattico, E.; Miguel, V.; Magalhaes, V.; Nigro, S.; Tafuri, B.; Logroscino, G.; Cabral, J.; the Alzheimer's Disease Neuroimaging Initiative,

10.1101/2025.01.04.631289 — neuroscience — Posted on 2025-06-24

1412 Correlations of neural predictability and information transfer in cortex and their relation to predictive coding

Fiorenza, J. P.; Le Donne, L.; Schmidt-Samoa, C.; Heide, E.- C.; von der Brelie, C.; Malinova, V.; Focke, N. K.; Wilke, M.; Melloni, L.; Schwiedrzik, C. M.; Wibral, M.

10.1101/2025.05.23.655705 — neuroscience — Posted on 2025-06-24

1413 BTK-NLRP3-Caspase1 and Gasdermin D-Caspase 11 pathways jointly drive neuroinflammation and functional impairments in a rat model of psychosocial stress

Tiwari, S.; Mohammed, Z.; Yadav, E.; Kaushik, S.; Tiwari, A.; Atta, S. R.; Singh, I.; Chopra, A.; Ghosh, S.

10.1101/2025.02.02.636090 — neuroscience — Posted on 2025-06-24

1414 Intrinsic and circuit mechanisms of predictive coding in a grid cell network model

Shaikh, I.; Assisi, C.

10.1101/2025.04.11.648301 — neuroscience — Posted on 2025-06-24

1415 Cultivar mixtures stabilize wheat baking quality rather than improve it

Stefan, L.; Strebel, S.; Camp, K.-H.; Christinat, S.; Fossati, D.; Stadeli, C.; Levy Haener, L.

10.1101/2025.06.20.660693 — plant biology — Posted on 2025-06-24

1416 Phytochemical Content and Antimicrobial Activity of Aloe Vera extract of Marathwada Region, India

Barik, S. K.; Nagargoje, M.; Chaudhari, N.; Harke, S. N.; Khemnar, A. S.

10.1101/2025.06.17.660060 — plant biology — Posted on 2025-06-24

1417 Associations of genetic and spectral diversity in European beech

Czyz, E. A.; Schmid, B.; Eppinga, M. B.; de La Harpe, M.; Moradi, A.; Li, C.; Coq--Etchegaray, D.; Schaepman, M. E.; Schuman, M. C.

10.1101/2023.08.16.553487 — plant biology — Posted on 2025-06-24

1418 Serotypes of Dengue Virus and Kdr Mutations F1534C, S989P, V410L, V1016I, and V1016G in Aedes aegypti and Aedes albopictus Mosquitoes from the commune of AbomeyCalavi, Southern Benin

Tokponnon, F. T.; AMOUSSA, O. D. A.; Dabou, Z. S.; Kpemasse, N.; Ahouandjinou, M. J.; Towakinou, L.; Agassounon, B.; Tandjekpon, O. S.; Gandaho, F. C.; Issa, M.; Gounou Yerima, I.; Houessinon, F.; Dougnon, V.; Oxborough, R. M.; Mesenger, L.; Osse, R.; Baba-Moussa, L.; KINDE-GAZARD, D.; Akogbeto, M.

10.1101/2025.06.20.660662 — biochemistry — Posted on 2025-06-24

1419 Epitope Effect Prevalence in Affinity-based pQTL studies

Kuliesius, J.; Badonyi, M.; Navarro, P.; Marsh, J. A.; Klaric, L.; Wilson, J. F.

10.1101/2025.06.20.660695 — genomics — Posted on 2025-06-24

1420 Whole genome sequence-based characterization of foodborne Staphylococcus aureus isolated from pork in 2018 and 2023.

Zhu, J.; Tang, T.; Ji, L.; Li, H.

10.1101/2025.06.20.660668 — genomics — Posted on 2025-06-24

1421 ERSAtool: A User-Friendly R/Shiny Comprehensive Transcriptomic Analysis Interface Suitable for Education

Taridalu, S.; Sista Kameshwar, A. K.; Suzuki, M.

10.1101/2025.06.20.660710 — genetics — Posted on 2025-06-24

1422 Burkholderia cenocepacia and Pseudomonas aeruginosa coinfection alters antimicrobial tolerance, infection dynamics and host immune effectiveness

Alcacer-Almansa, J.; Admella, J.; Blanco-Cabra, N.; Torrents, E.

10.1101/2025.06.20.660666 — microbiology — Posted on 2025-06-24

1423 Evaluating the utility of amino acid similarity-aware kmers to represent TCR repertoires for classification

Kockelbergh, H.; Evans, S. C.; Brierley, L.; Green, P. L.; Jorgensen, A. L.; Soilleux, E. J.; Fowler, A.

10.1101/2024.12.06.626025 — immunology — Posted on 2025-06-24

1424 An end-to-end framework for Cell DIVE multiplexed imaging and spatial immune microenvironment analysis

Bhalla, A.; Mackerodt, J.; Pohin, M.; Hill, S.; Richard, J.-B.; Thomas, T.; Henninger, R.; Ginty, F.; Corwin, A.; McDonough, E.; Surrette, C.; Midwood, K. S.; Korsunsky, I.; Buckley, C. D.; Windell, D.; Coles, M. C.

10.1101/2025.06.20.656440 — immunology — Posted on 2025-06-24

1425 Pathogenic strains of a gut commensal drive systemic platelet activation and thromboinflammation in lupus nephritis

Amarnani, A.; Rivera, C. F.; Cornwell, M.; Weinstein, T.; Gottesman, S.; Loomis, C.; Azad, Z.; Lee, A.; Prasad, J.; Barnes, B. J.; Yi, M.; Ullah, N.; Gisch, N.; Ruggles, K.; Ramkhelawon, B.; Silverman, G. J.

10.1101/2025.06.20.641288 — immunology — Posted on 2025-06-24

1426 Structural Determinants of Signal Speed: A Multimodal Investigation of Face Processing in Autism Spectrum Disorder

Coleman, C. R.; Nance, M. G.; Jacokes, Z.; Druzgal, T. J.; Arutiunian, V.; Kresse, A.; Sullivan, C. A. W.; Santhosh, M.; Neuhaus, E.; Borland, H.; Bernier, R. A.; Bookheimer, S. Y.; Dapretto, M.; Jack, A.; Kleinhans, N. M.; Jeste, S.; McPartland, J. C.; Naples, A.; Geschwind, D.; Gupta, A. R.; Webb, S. J.; Pelphrey, K. A.; Van Horn, J. D.; Newman, B. T.; Puglia, M. H.; on behalf of the ACE GENDAAR Consortium,

10.1101/2025.03.19.644214 — neuroscience — Posted on 2025-06-24

1427 Lie Detectors for Face Recognition

Meytlis, M.

10.1101/2025.06.22.660938 — neuroscience — Posted on 2025-06-24

1428 High-resolution whole-brain magnetic resonance spectroscopic imaging in youth at risk for psychosis

Celereau, E.; Lucchetti, F.; Aleman-Gomez, Y.; Dwir, D.; Cleusix, M.; Ledoux, J.-B.; Jenni, R.; Bach Cuadra, M.; Schilliger, Z.; Solida, A.; Armando, M.; Plessen, K. J.; Hagmann, P.; Conus, P.; Klauser, A.; Klauser, P.

10.1101/2025.06.22.660965 — neuroscience — Posted on 2025-06-24

1429 Abnormal Elevated Connectivity During Language Processing is Associated with Poor Cognitive Performance in Children with Self-limited Epilepsy with Centrotemporal Spikes

Qi, W.; Lee, K.; Nix, K. C.; Menchaca, M.; She, X.; Santa Maria, L.; Wu, W.; He, Z.; Baumer, F. M.

10.1101/2025.06.19.660474 — neuroscience — Posted on 2025-06-24

1430 In vivo CRISPR screening identifies NF1/RASA1/TP53 co-mutations and downstream MEK signaling as a common key mechanism of sinonasal tumorigenesis

Vu, K. P.; Gunti, S.; Viswanathan, R.; Nandal, A.; Larkin, R.; Cho, S.; Zou, J.; Ramolia, S.; Hoke, A. T. K.; Barbosa, S. M.; Gallia, G. L.; Rooper, L. M.; Floudas, C. S.; Cheng, H.; Miller, C. N.; Guest, M. R.; Notaro, M.; Raziuddin, A.; Sun, Z.; Wu, X.; Faraji, F.; Lechner, M.; Comoglio, F.; Edmondson, E. F.; Chari, R.; London, N. R.

10.1101/2025.05.19.654661 — cancer biology — Posted on 2025-06-24

1431 Spatial determinants of tumor cell dedifferentiation and plasticity in primary cutaneous melanoma

Vallius, T.; Shi, Y.; Novikov, E.; Pant, S. M.; Pelletier, R.; Chen, Y.-A.; Tefft, J. B.; Nirmal, A. J.; Maliga, Z.; Wan, G.; Murphy, G.; Santagata, S.; Semenov, Y.; Liu, D.; Lian, C. G.; Sorger, P. K.

10.1101/2025.06.21.660851 — cancer biology — Posted on 2025-06-24

1432 Spatially defined multicellular functional units in colorectal cancer revealed from single cell and spatial transcriptomics

Avraham-Davidi, I.; Mages, S.; Klughammer, J.; Moriel, N.; Imada, S.; Hofree, M.; Murray, E.; Chen, J.; Pelka, K.; Mehta, A.; Boland, G. M.; Delorey, T. M.; Caplan, L.; Dionne, D.; Strasser, R.; Lalakova, J.; Niesnerova, A.; Xu, H.; Rouault, M.; Tirosh, I.; Hacohen, N.; Chen, F.; Yilmaz, O. H.; Roper, J.; Rozenblatt-Rosen, O.; Nitzan, M.; Regev, A.

10.1101/2022.10.02.508492 — cancer biology — Posted on 2025-06-24

1433 Evolution of quantitative traits: exploring the ecological, social and genetic bases of adaptive polymorphism

Lehmann, L.; Mullon, C.

10.1101/2025.06.23.661088 — evolutionary biology — Posted on 2025-06-23

1434 Polo-Like Kinase 1 phosphorylation tunes the functional viscoelastic properties of the centrosome scaffold

Amato, M.; Hwang, J. H.; Rios, M. U.; Familiari, N. E.; Rosen, M. K.; Woodruff, J. B.

10.1101/2024.08.29.610374 — cell biology — Posted on 2025-06-24

1435 Fundamental Sex Differences in Cocaine-Induced Plasticity of D1R- and D2R-MSNs in the Mouse Nucleus Accumbens Core

Chapp, A. D.; McMullan, H. M.; Phan, C.-M. H.; Jagtap, P. P.; Mermelstein, P. G.

10.1101/2025.06.18.660420 — neuroscience — Posted on 2025-06-23

1436 Heterosynaptic interactions between dorsal and ventral hippocampus in individual medium spiny neurons of the nucleus accumbens ventromedial shell

Copenhaver, A. E.; Vance, S.; Snider, S. A.; Befano, K.; LeGates, T. A.

10.1101/2025.06.23.661109 — neuroscience — Posted on 2025-06-23

1437 Dendritic Polyglycerol Amine Substrate Extends the Viability of Mixed Glial Cultures for Repeated Isolation of Immature Oligodendrocyte Lineage Cells

Uccelli, N. A.; Chitsaz, D.; Gothie, J.-D.; Kakkar, D.; Mohammadifar, E.; Antel, J. P.; Haag, R.; Kennedy, T. E.

10.1101/2025.06.23.661031 — neuroscience — Posted on 2025-06-23

1438 Predicting Brain Volumes from Anthropometric and Demographic Features: Insights from UK Biobank Neuroimaging Data

Nazarzadeh, K.; Eickhoff, S. B.; Antonopoulos, G.; Hensel, L.; Tscherpel, C.; Komeyer, V.; Raimondo, F.; Grefkes, C.; Patil, K. R.

10.1101/2025.06.22.660902 — neuroscience — Posted on 2025-06-23

1439 Bifidobacterium longum subsp. nexus nov., a novel subspecies isolated from infant stool

Ennis, D.; Andreu-Sanchez, S.; Levin, Y.; Goldberger, O.; Mallon, C. A.; Jayaprakash, Y. K.; Shao, Y.; Zhao, S.; Sinha, T.; Fu, J.; Weersma, R. K.; Alm, E.; Amster-Choder, O.; Lawley, T. D.; Harmsen, H. J. M.; van Sinderen, D.; Zhernakova, A.; Yassour, M.

10.1101/2025.06.23.661074 — microbiology — Posted on 2025-06-23

1440 GENETIC, MORPHOLOGICAL, AND PHYTOCHEMICAL DIFFERENTIATION OF CARNAVAL - A NEW HOP CULTIVAR ADAPTED TO TROPICAL ENVIRONMENT

Lima, R. B. d. S.; Delgado, C. H. O.; Raffaele, M. V.; Croce, V. P.; Pinheiro, J. B.; Marques, M. O. M.; Marroquin, J. A. M.; Martin, G. A. d. S.; Oliveira, F. R.; Silva, L. T. P.; Mondin, M.

10.1101/2025.06.17.660195 — plant biology — Posted on 2025-06-23

1441 Human Saphenous Vein Ex Vivo Culture as a Translational Model of Intimal Hyperplasia

Zhao, S.; Deslarzes, C.; Urfer, S.; Thevenet, J.; Bechelli, C.; Lambelet, M.; Allagnat, F.; Deglise, S.

10.1101/2025.06.17.660253 — physiology — Posted on 2025-06-23

1442 On the onset of multicellular invasive behavior in hierarchical lineage: the role of inhibitory feedback and local fluctuations

Nava-Sedeno, J. M.; Martinez, A.; Hatzikirou, H.

10.1101/2025.06.17.660235 — cancer biology — Posted on 2025-06-23

1443 A translatable evaluation tool to study the biodistribution of clinically-available doxorubicin liposomes: PET imaging of Zr-Talidox

Carrascal-Minino, A.; Mishra, A.; Gawne, P.; Angoh, S.; Chupin, J.; Kim, J.; de Santis, V.; Pham, T.; Bark, F.; Khan, A.; Long, N. J.; T. M. de Rosales, R.

10.1101/2025.06.17.660144 — bioengineering — Posted on 2025-06-23

1444 High-throughput Single-cell Proteomics Enabled by an Integrated Hyperplexing and Automatic Labelling Approach without Fractionation

Yang, Y.; Zhang, H.; Zeng, Q.; Jin, K.; Huang, C.; Liu, Y.; Liu, X.; Yang, J.; Ma, H.; He, F.

10.1101/2025.06.22.660561 — biochemistry — Posted on 2025-06-23

1445 The Mycobacterium smegmatis bd-II terminal oxidase employs a 1 carboxylate shift mechanism

Kovalova, T.; Janczak, M.; Gamiz-Hernandez, A. P.; Lundin, D.; Sharma, S.; Vilhjalmsdottir, J.; Sjoestrand, D.; Kaila, V. R. I.; Hoegbom, M.; Aedelroth, P.

10.1101/2025.06.23.660515 — biochemistry — Posted on 2025-06-23

1446 Pronounced genetic structure associated with differences in a reproductive trait and climatic barriers in Canadian populations of the western toad (Anaxyrus boreas)

Bergman, J. C.; Ensico-Romero, J.; Pauly, G. B.; Gamlen-Greene, R.; Todd, M.; Lee-Yaw, J. A.

10.1101/2025.06.17.660222 — evolutionary biology — Posted on 2025-06-23

1447 A general temperature dependence for biological nitrogen fixation across systems and levels of organization

O'Connor, M. I.; Slein, M. A.; Davis, K. E.

10.1101/2025.06.17.660177 — ecology — Posted on 2025-06-23

1448 Comparing fluorometric methods (in vivo vs extracted) for cyanoHAB monitoring in six Rhode Island ponds

Shivers, S.; Hollister, J. W.; Fournier, S.; Stankoski, J. A.; Kreakie, B. J.

10.1101/2025.06.17.660268 — ecology — Posted on 2025-06-23

1449 Transcriptional Elongation-Associated RNA Processing Errors in Induced Cellular Growth Arrest

Parast, S.; Wang, S.; Iwanaszko, M.; He, Y.; Olgun, D. G.; Gold, S. R.; Aoi, Y.; Zeidner, J. M.; Howard, B. C.; Thakur, W. R.; Ramani, V.; Shilatifard, A.

10.1101/2025.06.23.660200 — molecular biology — Posted on 2025-06-23

1450 Increased contact transmission of contemporary Human H5N1 compared to Bovine and Mountain Lion H5N1 in a hamster model

10.1101/2025.06.23.661180 — microbiology — Posted on 2025-06-23

1451 A type III secretion system is required for Bordetella atropi host cell invasion in vivo

Tran, T. D.; Meadows-Graves, S. J.; Haio, A. R.; Varga, A. I.; Luallen, R. J.

10.1101/2025.06.23.660806 — microbiology — Posted on 2025-06-23

1452 Tre-DST: A new drug susceptibility test for Mycobacterium tuberculosis using solvatochromic trehalose probes

Schwartz, L. A.; Brodeth, A. L.; Susilo, C. T.; Rodolf, A. A.; Ivanov, T.; Corrales, E. M.; Kumar, S. S.; Kamariza, M.

10.1101/2025.06.23.661142 — microbiology — Posted on 2025-06-23

1453 Metabolite Interactions Mediate Beneficial Alliances Between Bacillus and Trichoderma for Effective Fusarium Wilt Control

Xie, J.; Sun, X.; Wen, T.; Bai, Y.; Qian, T.; Hu, S.; Chen, L.; Wang, P.; Miao, Y.; Zhang, R.; Kovacs, A. T.; Xu, Z.; Shen, Q.

10.1101/2025.06.23.660901 — microbiology — Posted on 2025-06-23

1454 Plasma Membrane Damage by Environmental Materials Enhances Cell-Cell Fusion and Impairs Immune Functions of Macrophages

Wu, D.; Zhang, X.; Wang, R.; Livingston, A.; EL Hayek, E.; Xue, X.; Neumann, A. K.; Campen, M.; Liu, M.; Yang, X.

10.1101/2025.06.17.660197 — immunology — Posted on 2025-06-23

1455 Dynamic encoding of valence by the anterior cingulate cortex in mice

Goswamee, P.; Saferin, N.; Ganguly, K.; Shah, R.; Seoane, J. S.; Neifer, K. L.; Pearce, R. A.; Burkett, J. P.

10.1101/2025.06.17.660226 — neuroscience — Posted on 2025-06-23

1456 Establishing Vibrio natriegens as a high-performance host for acetate-based poly-3-hydroxybutyrate production

Politan, R. J.; Della Valle, S.; Pineda, L.; Joshi, J.; Euler, C.; Flematti, G.; Fritz, G.

10.1101/2025.06.23.661028 — synthetic biology — Posted on 2025-06-23

1457 Temporal Dynamics of Urinary Extracellular Vesicle Excretion and Cargo in Healthy Subjects over 24 Hours

Upson, S.; Selesky, M.; Greig, M.; Yavuz, H.; Harding, M.; Mallawaarachchi, I.; Ma, J.; Solga, M.; Alwagdani, A.; Musante, L.; Erdbruegger, U.

10.1101/2025.06.17.660244 — physiology — Posted on 2025-06-23

1458 The obesity-linked peptide SP16 regulates adipocytes through GIP and insulin receptor

Ngo, T. M. H.; Santhanam, R.; Teufel, D.; Dick, A.; Lam, D.; Klein, H.; Brunner, A.-D.; Pereira, M. M. A.; Bartelt, A.; Pekcec, A.; Giroud, M.

10.1101/2025.06.17.660082 — pharmacology and toxicology — Posted on 2025-06-23

1459 Cerebellum metastasis model of HER2-positive breast cancer unveils key role of IL34-induced Arg1+ macrophages.

Cheng, X.; Patel, K. K.; Zhou, B.; Fu, Y.; Cleary, R.; Highkin, M.; Hsia, J.; Jin, X.; Kohn, B.; Prior, J. L.; Michie, M. S.; Sun, R.; Van Swearingen, A. E. D.; Quirk, J. D.; Hagemann, I. S.; Li, Q.; Jain, V.; Gregory, S. G.; Kim, A. H.; Bose, R.

10.1101/2025.06.17.660224 — cancer biology — Posted on 2025-06-23

1460 FluxMD: High-Throughput Protein Stress Barcoding for Dynamic Structural Analysis

Jeong, M. J.

10.1101/2025.06.17.659767 — biophysics — Posted on 2025-06-23

1461 MF-ProtDisMap: protein real-valued distance prediction with fusion of sequence and coevolutionary features

Zhang, Y.; Zhong, S.; Xu, S.; Wang, Z.; Xin, C.; Ni, F.; Yan, F.; Lu, X.; Sun, S.; Wang, H.; Zhang, L.

10.1101/2025.06.17.660102 — bioinformatics — Posted on 2025-06-23

1462 Phase-separating enzyme-responsive condensates for inhalable delivery of biomacromolecules

Xiao, Y.; Zhou, S.; Zhu, T.; Du, Y.; Hu, Q.; Guo, X.; Wang, L.; Deng, S.; Ren, K.

10.1101/2025.06.17.660252 — bioengineering — Posted on 2025-06-23

1463 Landscape and mutational dynamics of G-quadruplexes in the complete human genome and in haplotypes of diverse ancestry

Chantzi, N.; Liew, S. W.; Wijaya, A.; Chan, C.; Mouratidis, I.; Amaral, E. d. O. S.; Uzun, Y.; Hemberg, M.; Vasquez, K. M.; Kwok, C. K.; Georgakopoulos Soares, I.

10.1101/2025.06.17.660256 — genomics — Posted on 2025-06-23

1464 DNA virus-host patterns in lake and marine environments over the last glacial cycle

Boeckel, C.; Lisovski, S.; Stoof-Leichsenring, K.; Weiss, J. F.; Liu, S.; Harms, L.; Herzschuh, U.

10.1101/2025.06.18.660323 — ecology — Posted on 2025-06-23

1465 Megafauna show pervasive yet distinct affinity to ocean fronts: the urgent need for adaptive conservation in a warming world

Brito-Morales, I.; Dewitte, B.; Sudre, F.; Rohner, C. A.; Hazen, E. L.; Scales, K. L.; Le Corre, M.; Jaeger, A.; Laran, S.; Bousquet, O.; Sequeira, A. M. M.; Davies, T. E.; Dunn, D. C.; Nel, R.; Hannah, L.; Rossi, V.

10.1101/2025.06.17.660201 — ecology — Posted on 2025-06-23

1466 Legal Harvest of Shorebirds and Resident Game Birds on a Caribbean island: A Martinique Case Study

Cox, A. R.; Gallo-Cajiao, E.; Tremblay, F.; Rateau, F.; Urvoy, K.; Laliberte, B.; Boniface, P.; Euphrosine, D.; Lavanne, T.; Roy, C.

10.1101/2025.06.17.660260 — ecology — Posted on 2025-06-23

1467 Consistent thrips biological control by Orius insidiosus on cucumber plants despite different LED lighting regimes

Canovas, M. L.; Barrada, A.; Abram, P. K.; Cormier, J.-F.; Galstian, T.; Dorais, M.

10.1101/2025.06.17.660193 — ecology — Posted on 2025-06-23

1468 Targeting PI3K Signaling for Broad Inhibition of β-Coronavirus Infection

Xing, J.; Wang, Q.; Chen, N.; Nutsford, A. N.; Sullivan-Hill, B.; Taylor, J. A.; Rewcastle, G.; Flanagan, J. U.; Li, S.; Shepherd, P. R.; Yue, J.; Netzler, N. E.

10.1101/2025.06.22.660949 — microbiology — Posted on 2025-06-23

1469 Gene regulation, phenotypic memory, and selection in fluctuating environments

Pollack, D.; Nozoe, T.; Kussell, E.

10.1101/2025.06.23.661119 — microbiology — Posted on 2025-06-23

1470 Structural insights into type I and type II Lamassu anti-phage systems

Li, M.; Zhao, X.; Zhao, X.; Li, D.; Xiong, W.; Gao, Z.; Huang, L.; An, L.; Gao, Y.; Feng, Y.; Zhang, K.; Zhang, Y.

10.1101/2025.06.23.660979 — microbiology — Posted on 2025-06-23

1471 Environmental context as a key driver of Pseudomonas biocontrol activity against Salmonella.

Vimont, N.; Bastkowski, S.; Savva, G. M.; Bloomfield, S. J.; Mather, A. E.; Webber, M. A.; Trampari, E.

10.1101/2025.06.23.661019 — microbiology — Posted on 2025-06-23

1472 Development of a replication-defective MPXV platform for fundamental and therapeutic research

Chen, J.; Hu, L.; Shi, N.; Tian, J.; Zhang, Y.; Tian, S.; Cao, X.; Ha, Z.; Cai, Q.; Lu, Y.; Smith, G. L.; Xie, Y.; Lu, H.; Zhang, P.; Zhang, R.

10.1101/2025.06.21.660854 — microbiology — Posted on 2025-06-23

1473 Integrative multi-omic analysis reveals oral microbiome-metabolome signatures of obesity

Shibl, A. A.; Denekew, T. W.; Ahmad, A.; Abdelrazig, S.; Leonor, C.; Utenova, L.; Zhang, G.; AbdelBaqi, M.; Malla, Y.; Arshad, M.; Arnoux, M.; Drou, N.; Abdulle, A.; Ali, R.; Amin, S. A.; Idaghdour, Y.; Jha, A.

10.1101/2025.06.22.659458 — microbiology — Posted on 2025-06-23

1474 Volatilomic complexity of three Northern Greenland bacterial isolates across a salt gradient

Salinas-Garcia, M. A.; Roslund, K.; Risom, M. B.; Prieme, A.; Rinnan, R.

10.1101/2025.06.23.660987 — microbiology — Posted on 2025-06-23

1475 Toxoplasma effector TgWIP hijacks dendritic cell actin and motility via Nck1/Grb2 and the WAVE complex

Morales, P.; Kramer, D. A.; de Moraes de Siqueira, C.; Brown, A. J.; Sangare, L.; Chen, B.; Saeij, J. P. J.

10.1101/2025.06.22.660983 — microbiology — Posted on 2025-06-23

1476 Nutrient stress dramatically increases malaria parasite clag2 copy number to increase host cell permeability and enable pathogen survival

Potchen, N. B.; Macedo Silva, T.; Kalia, I.; Lack, J. B.; Desai, S. A.

10.1101/2025.06.23.661025 — microbiology — Posted on 2025-06-23

1477 Large-scale phenotyping and comparative genomics reveal genetic features of Listeria persistence in epithelial cells

Milohanic, E.; Lotoux, A.; Bertrand, M.; Douarre, P.-E.; Kortebi, M.; Riveiro, H.; Palma, F.; Lakisic, G.; Fox, E. M.; Guillier, L.; Oevermann, A.; Roussel, S.; Bierne, H.; Pagliuso, A.

10.1101/2025.06.23.661024 — microbiology — Posted on 2025-06-23

1478 The 5-HT1A receptor antagonist WAY-100635 maleate reprograms metabolism to promote RGC differentiation and regeneration in retino-visual centers

Dutta, S.; Surma, M. L.; Chen, J.; Anbarasu, K.; Meng, J.; Wang, N.; Das, A.

10.1101/2025.06.17.659983 — neuroscience — Posted on 2025-06-23

1479 A Straightforward and Robust Enzymatic Reporter System for Anaerobic Thermophiles

Galindo, J. L.; Tjo, H.; Conway, J. M.

10.1101/2025.06.23.661153 — synthetic biology — Posted on 2025-06-23

1480 Rational Development of Recombinant ELP Bolaamphiphiles for the Controlled Construction of Multifunctionalized Globular Protein Vesicles

de la Maza, L. E. L.; Deb, B.; Powers, J.; Hood, A.; Jang, Y.; Denard, C.

10.1101/2025.06.23.660353 — synthetic biology — Posted on 2025-06-23

1481 Generalizable Protein Dynamics in Kinases: Physics is the key

Bhakat, S.; Vats, S.; Mardt, A.; Degterev, A.

10.1101/2025.03.06.641878 — biophysics — Posted on 2025-06-23

1482 Mitochondrial Fatty Acid Oxidation is Stimulated by Red Light Irradiation

Herrera, M. A.; Caldeira da Silva, C. C.; Baptista, M. S.; Kowaltowski, A. J.

10.1101/2024.09.12.612633 — biochemistry — Posted on 2025-06-23

1483 Contextual modulation and blunted defensive responses to predators in head-fixed and freely moving mice

Ritter, M.; Barreira, L. M. C.; Sach, L.; Hakus, A.; Oektem, S. K.; Bergmann, R.; Voigt, A.; Schmitz, D.; Poirazi, P.; Larkum, M. E.; Sachdev, R.

10.1101/2025.06.09.658679 — animal behavior and cognition — Posted on 2025-06-23

1484 Persistent legacy effects on soil microbiota facilitate plant adaptive responses to drought

Ginnan, N. A.; Custodio, V.; Gopaulchan, D.; Ford, N.; Salas-Gonzalez, I.; Jones, D. D.; Wells, D. M.; Moreno, A.; Castrillo, G.; Wagner, M. R.

10.1101/2024.08.26.609769 — microbiology — Posted on 2025-06-23

1485 An embodied perspective: angular gyrus and precuneus decode selfhood in memories of naturalistic events

Iriye, H.; St. Jacques, P. L.

10.1101/2024.09.09.612088 — neuroscience — Posted on 2025-06-23

1486 Mechanism of CO2 and NH3 Transport through Human Aquaporin 1: Evidence for Parallel CO2 Pathways

Musa-Aziz, R.; Geyer, R. R.; Lee, S.-K.; Moss, F. J.; Boron, W. F.

10.1101/2025.02.28.640247 — physiology — Posted on 2025-06-23

1487 CREB drives acinar cells to ductal reprogramming and promotes pancreatic cancer progression in preclinical models of alcoholic pancreatitis

Srinivasan, S.; Mehra, S.; Jinka, S.; Bianchi, A.; Singh, S.; Dosch, A. R.; Amirian, H.; Krishnamoorthy, V.; Silva, I. D. C.; Patel, M.; Box, E. W.; Garrido, V.; Totiger, T. M.; Zhou, Z.; Ban, Y.; Datta, J.; VanSaun, M.; Merchant, N.; Nagathihalli, N.

10.1101/2024.01.05.574376 — cancer biology — Posted on 2025-06-23

1488 Collaboration between two conserved sequence motifs drives ATPase stimulation of Hsp90 by Aha1

Amoah, D. P.; Mercier, R.; Alyousef, G.; Johnson, J. L.; LaPointe, P.

10.1101/2025.06.10.658861 — biochemistry — Posted on 2025-06-23

1489 Risk-taking incentives predict aggression heuristics in female gorillas

Smit, N.; Robbins, M. M.

10.1101/2025.05.09.653023 — animal behavior and cognition — Posted on 2025-06-23

1490 Mutations in legume symbiosis genes create a complex selective landscape for rhizobial symbionts

Guha, S.; Bledsoe, R. B.; Sutherland, J.; Epstein, B.; Fry, G. M.; Young, N. D.; Tiffin, P.; Burghardt, L. T.

10.1101/2024.09.11.612462 — evolutionary biology — Posted on 2025-06-23

1491 Admixture mapping reveals evidence for multiple mitonuclear incompatibilities in swordtail fish hybrids

Robles, N. V.; Moran, B. M.; Rodriguez Barrera, M. J.; Jofre, G. I.; Gunn, T.; Iverson, E. N. K.; Beskid, S.; Baczenas, J.; Sedghifar, A.; Andolfatto, P.; Brandvain, Y.; Havird, J. C.; Rosenthal, G. G.; Schumer, M.

10.1101/2025.01.30.635158 — evolutionary biology — Posted on 2025-06-23

1492 Single-cell profiling reveals a novel RAB13+ endothelial subpopulation and profibrotic mesenchymal cells in the aged human bone marrow

10.1101/2025.01.28.635238 — molecular biology — Posted on 2025-06-23

1493 Targeting of the nuclear RNA exosome to chromatin by HP1 affects the transcriptional programs of liver cells.

SOUAIFAN, H.; COSTALLAT, M.; SITKIEWICZ, L.; GODEST, K.; CAMMAS, F.; MANN, C.; MUCHARDT, C.; RACHEZ, C.

10.1101/2025.02.14.638307 — molecular biology — Posted on 2025-06-23

1494 Atypical phosphatases drive dissolved organic phosphorus utilization by phosphorus-stressed phytoplankton in the California Current Ecosystem

Steck, V.; Lampe, R. H.; Bhakta, S.; Marrufo, K. C.; Adams, J. C.; Sachdev, E.; Forsch, K. O.; Barbeau, K. A.; Allen, A. E.; Diaz, J. M.

10.1101/2025.04.09.648040 — microbiology — Posted on 2025-06-23

1495 Explaining tip-of-the-tongue experiences in older adults: The role of brain-based and cardiorespiratory fitness factors

Rahman, F.; Tsvetanov, K. A.; Feron, J.; Mullinger, K.; Joyce, K.; Gilani, A.; Fernandes, E. G.; Wetterlin, A.; Wheeldon, L. R.; Lucas, S. J. E.; Segaert, K.

10.1101/2023.12.08.570799 — neuroscience — Posted on 2025-06-23

1496 Whisker stimulation reinforces a resting-state network in the barrel cortex: nested oscillations and avalanches

Mariani, B.; Guevara, R.; Tambaro, M.; Maschietto, M.; Leparulo, A.; Vassanelli, S.; Suweis, S.

10.1101/2025.06.06.658305 — neuroscience — Posted on 2025-06-23

1497 Functional Specialization of Angular Gyrus and Precuneus Subregions for Perspective-Guided Autobiographical Memory Retrieval

Kucuktas, S.; St Jacques, P. L.

10.1101/2025.06.20.660447 — neuroscience — Posted on 2025-06-23

1498 Human Peripheral Nerve-on-a-Chip on a Multiwell Microelectrode Array as a Scalable Preclinical Neurotoxicity Assay

Rountree, C.; Rodriguez, T.; Byrne, E.; Schmidt, E.; Schwarzbach, E.; Dillon, S.; McCrimmon, A.; Terral, M.; Metea, M.; Moore, M. J.; Curley, J. L.

10.1101/2025.06.09.658615 — pharmacology and toxicology — Posted on 2025-06-23

1499 Phospholipid Scramblases TMEM16F and Xkr8 regulate distinct features of Phosphatidylserine (PS) externalization and immune regulation in the tumor microenvironment to regulate tumor growth

Birge, R. B.; Gadiyar, V.; Pulica, R.; Aquib, A.; Tranos, J. A.; Varsanyi, C.; Almansa, L. F.; Gaspers, L.; De Lorenzo, M. S.; Kotenko, S. V.; Tripathi, S.; Howell, R. W.; Choudhary, A.; Calianese, D. C.

10.1101/2025.04.17.649445 — cancer biology — Posted on 2025-06-23

1500 MicroAge Mission: Experimental Design, Hardware Development and Operational Considerations for a Bespoke Culture System to Support Tissue-Engineered Skeletal Muscle Constructs.

Jones, S. W.; Shigdar, S.; Tollitt, B. R.; Janvier, A.; Mutter, F.; Henstock, J. R.; Ohana, J.; Turner, D. A.; McArdle, C.; Neri, G.; Blackler, W.; Olentsenko, G.; Hoettges, K. F.; McArdle, A.; Jackson, M. J.

10.1101/2025.06.17.660117 — bioengineering — Posted on 2025-06-23

1501 Optimising biodiversity offsetting to account for habitat succession and species colonisation dynamics

Wells, K.; Borger, L.; Lurgi, M.; Watts, K.; Bullock, J. M.

10.1101/2025.06.17.660141 — systems biology — Posted on 2025-06-23

1502 Proteomic analysis reveals distinct germination strategies in polymorphic fruits of Haloxylon ammodendron

Wang, Y. Z.; Chen, Z. W.; Zhang, H. X.; Wang, Z.; Jiang, M. L.; Yimingniyazi, A.; Ren, C.

10.1101/2025.06.17.660099 — plant biology — Posted on 2025-06-23

1503 Phytofabrication of gold nanoparticles (AuNPs) via Wedelia chinensis Internodal extract: Characterization, Antioxidant, Antimicrobial, Hemolytic assay and Methylene Dye degradation properties

Pandey, B. C.; Gupta, A.; Kushwaha, R.; Yaseen, M.; Nath, G.; Kumari, N.

10.1101/2025.06.17.660090 — plant biology — Posted on 2025-06-23

1504 TaPGS1 Driven Flavonol Accumulation Delays Endosperm Cellularization and Enlarges Wheat Grains

Wang, J.; Guo, X.; Liu, X.; Jin, Y.; zhao, s.; Liang, W.; Li, M.; Cheng, M.; Dong, H.; Chen, Q.; Chen, Z.

10.1101/2025.06.17.660139 — plant biology — Posted on 2025-06-23

1505 Application of machine learning in the discovery of antimicrobial peptides: Exploring their potential for ulcerative colitis therapy

Miao, H.; Wang, Z.; Chen, S.; Wang, J.; Ma, H.; Liu, Y.; Yang, H.; Guo, Z.; Wang, J.; Cui, P.

10.1101/2025.06.17.660148 — physiology — Posted on 2025-06-23

1506 AdaGenes: A streaming processor for high-throughput annotation and filtering of sequence variant data

Kurz, N. S.; Drofenik, K.; Kornrumpf, K.; Reuter-Jessen, K.; Dönitz, J.

10.1101/2025.06.17.659929 — bioinformatics — Posted on 2025-06-23

1507 DeepSeq: High-Throughput Single-Cell RNA Sequencing Data Labeling via Web Search-Augmented Agentic Generative AI Foundation Models

Al Dajani, S. A.; Sanchez, A.; Williams, J. R.

10.1101/2025.06.17.660107 — bioinformatics — Posted on 2025-06-23

1508 CellMentor: Cell-Type Aware Dimensionality Reduction for Single-cell RNA-Sequencing Data

Hevdeli, O.; Petrenko, E.; Aran, D.

10.1101/2025.06.17.660094 — bioinformatics — Posted on 2025-06-23

1509 A Geometrically Transient Material for Bioelectronic Implants

Olenik, S.; Goodwin, J. D.; Naik, A.; Coatsworth, P.; Cheung, I. C.; Amirghasemi, F.; Sohi, A.; Abedi, E.; Mousavi, M.; Kozlov, A. S.; Salem, V.; Cowburn, A. S.; Güder, F.

10.1101/2025.06.17.660105 — bioengineering — Posted on 2025-06-23

1510 Epilogos: information-theoretic navigation of multi-tissue functional genomic annotations

Quon, J.; Reynolds, A. P.; Tripician, N.; Rynes, E. T.; Teodosiadis, A.; Kellis, M.; Meuleman, W.

10.1101/2025.06.18.660301 — genomics — Posted on 2025-06-23

1511 Seq2KING: An unsupervised internal transformer representation of global human heritages

Jonnalagadda, B.; Njie, e.

10.1101/2025.06.17.660172 — genetics — Posted on 2025-06-23

1512 The ZNF512B-NuRD complex co-ordinates a neural-specific gene expression program

Francis, H.; Sharifi Tabar, M.; Parsania, C.; Feng, Y.; Giardina, C.; Ibrahim, O.; Singh, K. P.; Gupta, S.; Schmitz, U.; Rasko, J. E.; Bailey, C. G.

10.1101/2025.06.23.660971 — molecular biology — Posted on 2025-06-23

1513 Late onset of striatal projection neuron hyperexcitability in Fmr1-/y mice

Nelson, L.; Janecek, M.; Matarazzo, M.; Shih, Y.-C.; Peixoto, R. T.

10.1101/2025.06.21.660889 — neuroscience — Posted on 2025-06-23

1514 Climbing fibers selectively recruit disinhibitory interneurons to enhance dendritic calcium signaling in cerebellar Purkinje cells

Santos-Valencia, F.; Lackey, E.; Norton, A.; Asem, W.; Gaynor, C. S.; ediger, s.; Hemelt, m. E.; Nguyen, T.; Lee, W.-C. A.; Brunel, N.; Hull, C.; regehr, w.

10.1101/2025.06.22.660768 — neuroscience — Posted on 2025-06-23

1515 The neural processes underpinning flexible semantic retrieval in visual and auditory modalities

Shao, X.; Zhang, M.; Wang, X.; Gouws, A.; Jackson, R. L.; Smallwood, J.; Krieger-Redwood, K.; Jefferies, E.

10.1101/2025.06.22.660970 — neuroscience — Posted on 2025-06-23

1516 Optimal inhibitory-to-excitatory ratio governs slow and fast oscillations for enhanced neural communication

Kim, J. Y.; Lee, S. W.; Battaglia, D. A.; Choi, J. H.; Yook, S.-H.

10.1101/2025.06.22.660973 — neuroscience — Posted on 2025-06-23

1517 Asymmetric distribution of mitochondrial Ca2+ regulators specifies compartment-specific mitochondrial function and neuronal development

Jang, D. C.; Kim, S. Y.; Kim, W. S.; Jung, H.; Chung, C.; Bang, S.; Kim, H. N.; Choi, H. W.; Han, K.; Cho, Y.; Kwon, S.-K.

10.1101/2025.06.23.660978 — neuroscience — Posted on 2025-06-23

1518 Phylogenomics of Plasmopara halstedii reveals genomic regions associated with the breakdown of sunflower downy mildew resistance genes

PECRIX, Y.; Dvorak, E.; Labbe, F.; Legrand, L.; CARRERE, S.; Gouzy, J.; Delmotte, F.; Besnard, G.; Godiard, L.

10.1101/2025.06.18.660304 — plant biology — Posted on 2025-06-23

1519 Small Extra-Large GTPase-like proteins influence rhizobial symbiosis in Lotus japonicus

Washington, L. J.; Yoshino, T.; Malagoli Franzon, T.; Vera, V.; Scheller, H. V.

10.1101/2025.06.18.660248 — plant biology — Posted on 2025-06-23

1520 Lf2 is a knotted homeobox regulator that modulates leaflet number in soybean

Clark, C. B.; Caldwell, D. L.; Zhu, Q.; Provancal, D.; Edwards, A. C.; Song, Q.; Quigley, C. V.; Iyer-Pascuzzi, A. S.; Ma, J.

10.1101/2025.06.20.660812 — plant biology — Posted on 2025-06-23

1521 Gene regulatory network analysis of somatic embryogenesis identifies morphogenic genes that increase maize transformation frequency

Renema, J.; Luckicheva, S.; Verwaerde, I.; Aesaert, S.; Coussens, G.; De Block, J.; Grones, C.; Eekhout, T.; De Rybel, B.; Brew-Appiah, R. A. T.; Bagley, C. A.; Hoengenaert, L.; Vandepoele, K.; Pauwels, L.

10.1101/2025.06.22.659756 — plant biology — Posted on 2025-06-23

1522 Clade V MLO proteins are bona fide host susceptibility factors required for powdery mildew pathogenesis in Arabidopsis

Bloodgood, D.; Zhang, Q.; Li, P.; Wu, Y.; Pan, M.; Zhou, C.; Hsu, A.; Zhang, J.; Panstrgua, R.; Kessler, S.; He, P.; Shan, L.; Wei, C.-I.; Xiao, S.

10.1101/2025.06.18.660284 — plant biology — Posted on 2025-06-23

1523 Vocal convergence during formation of social relationships in vampire bats

Vrtilek, J.; Smith-Vidaurre, G.; Fosler-Lussier, E.; Page, R. A.; Carter, G. G.

10.1101/2025.06.21.660856 — animal behavior and cognition — Posted on 2025-06-23

1524 Parrots and Humans Prefer Pitch Sequences of Intermediate Complexity

Bellmann, O. T.; Hoeschele, M.; Witt, M.; Shair Ali, E.; Chu, P. C.; Bianco, R.

10.1101/2025.06.22.660906 — animal behavior and cognition — Posted on 2025-06-23

1525 From short to long reads: enhanced protist diversity profiling via Nanopore metabarcoding

Chwalinska, M.; Karlicki, M.; Romac, S.; Not, F.; Karnkowska, A.

10.1101/2025.06.17.660212 — ecology — Posted on 2025-06-23

1526 The dynamics of ciliogenesis in prepubertal mouse meiosis reveal new clues about testicular maturation during puberty

Perez-Moreno, I.; Lopez-Jimenez, P.; Zapata, H.; Perez-Martin, S.; Lopez-Panades, M.; Barbeito, P.; Roig, I.; Garcia-Gonzalo, F. R.; Page, J.; Gomez Lencero, R.

10.1101/2025.06.19.660582 — cell biology — Posted on 2025-06-23

1527 Mechanistic characterization of the antiviral effects of Nordihydroguaiaretic Acid against West Nile Virus

Martinez, F.; Ghietto, L. M.; Lingua, G.; Aguilar, J. J.; Gil, P. I.; Gomez, T. I.; Marioni, J.; Nunez-Montoya, S. C.; Konigheim, B.

10.1101/2025.05.10.653272 — microbiology — Posted on 2025-06-23

1528 HSP90-mediated stress resilience in male gametophyte of Arabidopsis thaliana

Kahrizi, Z.; Michailidis, C.; Raabe, K.; Fila, J.; Klodova, B.; Rudolf, J.; Prochazkova Schrumpfova, P.; Honys, D.; Fragkostefanakis, S.

10.1101/2025.06.21.660849 — plant biology — Posted on 2025-06-23

1529 Identification of an early-heading mutant in Indonesian native rice cultivar: 'Gemdjah Beton'

Nagalla, A. D.; Morita, R.; Ichida, H.; Hayashi, Y.; Shirakawa, Y.; Sato, T.; Fukuta, Y.; Toriyama, K.; Saito, H.; Okumoto, Y.; Abe, T.

10.1101/2025.06.19.660500 — plant biology — Posted on 2025-06-23

1530 Arabidopsis RabGDIs are essential for the asymmetric division of zygotes and embryonic patterning

Yin, G.; Wu, Y.; Wang, W.; Dun, S.; Li, S.; Jiang, L.; Liang, Z.; Zhang, Y.; Xiong, F.

10.1101/2025.06.23.660972 — plant biology — Posted on 2025-06-23

1531 Multi-Omics Analysis of Heat Stress-Induced Memory in Arabidopsis

Thirumlaikumar, V. P. P.; Yu, L.; Arora, D.; Mubeen, U.; Wisniewski, A.; Walther, D.; Giavalisco, P.; Alseekh, S.; DL Nelson, A.; Skirycz, A.; Balazadeh, S.

10.1101/2025.06.19.660594 — plant biology — Posted on 2025-06-23

1532 Remote sensing of endogenous pigmentation by inducible synthetic circuits in grasses

Lee, D.-Y.; Acosta-Gamboa, L.; Saleh, L.; Pathak, S.; Swyers, N.; Morgan, A.; Meerdink, S.; Kuzio, C.; Calderon, S.; Sheng, H.; Kenney, S.; Zare, A.; Gehan, M.; Nusinow, D. A.

10.1101/2025.06.20.660755 — plant biology — Posted on 2025-06-23

1533 WITHDRAWN: Novel Carbohydrate-substituted Indazole Derivatives Targeting SGLT1 Enhance the Efficacy of Receptor Tyrosine Kinase Inhibitors in Cancer Therapy

Qi, H.; Sun, Z.

10.1101/2025.01.13.632856 — cancer biology — Posted on 2025-06-23

1534 Serum exosome miR-150-5p in rheumatic heart disease-associated angiogenesis

Sharma, B.; Jain, S.; Singh, L.; Sharma, S.; Kaur, R.; Singh, H.; Chopra, S.; Chakraborti, A.

10.1101/2025.06.13.659484 — molecular biology — Posted on 2025-06-23

1535 Novel interactions within the silent information regulator heterochromatin complex potentiate inter-subunit communication and gene repression

Kotz, J.; Martz, E. J.; Nelson, M.; Savoie, N.; Schmitt, L.; States, J.; Holton, N.; Hansen, K. M.; Johnson, A. M.

10.1101/2024.12.23.630195 — molecular biology — Posted on 2025-06-23

1536 Detection and localization of conspecifics in ghost knifefish are influenced by the relationship between the spatial organization of receptors and signals.

Ramachandra, K. L.; Milam, O. E.; Pedraja, F.; Cornett, J. D.; Marsat, G.

10.1101/2023.07.20.549925 — neuroscience — Posted on 2025-06-23

1537 Longitudinal assessment of DREADD expression and efficacy in the monkey brain

Nagai, Y.; Hori, Y.; Inoue, K.-i.; Hirabayashi, T.; Mimura, K.; Oyama, K.; Miyakawa, N.; Hori, Y.; Iwaoki, H.; Kumata, K.; Zhang, M.-R.; Takada, M.; Higuchi, M.; Minamimoto, T.

10.1101/2024.12.26.630299 — neuroscience — Posted on 2025-06-23

1538 Behavioural, biochemical and functional phenotyping of chronic exposure to chlordecone in mice

VULIN, J.; Chauveau, F.; Duret, C.; Humo, M.; Valdebenito, M.; Aufauvre, C.; Vidal, L.; Morignat, E.; Verchere, J.; Decesar, A.; Gaillard, D.; Lakdhar, L.; BARON, T.; LAVISON-BOMPARD, G.; VIDAL, B.

10.1101/2025.06.16.659846 — neuroscience — Posted on 2025-06-23

1539 Higher-order and distributed synergistic functional interactions encode information gain in goal-directed learning

Combrisson, E.; Basanisi, R.; Neri, M.; Auzias, G.; Petri, G.; Marinazzo, D.; Panzeri, S.; Brovelli, A.

10.1101/2024.09.23.614484 — neuroscience — Posted on 2025-06-23

1540 Antagonistic and Synergistic Roles of Tomato AFP3 Isoforms in Hormonal Regulation and Development

Vittozzi, Y.; Petri, L.; Chiurazzi, M. J.; Lison, P.; Hernandez, C. G.; Majee, A.; Shankar, N.; Burow, M.; Wenkel, S.

10.1101/2025.06.18.660365 — plant biology — Posted on 2025-06-23

1541 X-chromosome upregulation operates on a gene-by-gene basis at RNA and protein levels

Allsop, R. N.; Boeren, J.; Tan, B. F.; Merzouk, S.; Poovathingal, S.; van Ijcken, W.; Demmers, J. A.; Mira Bontenbal, H.; Gontan Pardo, C.; Gribnau, J.; Pasque, V.

10.1101/2025.06.18.660324 — developmental biology — Posted on 2025-06-23

1542 Extended Shine-Dalgarno motifs govern translation initiation in Staphylococcus aureus

Kohl, M. P.; Bahena-Ceron, R.; Chane-Woon-Ming, B.; Kompatscher, M.; Erlacher, M.; Romby, P.; Klaholz, B.; Marzi, S.

10.1101/2025.06.19.660503 — molecular biology — Posted on 2025-06-23

1543 The Potential Neuroinflammatory Attenuation Effects of Thymoquinone against 3, 4-Methylenedioxymethamphetamine-Induced Microglial Activation in BV2 Mouse Cell Line

Mustafa, N. S.; Mohamad, N.; Abu Bakar, N. H.; Asmara, H. S.; Daud, M. N. M.; Mohd Adnan, L. H.

10.1101/2025.06.16.660054 — molecular biology — Posted on 2025-06-23

1544 Genomics insights reveal multi-year maintenance of a new Deltacoronavirus infecting Seabirds from the Cagarras Island Archipelago Natural Monument, Brazil

Dias, Y. J.; Freitas da Silva, A.; Rodrigues, A.; Gomes, F.; Correa, L.; Resende, P. C.; Siqueira, M.; Galvao Bueno, M.; Ribeiro, T.; Quintana, P. G.; Cunha, L.; Appolinario, L.; Marques Paula Costa, H.; Brito Oliveira, M.; Reischak, D.; Reck, J.; Wallau, G. d. L.; Ogrzewalska, M.

10.1101/2025.06.19.660416 — microbiology — Posted on 2025-06-23

1545 Temperature dependent response of microcystin-LR in acclimated Microcystis aeruginosa: highest content expected near the growth optimum

Lalloue, P.-L.; Mallet, C.; Bec, A.; Koussoroplis, A.-M.; Perriere, F.; Latour, D.

10.1101/2025.06.20.660678 — microbiology — Posted on 2025-06-23

1546 Nuclear Receptor Transcription factors promote axon regeneration in the Adult Corticospinal Tract

Sahu, Y.; Banerjee, S.; Kumaran, M.; Sanyal, K.; Konda, M.; Soni, S.; Menon, A. S.; Manjunath, S.; Kesireddy, D. K.; Beji, D. S.; Chermakani, P.; Biswas, A.; Venkatesh, I.

10.1101/2025.06.19.660319 — neuroscience — Posted on 2025-06-23

1547 Static morphogen scaling enables proportional growth in tissue growth model inspired by axolotl limb regeneration

Lyubaykina, N.; Knapp, D.; Tardivo, P.; Kotz, M.; Sandoval-Guzman, T.; Friedrich, B. M.

10.1101/2025.02.14.638295 — biophysics — Posted on 2025-06-23

1548 Molecular Insights into Methyllysine Recognition by the Methyl-CpG-Binding Domain of MeCP2

Padhan, J.; Sudhamalla, B.

10.1101/2025.05.10.653294 — biochemistry — Posted on 2025-06-23

1549 Cohesin forms fountains at active enhancers in C. elegans

Luethi (Isiaka), B.; Semple, J.; Haemmerli, A.; Thapliyal, S.; Ghadage, K.; Stojanovski, K.; D'Asaro, D.; Das, M.; Gilbert, N.; Glauser, D. A.; Towbin, B. D.; Jost, D.; Meister, P.

10.1101/2023.07.14.549011 — genomics — Posted on 2025-06-23

1550 Spatially-explicit genomics of An. gambiae s.l uncovers fine-scale population structure and mechanisms of insecticide resistance

Nagi, S. C.; Essandoh, J.; Ato-Egyir, N.; Lucas, E. R.; Miles, A.; Desewu, K.; Williams, I.; Egyir-Yawson, A.; Sedda, L.; Weetman, D.; Donnelly, M. J.

10.1101/2025.06.13.655782 — genomics — Posted on 2025-06-23

1551 Med14 phosphorylation shapes genomic response to GLP-1 Agonist

Van de Velde, S.; Yu, J.; Evensen, K. G.; Pakhlevanyan, E.; Williams, A. E.; Shaw, R. J.; Montminy, M.

10.1101/2025.06.17.660196 — genomics — Posted on 2025-06-23

1552 A Multi-State Structural Genomics Approach Enables Large-Scale, Mechanistic, and Context-Specific Classification of ABCC6 Genetic Variants Implicated in Calcification Diseases

Wagenknecht, J. B.; Haque, N.; Jorge, S. D.; Ratnasinghe, B. D.; Urrutia, R. A.; Gahl, W. A.; Ziegler, S. G.; Zimmermann, M. T.

10.1101/2025.06.17.660194 — genetics — Posted on 2025-06-23

1553 Executive Resources Shape the Impact of Language Predictability Across the Adult Lifespan

Schuckart, M. M.; Martin, S.; Tune, S.; Schmitt, L.-M.; Hartwigsen, G.; Obleser, J.

10.1101/2024.05.08.592872 — neuroscience — Posted on 2025-06-23

1554 Integrating explicit reliability for optimal choices: effect of trustworthiness on decisions and metadecisions

Ota, K.; Ciston, A.; Haggard, P.; Gajdos, T.; Charles, L.

10.1101/2025.01.12.632598 — neuroscience — Posted on 2025-06-23

1555 A sticky Poisson Hidden Markov Model for solving the problem of over-segmentation and rapid state switching in cortical datasets

Li, T.; La Camera, G.

10.1101/2024.08.07.606969 — bioinformatics — Posted on 2025-06-23

1556 Predicting continuous outcomes: Some new tests of associative approaches to contingency learning.

Chow, J.; Don, H. J.; Colagiuri, B.; Livesey, E. J.

10.1101/2025.06.12.659290 — animal behavior and cognition — Posted on 2025-06-23

1557 Predictive power of different Akkermansia phylogroups in clinical response to PD-1 blockade against non-small cell lung cancer

Fan, P.; Ni, M.; Fan, Y.; Ksiezarek, M.; Fang, G.

10.1101/2024.08.21.608814 — genomics — Posted on 2025-06-23

1558 Degraded ecosystem soil and type 2 diabetes gut microbiomes share altered potential metabolism for sugars, lignin and branched-chain fatty acids: a blind spot for global health?

Liddicoat, C.; Eijkelkamp, B. A.; Cavagnaro, T. R.; Robinson, J. M.; Wallace, K. J.; Barnes, A. D.; Harmsworth, G.; Keating, D. J.; Edwards, R. A.; Breed, M. F.

10.1101/2025.03.11.642605 — genomics — Posted on 2025-06-23

1559 The tiniest genomes shrink much further: extreme reductive evolution in planthopper symbionts

Michalik, A.; Castillo Franco, D.; Deng, J.; Prus-Frankowska, M.; Stroinski, A.; Lukasik, P.

10.1101/2025.05.16.654412 — evolutionary biology — Posted on 2025-06-23

1560 Asynchronous mouse embryo polarization leads to heterogeneity in cell fate specification

Lamba, A.; Zhu, M.; Meglicki, M.; Czukiewska, S.; Balasubramaniam, L.; Hadas, R.; Weishaupt, N.; Patel, E.; Kavanagh, Y. H.; Wang, R.; Jing, N.; Zernicka-Goetz, M.

10.1101/2024.07.26.605266 — developmental biology — Posted on 2025-06-23

1561 Model cyanobacterial consortia reveal a consistent core microbiome independent of inoculation source or cyanobacterial host species

Kust, A.; Zorz, J.; Paniker, C. C.; Bouma-Gregson, K.; Krishnappa, N.; Liu, W.; Banfield, J. F.; Diamond, S.

10.1101/2023.12.09.570939 — microbiology — Posted on 2025-06-23

1562 Ligand binding represses bacterial histidine kinase activity by inhibiting its dimerization

Sankhe, G. D.; Xing, J.; Xiao, M.; Buglino, J. A.; Li, H.; Jouline, I.; Glickman, M.

10.1101/2025.05.18.654591 — microbiology — Posted on 2025-06-23

1563 Synchronous Ensembles of Hippocampal CA1 Pyramidal Neurons During Novel Exploration

Chen, E.-L.; Chen, T.-W.; Schreiter, E. R.; Lin, B.-J.

10.1101/2024.02.07.579313 — neuroscience — Posted on 2025-06-23

1564 The Dual Molecular Identity of Vestibular Kinocilia: Bridging Structural and Functional Traits of Primary and Motile Cilia

Xu, Z.; Tavakoli, A.; Kulasooriya, S.; Liu, H.; Tu, S.; Bloom, C.; Li, Y.; Johnson, T. D.; Zuo, J.; Tao, L.; Kachar, B.; He, D. Z. Z.

10.1101/2025.04.16.647417 — neuroscience — Posted on 2025-06-23

1565 FiPhoPHA - A fiber photometry python package for post-hoc analysis

Drakopoulos, V.; Reichenbach, A.; Stark, R.; Foldi, C. J.; Jean-Richard-dit-Bressel, P.; Andrews, Z. B.

10.1101/2025.06.12.659422 — neuroscience — Posted on 2025-06-23

1566 Enhancing salt tolerance in a hybrid poplar (Populus nigra x maximowiczii) through exogenous putrescine application: Growth, physiological, and biochemical responses

Kundu, S.; Weerasinghe, M.; Gagne, M.; Long, S.; Minocha, R.; Minocha, S.

10.1101/2025.06.04.657897 — plant biology — Posted on 2025-06-23

1567 Breaking the Phalanx: Overcoming Bacterial Drug Resistance with Quorum Sensing Inhibitors that Enhance Therapeutic Activity of Antibiotics

Beasley, J.-M.; Dorjsuren, D.; Jain, S.; Rath, M.; Scheufen Tieghi, R.; Tropsha, A.; Simeonov, A.; Zakharov, A. V.; Muratov, E.

10.1101/2025.01.17.633658 — bioinformatics — Posted on 2025-06-23

1568 SCRIPT: Predicting Single-cell Long-range Cis-regulation Based on Pretrained Graph Attention Networks

Zhang, Y.; Wen, B.; Jiao, Y.; Liu, Y.; Guo, X.; Wu, Y.; Li, J.; Han, L.; Xu, Y.; Gao, X.; Qi, Y.; Cheng, Y.; He, Y.; Tian, W.

10.1101/2025.04.27.650894 — bioinformatics — Posted on 2025-06-23

1569 Cholinergic neuron circadian clock mediates RNA-binding protein function and contributes to ALS disease phenotypes

Tam, S. B.; Waldeck, N. J.; Wright, M.; Baker, E. M.; Kiskinis, E.; Bass, J.; Kalb, R. G.

10.1101/2025.05.06.652480 — neuroscience — Posted on 2025-06-23

1570 Astral architecture can enhance mechanical strength of cytoskeletal networks by modulating percolation thresholds

Berg, B.; Allard, J.

10.1101/2025.06.17.660175 — biophysics — Posted on 2025-06-22

1571 Nicotinamide reverses the Warburg effect in Chinese hamster ovary cell culture

Morrissey, J.; Cankorur Cetinkaya, A.; Grassi, L.; Harwood-Stamper, A. J.; Welsh, J.; Kontoravdi, C.

10.1101/2025.06.18.660349 — bioengineering — Posted on 2025-06-22

1572 A novel conserved protein associates with the IFT-A complex to mediate nuclear translocation of β-catenin in Wg/Wnt-signaling

Vuong, L. T.; Mlodzik, M.

10.1101/2025.06.21.660855 — developmental biology — Posted on 2025-06-23

1573 Slit1 -a MET target gene in the embryonic limbs, prevents premature differentiation during mammalian myogenesis.

Saini, M.; Jadhav, J.; Cossu, G.; Mathew, S. J.

10.1101/2025.06.22.660860 — developmental biology — Posted on 2025-06-23

1574 Enriching for Extracellular Vesicles from Human Bone

Wells, C. J.; Holmes, S. M.; Attard, E. G.; Grenier-Pleau, I. J.; Hall, C.; Bonneil, E. J.; Thibault, P.; Rudan, J. F.; Mann, S.; Abraham, S. A.

10.1101/2025.06.18.660234 — cell biology — Posted on 2025-06-22

1575 Protein folding stress transcriptionally reprograms muscle metabolism

Paiano, J.; Qadiri, M.; Sharma, S.; Hu, Y.; Perrimon, N.

10.1101/2025.06.20.660805 — cell biology — Posted on 2025-06-23

1576 Control of Quiescence and Activation of Human Muscle Stem Cells by Cytokines

Striedinger, K.; Barruet, E.; Atamaniauc, E.; Linquist, K.; Knott, C.; Brack, A.; Pomerantz, J. H.

10.1101/2025.06.21.660874 — cell biology — Posted on 2025-06-23

1577 Cell-type specific iron content regulation revealed by single-cell iron quantification

Holdship, P. F.; Teh, M.; Mazurczyk, M.; Costigan, D.; Pironaci, G.; Chuang, H.-W.; Zimmermann, M.; Stoffel, N.; Hilton, R.; Price, D.; Wade, J.; Drakesmith, H.

10.1101/2025.06.22.660918 — cell biology — Posted on 2025-06-23

1578 CRISPR RiPCA for Investigating eIF4E-m7GpppX Capped mRNA Interactions

Vega-Hernandez, G.; Duque, J.; Klein, B. J. C.; Soueid, D. M.; Rech, J. C.; Wang, H.; Zhou, W.; Garner, A. L.

10.1101/2025.06.19.660603 — cell biology — Posted on 2025-06-23

1579 Advanced human iPSC-based modelling of LMNA-related congenital muscular dystrophy enables development of targeted genetic therapies for muscle laminopathies

Moore, D. P.; Steele-Stallard, H. B.; Pinton, L.; Lionello, V. M.; Rossi, L.; Aghaeipour, A.; Jalal, S.; Wong, C. T. Y.; Clara-Hwang, A.; Bonne, G.; Zammit, P. S.; Tedesco, F. S.

10.1101/2025.06.22.660928 — cell biology — Posted on 2025-06-23

1580 Sulindac Sulfide Suppresses Oncogenic Transformation Through let-7b-Mediated Repression of K-Ras Signaling

Liang, Z.; Yi, B.; Ma, R.; Riker, A. I.; Xi, Y.

10.1101/2025.06.21.660893 — cell biology — Posted on 2025-06-23

1581 Targeting Fibrotic Scars with Extracellular Vesicles Extracted from Mature Aloe vera: Enhanced Antioxidant, Anti-inflammatory, and Antifibrotic Activity through M2 Macrophage Polarization and Myofibroblasts Inhibition

Santa, M. C. C.; Wuertz-Kozak, K.; Gaborski, T. R.

10.1101/2025.06.17.660207 — cell biology — Posted on 2025-06-23

1582 Targeting ZNRF3 and RNF43 to Restore Regeneration and Reverse Metabolic Dysfunction-Associated Steatotic Liver Disease

Di Tullio, F.; Yang, S. B.; Yang, L.; Cogliati, B.; Roshan, S.; Guo, K.; Glezer, A.; Conrad, J.; Kumar, S. V.; Almeida, J.; Li, H.; Saeed, S.; Barcena-varela, M.; Bramel, E.; Lozano, A.; Su, L.; Zhao, D.; Pham, H.; Ma, F.; Lujambio, A.; Ma, S.; Dong, Y.; Zhou, H.; Sun, T.

10.1101/2025.06.19.660551 — cell biology — Posted on 2025-06-23

1583 ADAR1 Restricts Poliovirus Infection through dual disruption of translation initiation and protein coding

Kim, D.; McCarthy, F.; Li, K.; Chalkley, R. J.; Pak, J.; Elias, J. E.; Aviner, R.

10.1101/2025.06.19.660622 — cell biology — Posted on 2025-06-23

1584 Genomic characterization of sub-populations in human pluripotent stem cell-derived retinal progenitor cells that drive retinal layer structure

Iwama, Y.; Masuda, T.; Yoshimura, M.; Watanabe, M.; Friedlander, M.; Nishida, K.; Takahashi, M.; Nikaido, I.; Mandai, M.

10.1101/2025.06.20.660659 — cell biology — Posted on 2025-06-23

1585 Evolutionarily diverged on-switch for actin assembly in fungal endocytosis

Sebellin, J.; Kandiyoth, F. B.; Picco, A.; Hakala, M.; Rivier-Cordey, A.-S.; Michelot, A.; Toret, C. P.; Kaksonen, M.

10.1101/2025.06.22.660955 — cell biology — Posted on 2025-06-23

1586 Cellular and molecular landscapes of human tendons across the lifespan revealed by spatial and single-cell transcriptomics

Kurjan, A.; Mimpen, J. Y.; Ramos-Mucci, L.; Aksu, A. C.; Buckley, C. D.; Cribbs, A. P.; Baldwin, M. J.; Snelling, S. J. B.

10.1101/2025.06.19.660575 — cell biology — Posted on 2025-06-23

1587 Biological evaluation and molecular docking study of Ferrociphenol as an anti-melanogenic agent

Ketata, E.; Baanannou, A.; Ayadi, W.; Pigeon, P.; Neifar, A.; Top, S.; Masmoudi, S.; El Arbi, M.; Jaouen, G.; Gargouri, A.

10.1101/2025.06.20.660698 — cell biology — Posted on 2025-06-23

1588 AF9/KLF2 gene regulatory circuit links histone lactylation to breast cancer metastasis

Ma, H.; Li, H.; Yuan, M.; Yang, C.; Tang, Z.; Wang, X.; Li, Y.; Yuan, Y.

10.1101/2025.06.18.660498 — cell biology — Posted on 2025-06-23

1589 A Ligand-Centered Framework for γδ T Cell Activation in Colorectal Cancer Revealed by Single-Cell and Transformer-Based Perturbation

Ran, R.; Brubaker, D.

10.1101/2025.06.16.660020 — immunology — Posted on 2025-06-22

1590 The Maximum-Tolerated Dose and Pharmacokinetics of ISFP10 a Novel Inhibitor of Fungal Phosphoglucomutase (PGM)

Kottom, T.; Limper, A.

10.1101/2025.06.17.660114 — pharmacology and toxicology — Posted on 2025-06-22

1591 SLFN11 Enhances Cisplatin Sensitivity in Pediatric Cancer via Activation of Stress-Response and Suppression of Survival Pathways

Jabeen, A.; Awartani, D.; Sherif, S.; Ahmed, E. I.; Alanany, R.; Saleh, A.; Hendrickx, W. R. L.; Raynaud, C. M.

10.1101/2025.06.17.659735 — cancer biology — Posted on 2025-06-22

1592 COOKIE-Pro: Covalent Inhibitor Binding Kinetics Profiling on the Proteome Scale

Lin, H.; Wang, J.

10.1101/2025.06.19.660637 — biochemistry — Posted on 2025-06-22

1593 Antibiotics Rewire Core Metabolic and Ribosomal Programs in Mammalian Cells

Movassaghi, C. S.; Meyer, J. G.

10.1101/2025.06.20.660816 — biochemistry — Posted on 2025-06-22

1594 Coenzyme A homeostasis regulates hypoxic signalling via UBFD1in triple-negative breast cancer

Grevitt, P.; Maiques, O.; Shah, K. M.; Morales, V.; Gadaleta, E.; Dodel, M.; Bianchi, K.; Gout, I.; Jones, J. L.; Chelala, C.; Plevin, M. J.; Mardakheh, F. K.; Sharp, T. V.

10.1101/2025.06.18.660436 — molecular biology — Posted on 2025-06-22

1595 Modeling Rotational Fluoroquinolone Therapy as a Novel Treatment for Ophthalmic MRSA Infections

Storper, A.; Miller, D.; Huo, X.

10.1101/2025.06.22.660934 — microbiology — Posted on 2025-06-22

1596 Acetate as a metabolic booster for glucose-based bioproduction in Escherichia coli

Gosselin-Monplaisir, T.; Jallet, D.; Harscoet, E.; Uttenweiler-Joseph, S.; Heux, S.; Millard, P.

10.1101/2025.06.17.659982 — systems biology — Posted on 2025-06-22

1597 Phytochemical Content and Antimicrobial Activity of Aloe Vera extract of Marathwada Region, India

Barik, S. K.; Nagargoje, M.; Chaudhari, N.; Harke, S. N.; Khemnar, A. S.

10.1101/2025.06.17.660060 — plant biology — Posted on 2025-06-22

1598 A multimodal imaging approach for imaging the metabolic changes resulting from bronchopulmonary dysplasia

Gorman, B. L.; Li, Z.; Deutsch, G.; Huyck, H. L.; Beishembieva, N.; Olson, H.; Villazon, J.; Yu, P.; Clair, G.; Pryhuber, G. S.; Shi, L.; Anderton, C. R.

10.1101/2025.06.16.660017 — physiology — Posted on 2025-06-22

1599 JASMINE: A powerful representation learning method for enhanced analysis of incomplete multi-omics data

Ballard, J. L.; Dai, Z.; Shen, L.; Long, Q.

10.1101/2025.06.16.659949 — bioinformatics — Posted on 2025-06-22

1600 Cell-Type Specific Single-Cell Signatures Reveal Nephrotoxic Drug Effects

Kuchi, A. S.; Acitores Cortina, J. M.; Liu, H.; Fatapour, Y.; Berkowitz, J.; Tatonetti, N.

10.1101/2025.06.17.660070 — bioinformatics — Posted on 2025-06-22

1601 Learning Human T Cell Behaviors through Generative AI Embeddings of T Cell Receptors

Chen, D. G.; Su, Y.; Heath, J. R.

10.1101/2025.06.16.660016 — bioinformatics — Posted on 2025-06-22

1602 Count your bits: more subtle similarity measures using larger radius count vectors

Huber, F.; Pollmann, J.

10.1101/2025.06.16.659994 — bioinformatics — Posted on 2025-06-22

1603 Cholesterol promotes the formation of dimers and oligomers of the receptor tyrosine kinase ROR1

Ward, A.; Baeza-Ballesteros, L. J.; Schuck, R. J.; Garcia-Murria, M. J.; Lamichhane, R.; Mingarro, I.; Barrera, F. N.

10.1101/2025.06.19.660507 — biochemistry — Posted on 2025-06-22

1604 Lipid Metabolism and Contact Site Homologs Are Enriched at the Chloroplast Envelope-Thylakoid Interface

LaBrant, E. W.; Smith, C. N.; Torres-Gerena, A. D.; Ishimwe, J.; Huang, F.; Tullis, A.; Litterer, L.; Modi, B.; Naldrett, M.; Altartouri, B.; Roston, R. L.

10.1101/2025.06.20.660776 — biochemistry — Posted on 2025-06-22

1605 Discovery of a First-in-Class SLIT2 Binder Disrupting the SLIT2/ROBO1 Axis via DNA-Encoded Library (DEL) Screening

Yuan, S.; Abdelrahman, S.; Garcia-Vazquez, N.; Nada, H.; Calvo Barreiro, L.; Kuncewicz, K.; Gabr, M.

10.1101/2025.06.22.660907 — biochemistry — Posted on 2025-06-22

1606 Convergent Functional Constraints Make Biochemical Reaction Diversity Predictable

Mierzejewski, V.; Mathis, C.; Kempes, C. P.; Walker, S.

10.1101/2025.06.20.660822 — biochemistry — Posted on 2025-06-22

1607 Conservation and lability within the structure of mandibular integration in "old endemic" Australian rodents

Ng, R. Y.

10.1101/2025.06.17.660249 — developmental biology — Posted on 2025-06-22

1608 Role of Macrophage PARP1 in the Regulation of Crosstalk between Adipose Immune Cells and Adipocytes during Diet-induced Obesity

Zhu, J.; Gupte, R.; Nandu, T.; Huang, K.; Kraus, W. L.; Huang, D.

10.1101/2025.06.20.660762 — molecular biology — Posted on 2025-06-22

1609 Proteomic Characterization of Spodoptera frugiperda Granulovirus Occlusion Bodies

Masson, T.; Fabre, M. L.; Gomez Bergna, S. M.; Pidre, M. L.; Tongiani, S.; Salvador, R.; Romanowski, V.; Ferrelli, M. L.

10.1101/2025.06.19.660566 — molecular biology — Posted on 2025-06-22

1610 Alternative Polyadenylation Releases PCBP1-Mediated Suppression of CFIm25 During Macrophage Differentiation

Mendoza Martin, M. d. P.; Mostafa, S. M.; Barua, A.; Moore, C.; Mukherjee, S.

10.1101/2025.06.19.660645 — molecular biology — Posted on 2025-06-22

1611 Mechanism of PMC (2,2,5,7,8-pentamethyl-6-chromanol), a sterically hindered phenol antioxidant, in rescuing oxidized low-density lipoprotein-induced cytotoxicity in human retinal pigment epithelial cells

Chaudhary, S.; Moon, J.; Hu, Z.; Kriukov, E.; Pestun, S.; Baranov, P. Y.; Ng, Y.-S. E.; Damore, P. A.

10.1101/2025.06.19.660627 — molecular biology — Posted on 2025-06-22

1612 Showcasing the Rhizosphere of Medicago Polymorpha Ability to Produce Biofuels, Fix Nitrogen, and Demonstrate Similarities to Native Plant Species During a Drought Season

Razaqi, S.; Ojano, N. J.; Paz, B.; Munoz, R.; Bouklas, T.

10.1101/2025.06.21.660891 — microbiology — Posted on 2025-06-22

1613 Structures of MmpL complexes reveal the assembly and mechanism of this family of transporters

Zhang, Z.; Maharjan, R.; Gregor, W. D.; Klenotic, P. A.; Yu, E. W.

10.1101/2025.06.22.660944 — microbiology — Posted on 2025-06-22

1614 Development of the preterm infant gut and gastric residuals microbiome

Moriel, N.; Jones, L.; Harpenas, E.; Rakow, N.; Shmorak, S.; Friedman, S. E.; Shlomai, N. O.; Yassour, M.

10.1101/2025.06.21.660859 — microbiology — Posted on 2025-06-22

1615 Molecular Bonsai: Elucidating the design principles for engineering plant organ size

Bull, T. A.; Van Blair, J.; Sutton, S.; Colwell, H.; Khakhar, A.

10.1101/2025.06.22.660808 — synthetic biology — Posted on 2025-06-22

1616 Structure-guided design of protein attachment points for functional augmentation of complex molecular machines

Sorensen, G. H.; James, J.; Steel, H. E.; Parmeggiani, F.; Gorochowski, T. E.

10.1101/2025.06.22.660945 — synthetic biology — Posted on 2025-06-22

1617 An M13 phagemid toolbox for engineering tuneable DNA communication in bacterial consortia

Pujar, A.; Sharma, A.; Jbara, H.; Kushwaha, M.

10.1101/2025.06.22.660937 — synthetic biology — Posted on 2025-06-22

1618 CDH1 loss remodels gene expression and lineage identity in human mammary epithelial cells

Musick, M.; Ufondu, C. A.; Rowland, C. E.; Sottnik, J. L.; Shackleford, M. T.; Nesiba, C. S.; Ostrander, J. H.; Sikora, M. J.

10.1101/2025.06.20.660633 — cancer biology — Posted on 2025-06-22

1619 Correction: Replication of BRIT1/MCPH1 G2/M Checkpoint Function Confirms Original Conclusions

Lin, S.-Y.; Dai, H.; Elledge, S.

10.1101/2025.06.19.660578 — cell biology — Posted on 2025-06-22

1620 Reward impulsivity is linked to addictive-like behaviors towards sweet food and sugary drinks but not fatty food

Mohan, S.; Bobashev, G.; Moiseeva, V.; Shestakova, A.; Panidi, K.; Gutkin, B.

10.1101/2025.06.19.660563 — neuroscience — Posted on 2025-06-22

1621 Neurobiological and Chemical Characterization of the Cyanobacterial Metabolite Veraguamide E

Sotelo, J.; Mofidi, S.; Fofie Kuete, C.; Fosu, K.; Dodd-o, J.; Simcik, R.; Tack, S.; Soto-Reyes, M. J.; Yousuf, M. S.; Caro-Diaz, E. J.; Kumar, V.; Van Horn, W. D.; Kolber, B. J.; Tidgewell, K. J.

10.1101/2025.06.19.660581 — neuroscience — Posted on 2025-06-22

1622 MONITORING POPULATION EXTINCTION RISK WITH COMMUNITY SCIENCE DATA

Acevedo-Charry, O.; Ponciano, J. M.; Poli, C. L.; Jeffery, B. M.; Fletcher, R. J.; Echeverry-Galvis, M. A.; Loiselle, B. A.; Robinson, S. K.; Acevedo, M. A.

10.1101/2025.06.19.660569 — ecology — Posted on 2025-06-22

1623 Vocal mimicry in corvids

Wascher, C.; Waterhouse, G.; Beheim, B. A.

10.1101/2025.03.26.645457 — animal behavior and cognition — Posted on 2025-06-22

1624 The chromatin remodeler LET-418/Mi-2 regulates the intracellular pathogen response in the C. elegans intestine

Rajopadhye, S. A.; Lazetic, V.; Rodriguez Crespo, D.; Troemel, E.; Meister, P.; Wicky, C.

10.1101/2025.06.17.659900 — genomics — Posted on 2025-06-22

1625 Revisiting Size Selective Mortality in Young Fish: Do Small Teleosts Really Pay a Cost?

Bath, D.; Newediuk, L.

10.1101/2025.06.16.660013 — ecology — Posted on 2025-06-22

1626 Limitations of Standard Dynamic Causal Modelling for Multistable Cortical Circuits

Asadpour, A.; Azimi, A.; Wong-Lin, K.

10.1101/2025.03.10.642327 — neuroscience — Posted on 2025-06-22

1627 Atypical weighting of sensory evidence and priors in causality perception along the autism-schizotypy continuum

Marsicano, G.; Melcher, D.

10.1101/2025.06.11.659079 — neuroscience — Posted on 2025-06-22

1628 Coupled equilibria of dimerization and lipid binding modulate SARS Cov 2 Orf9b interactions and interferon response

San Felipe, C.; Batra, J.; Muralidharan, M.; Malpotra, S.; Anand, D.; Bauer, R.; Verba, K. A.; Swaney, D. L.; Krogan, N. J.; Grabe, M.; Fraser, J. S.

10.1101/2025.02.16.638509 — biochemistry — Posted on 2025-06-22

1629 TRAP seq in 3D Angiogenesis Assays Reveals a Distinct Endothelial Translatome Associated with Early and Late Stages of Morphogenesis.

King, S.; Li, Q.-f.; Tschang, I.; Singh, E.; Ramos, R. B.; Pumiglia, K.

10.1101/2025.06.17.660138 — cell biology — Posted on 2025-06-22

1630 Human fibroblasts from aged individuals exhibit chromosomal instability through replication stress caused by oxidative stress

Zhu, K.; Cheng, G.; Ren, Y.; Iemura, K.; Tanaka, K.

10.1101/2025.06.19.660647 — cell biology — Posted on 2025-06-22

1631 Visualizing the Dominant GPCR Coupling of Pathogenic Gαo Mutants in GNAO1-Related Disorders

Larasati, Y. A.; Rabesahala de Meritens, C.; Stoeber, M.; Katanaev, V. L.; Solis, G. P.

10.1101/2025.06.19.660437 — cell biology — Posted on 2025-06-22

1632 Representation of male features in the female mouse Accessory Olfactory Bulb, and their stability during the estrus cycle

Ben-Shaul, Y.; Cohen, O.

10.1101/2024.10.01.615787 — neuroscience — Posted on 2025-06-22

1633 Deep learning-based event classification of mass photometry data for optimal mass measurement at the single-molecule level

Iqbal, K.; Thiele, J. C.; Saman, D.; Peters, J. S.; Thorpe, S.; Tusk, S.; Bardzil, J.; Benesch, J. L. P.; Kukura, P.

10.1101/2025.06.21.660868 — biophysics — Posted on 2025-06-22

1634 RNAGenesis: A Generalist Foundation Model for Functional RNA Therapeutics

Zhang, Z.; Jin, R.; Chao, L.; Xu, G.; Zhang, Y.; Zhou, G.; Yin, D.; Guo, Y.; Fu, Y.; Yang, Y.; Huang, K.; Wang, X.; Zhang, J.; Yang, Y.; Yang, Q.; Xu, Z.; E, W.; Zhou, R.; Zhang, X.; Wang, M.; Cong, L.

10.1101/2024.12.30.630826 — bioinformatics — Posted on 2025-06-22

1635 Tissue-specific I-Smad mechanisms revealed by structure-function analysis in Drosophila

Simoncek, A. M.; Sviridoff, S. J.; Hays, J. N.; Graichen, N. N.; Sulkowski, M. J.

10.1101/2025.06.20.660739 — cell biology — Posted on 2025-06-22

1636 Psychedelics Align Brain Activity with Context

Stoliker, D.; Novelli, L.; Khajehnejad, M.; Biabani, M.; Barta, T.; Greaves, M. D.; Williams, M.; Chopra, S.; Bazin, O.; Simonsson, O.; Chambers, R.; Barrett, F.; Deco, G.; Seth, A.; Preller, K. H.; Carhart-Harris, R.; Sundram, S.; Egan, G. F.; Razi, A.

10.1101/2025.03.09.642197 — neuroscience — Posted on 2025-06-22

1637 Evolution of genetic variance and its consequences oneco-evolutionary response in complex mutualistic networks

Baruah, G.; Wittmann, M. J.

10.1101/2024.12.25.630074 — evolutionary biology — Posted on 2025-06-22

1638 Brain Region-Specific Gene Co-expression Networks Reveal Neuroinflammation and ER Stress Signatures in Major Depressive Disorder

Li, L.; Wang, M.; Jie, Y.

10.1101/2025.06.18.660280 — neuroscience — Posted on 2025-06-22

1639 Post Adversity Changes in Nigro-Striatal Dopamine: a Mechanism for Anxiety Induced Exacerbated Innate Repetitive Behaviors.

Givon, L.; Amado, L.; Edut, S.; Klavir, O.

10.1101/2025.06.21.660223 — neuroscience — Posted on 2025-06-22

1640 Dynamic cholinergic signaling differentially desynchronizes cortical microcircuits dependent on modulation rate and network topology

Pandian, S.; Rich, S.

10.1101/2025.06.20.660675 — neuroscience — Posted on 2025-06-22

1641 Projection-Specific Intersectional Optogenetics for Precise Excitation and Inhibition in the Marmoset Brain

Shaw, L. H.; Padmanabhan, K.; Bucklaew, A.; Mitchell, J. F.; Wang, K. H.

10.1101/2025.06.18.660378 — neuroscience — Posted on 2025-06-22

1642 Essentialome-Wide Multigenerational Imaging Reveals Mechanistic Origins of Cell Growth Laws

Eaton, D. S.; Sanchez, C.; Gutierrez-Lopez, L.; Shenker, J. Q.; Goulev, Y.; Watson, B. R.; Henriot, V.; Garner, E. C.; Justman, Q. A.; Moffitt, J. R.; Paulsson, J.

10.1101/2025.06.10.658525 — systems biology — Posted on 2025-06-22

1643 Temporal Precision Necessitates Wingbeat-Call Asynchrony in Actively Echolocating Bats

Umadi, R.

10.1101/2025.06.18.660328 — animal behavior and cognition — Posted on 2025-06-22

1644 EEG-based Decoding of Auditory Attention to Conversations with Turn-taking Speakers

Van de Ryck, I.; Heintz, N.; Rotaru, I.; Geirnaert, S.; Bertrand, A.; Francart, T.

10.1101/2025.06.20.660726 — neuroscience — Posted on 2025-06-22

1645 Convergent and Divergent Brain-Cognition Development

Xie, Y.; Zhang, S.; Orban, C.; Ooi, L. Q. R.; Kong, R.; Floris, D. L.; Zuo, X.-N.; Dhamala, E.; Holmes, A. J.; Uddin, L. Q.; Nichols, T. E.; Di Martino, A.; Yeo, B. T. T.

10.1101/2025.06.06.658294 — neuroscience — Posted on 2025-06-22

1646 Nicotinic Modulation of Fast-spiking Neurons in Rat Somatosensory Cortex Across Development

Haga, C. W.; Koenig, J. A.; Cramer, N. P.; Chandra, R.; Keller, A.

10.1101/2025.06.18.660362 — neuroscience — Posted on 2025-06-22

1647 Hierarchical microstructural tissue growth of the gray and white matter of human visual cortex during the first year of life

Perez, K.; Allen, A.; Tyagi, C.; Tung, S. S.; Fascendini, B.; Yan, X.; Horenziak, J.; Ortiz, D.; Wu, H.; Grill-Spector, K.; Natu, V. S.

10.1101/2025.06.20.660718 — neuroscience — Posted on 2025-06-22

1648 A data-driven algorithm to determine 1H-MRS basis set composition

Davies-Jenkins, C. W.; Zollner, H. J.; Simicic, D.; Alcicek, S.; Edden, R. A. E.; Oeltzschner, G.

10.1101/2024.09.11.612503 — neuroscience — Posted on 2025-06-22

1649 Non-cell autonomous control of presynaptic remodeling by the hypothalamic autophagy/NPY axis

Cazzolla, G.; Toppe, D.; Krause, G.; Kochlamazashvili, G.; Luetzkendorf, J.; Schedina, I. M.; Kerkhoff, Y.; Reifenstein, E.; von Kleist, M.; Herzog, H.; Albrecht, A.; Schmitz, D.; Haucke, V.; Sigrist, S. J.; Maglione, M.

10.1101/2025.06.20.660653 — neuroscience — Posted on 2025-06-22

1650 Selective sweeps and the role of divergent and parallel selection in Amazonian and Andean bird diversification

Luzuriaga-Aveiga, V. E.; Thorstensen, M. J.; Jankowski, J. E.; Weir, J. T.

10.1101/2025.06.21.660863 — zoology — Posted on 2025-06-22

1651 Static Three-Dimensional Structures Determine Fast Dynamics Between Distal Loci Pairs in Interphase Chromosomes

Shi, G.; Shin, S.; Thirumalai, D.

10.1101/2025.01.16.633484 — biophysics — Posted on 2025-06-22

1652 QCatch: A framework for quality control assessment and analysis of single-cell sequencing data

Gao, Y.; He, D.; Patro, R.

10.1101/2025.06.15.659779 — bioinformatics — Posted on 2025-06-22

1653 Decoding molecular mechanisms for loss-of-function variants in the human proteome

Cagiada, M.; Jonsson, N.; Lindorff-Larsen, K.

10.1101/2024.05.21.595203 — bioinformatics — Posted on 2025-06-22

1654 SpaceBF: Spatial coexpression analysis using Bayesian Fused approaches in spatial omics datasets

Seal, S.; Neelon, B.

10.1101/2025.03.29.646124 — bioinformatics — Posted on 2025-06-22

1655 An advanced head-to-tail mouse embryo model with hypoxia-mediated neural patterning

Balaskas, A.; Kraus, I.; Ozguldez, H. O.; Omgba, P. A.; Buschow, R.; Bolondi, A.; Berlad, I.; Hanna, J. H.; Kretzmer, H.; Bulut-Karslioglu, A.

10.1101/2025.06.17.660116 — developmental biology — Posted on 2025-06-22

1656 Development of a protocol utilizing single-cell analysis for the differentiation of human iPSCs into SOX6+ midbrain dopaminergic neurons.

Lyu, G.; Garcia Swinburn, R.; Kreutzmann, J. C.; Xiong, A.; Kojima, R.; Abaurre, C.; Tremolanti, C.; Gellhaar, S.; Uhlen, P.; Svenningsson, P.; Castelo Branco, G.; Dagliyan, O.; Salto, C.; Arenas, E.

10.1101/2025.06.18.660098 — cell biology — Posted on 2025-06-22

1657 Transcription termination promotes splicing efficiency and fidelity in a compact genome

Barr, K.; He, K. L.; Krumbein, A. J.; CHANFREAU, G. F.

10.1101/2025.03.12.642901 — molecular biology — Posted on 2025-06-22

1658 Misclassification in memory modification in AppNL-G-F knock-in mouse model of Alzheimers disease

Huang, M.-L.; Suzuki, Y.; Sasaguri, H.; Saito, T.; Saido, T. C.; Imayoshi, I.

10.1101/2025.01.24.634705 — neuroscience — Posted on 2025-06-22

1659 AVN: A Deep Learning Approach for the Analysis of Birdsong

Koch, T. M. I.; Marks, E.; Roberts, T. F.

10.1101/2024.05.10.593561 — neuroscience — Posted on 2025-06-22

1660 Auditory corticofugal circuits drive vocalization-guided maternal behavior

LeMessurier, A.; Kaur, G.; Paraiso, J. I.; Agha, A.; Stephens, J.; Froemke, R. C.

10.1101/2023.09.13.557594 — neuroscience — Posted on 2025-06-22

1661 Leukemia Inhibitory Factor as a late-stage treatment for delayed white matter loss in concussive head injury

D'Mello, V. d.; Mihailovic, J.; Ali, S.; Sanganahalli, B. G.; Coman, D.; Hyder, F.; Fernando, M.; Mampilly, A.; Kannurpatti, S. S.; Levison, S. W.

10.1101/2025.04.07.647435 — neuroscience — Posted on 2025-06-22

1662 Human single-neuron activity is modulated by intracranial theta burst stimulation of the basolateral amygdala

Campbell, J. M.; Cowan, R. L.; Wahlstrom, K. L.; Hollearn, M. K.; Jensen, D.; Davis, T.; Rahimpour, S.; Shofty, B.; Arain, A.; Rolston, J. D.; Hamann, S.; Wang, S.; Eisenman, L. N.; Swift, J.; Xie, T.; Brunner, P.; Manns, J. R.; Inman, C. S.; Smith, E. H.; Willie, J. T.

10.1101/2024.11.11.622161 — neuroscience — Posted on 2025-06-22

1663 The fate of pollen in two morphologically contrasting buzz-pollinated Solanum flowers

Vasquez-Castro, C. A.; Morel, E.; Garcia-Simpson, B.; Vallejo-Marin, M.

10.1101/2024.09.01.610688 — plant biology — Posted on 2025-06-22

1664 Rational modulation of plant root development using engineered cytokinin regulators

Rattan, R.; Alamos, S.; Szarzanowicz, M.; Markel, K.; Shih, P. M.

10.1101/2024.12.06.627221 — plant biology — Posted on 2025-06-22

1665 Ethylene Receptor Gain- and Loss-of-function Mutants Reveal an ETR1-dependent Transcriptional Network in Roots

White, M. G.; Harkey, A.; Muhlemann, J. K.; Olex, A. L.; Pfeffer, N. J.; Houben, M.; Binder, B.; Muday, G. K.

10.1101/2024.06.26.600793 — plant biology — Posted on 2025-06-22

1666 Using Manganese-Enhanced MRI to visualize Magnetogenetic-based Neuromodulation

Ricker, B.; Dayan, N.; Pelled, G.; Gilad, A.

10.1101/2025.06.20.660767 — biophysics — Posted on 2025-06-21

1667 Disaggregation Regression and Multi-Model Evaluation for Predicting Dengue Risk in Africa

Poongavanan, J.; Lucas, T. C. D.; Mwanyika, G.; Kraemer, M. U. G.; Lourenco, J.; Dunaiski, M.; de Oliveira, T.; Tegally, H.

10.1101/2025.06.17.660069 — ecology — Posted on 2025-06-21

1668 Co-transcriptional splicing changes combine with reduced productive transcription initiation for cold-induced repression of FLC

Maple, R.; Menon, G.; Duncan, S.; Sindalovskaya, M.; Yang, H.; Bloomer, R.; Howard, M.; Dean, C.

10.1101/2025.06.20.660682 — molecular biology — Posted on 2025-06-21

1669 Engineering Escherichia coli FAD synthetase for the biosynthesis of FAD nucleotide analogues results in aminoglycoside antibiotic tolerance

Hazra, A. B.; Mukherjee, A.; Shah, A.; Bhargav, P.; Mahato, S.; Singh, R. K.; Kumar, Y.; Panda, P.; Borkar, J.; Parab, L.; Matange, N.

10.1101/2025.06.21.660729 — microbiology — Posted on 2025-06-21

1670 Metabolomics-informed coarse-grained model enables prediction of cell-free protein expression dynamics

Poole, W.; Kapasiawala, M.; Roychoudhury, A.; Haines, M.; Freemont, P.; Murray, R. M.

10.1101/2025.06.20.660830 — synthetic biology — Posted on 2025-06-21

1671 Advanced illumination-imaging reveals photosynthesis-triggered pH, ATP and NAD redox signatures across plant cell compartments

Zheng, K.; Elsässer, M.; Niemeier, J.-O.; Barreto, P.; Cislaghi, A. P.; Hoang, M.; Feitosa-Araujo, E.; Wagner, S.; Giese, J.; Kotnik, F.; Martinez, M. d. P.; Buchert, F. E.; Ugalde, J. M.; Armbruster, U.; Hippler, M.; Meyer, A. J.; Kunz, H.-H.; Maurino, V. G.; Finkemeier, I.; Schallenberg-Rüdinger, M.; Schwarzländer, M.

10.1101/2025.06.16.659786 — plant biology — Posted on 2025-06-21

1672 Acute stimulation of glucose metabolism by H2O2 sustains theNADPH steady-state under oxidative stress

Aburto, C.; Ruminot, I.; San Martin, A.

10.1101/2025.06.20.660777 — biochemistry — Posted on 2025-06-21

1673 Transcriptomic profiling of Debaryomyces hansenii reveals detoxification and stress responses to benzo(a)pyrene exposure

Padilla-Garfias, F.; Poot-Hernandez, A. C.; Araiza-Villanueva, M.; Calahorra, M.; Sanchez, N. S.; Pena, A.

10.1101/2025.06.17.660189 — biochemistry — Posted on 2025-06-21

1674 Mammalian mitochondrial polyphosphate is regulated by the 5-InsP7 synthase IP6K1

Ladke, J. S.; Khan, A.; Singh, A.; Singh, J.; Steck, N.; Jessen, H.; Kolthur-Seetharam, U.; Jaiswal, M.; Bhandari, R.

10.1101/2025.06.17.659843 — biochemistry — Posted on 2025-06-21

1675 New iPSC resource with long-read whole genome sequencing characterizations for enhanced in vitro modeling

Scheinfeldt, L. B.; Pompetti, A.; Calendo, G.; Pozner, T.; Grandizio, C.; Smith, G.; Hodges, K.; Gharani, N.; Kusic, D.; Mitchell, M. W.; Turan, N.

10.1101/2025.06.17.660113 — genomics — Posted on 2025-06-21

1676 Large-Scale Restructuring of the Caspase-1 Gene Cluster Region in Mammals

Stevens, D.; Daish, T.; Grutzner, F.

10.1101/2025.06.19.660630 — genetics — Posted on 2025-06-21

1677 Identification of key bacteria for ecological dynamics in a coastal marine observatory

Mateus-Barros, E.; Flores, E. P.; Zanetti, J.; Griffero, L.; Amann, R.; Alonso, C.

10.1101/2025.06.16.659933 — ecology — Posted on 2025-06-21

1678 Spatial Transcriptomics Analysis Uncovers ER stress in MANF-deficient Purkinje Cells Underlying Alcohol-induced Cerebellar Vulnerability in Mice

Wen, W.; Li, H.; Lin, L.-C.; Chimenti, M. S.; Keen, H. L.; Leidinger, M. R.; Hu, D.; Zhang, Z.; Lin, H.; Luo, J.

10.1101/2025.06.19.660571 — molecular biology — Posted on 2025-06-21

1679 Reconstitution of human cytochrome P450 activity using a Leishmania cell-free protein expression system

Johnston, W.; Thomson, R. E. S.; Alfaro-Palma, J.; Alexandrov, K.; Speight, R. E.; Gillam, E. M. J.; Behrendorff, J. B.

10.1101/2025.06.20.660707 — synthetic biology — Posted on 2025-06-21

1680 DCX Enhances Glioblastoma Metabolism Through Synergistic Regulation of Glutamine Synthesis and Metabolism-Related Genes for Cellular Homeostasis

Ayanlaja, A. A.; Hong, X.; Cheng, B.; Han, Z.; Chang, M.; Kanwore, K.; Adesanya, A. I.; Ayanlaja, M.; Raji, Q.; Iqra, N.; Alphayo-Kambey, P.; Tang, C.; Dong, J.; Zhang, B.

10.1101/2025.06.16.660014 — cancer biology — Posted on 2025-06-21

1681 Context-aware geometric deep learning for RNA sequence design

Bibekar, P.; Krapp, L. F.; Dal Peraro, M.

10.1101/2025.06.21.660801 — bioinformatics — Posted on 2025-06-21

1682 SAIR: Enabling deep learning for protein-ligand lnteractions with a synthetic structural dataset

Lemos, P.; Beckwith, Z.; Bandi, S.; Van Damme, M.; Crivelli-Decker, J.; Shields, B. J.; Merth, T.; Jha, P. K.; De Mitri, N.; Callahan, T. J.; Nish, A.; Abruzzo, P.; Salomon-Ferrer, R.; Ganahl, M.

10.1101/2025.06.17.660168 — biochemistry — Posted on 2025-06-21

1683 Extended NGN2 Expression in iPSCs Dramatically Enhances Purity of Neuronal Cultures

Munoz-Estrada, J.; Mostafania, A.; Halwatura, L.; Haghani, A.; Jiang, Y.; Meyer, J. G.

10.1101/2025.06.20.660764 — biochemistry — Posted on 2025-06-21

1684 Glycolipid recognition and binding by Siglec-6 hinges on interactions with the cell membrane

D'Andrea, S.; Schmidt, E. N.; Bui, D.; Singh, O.; Han, L.; Mahal, L. K.; Klassen, J. S.; Macauley, M. S.; fadda, e.

10.1101/2025.06.21.660838 — biochemistry — Posted on 2025-06-21

1685 A Nextflow pipeline for molecular quantitative trait loci mapping in small sample size datasets with an application in Atlantic salmon

Nguyen, D. T.; Sandve, S. R.; Lien, S.; Gronvold, L.

10.1101/2025.06.17.660077 — genomics — Posted on 2025-06-21

1686 Genetic impacts on within-pair DNA methylation variance in monozygotic twins capture gene-environment interactions and cell-type effects

Zhang, X.; Yet, I.; Villicana, S.; Castillo-Fernandez, J.; Mangino, M.; Hottenga, J. J.; Tsai, P.-C.; Min, J.; Falchi, M.; Wong, A.; Boomsma, D.; Ong, K.; van Dongen, J.; Bell, J. T.

10.1101/2025.06.17.659865 — genetics — Posted on 2025-06-21

1687 CRISPR-Cas targeting in Haloferax volcanii promotes within-species gene exchange by triggering homologous recombination

Choudhary, D. K.; Turgeman-Grott, I.; Robinzon, S.; Gophna, U.

10.1101/2025.06.18.660351 — genetics — Posted on 2025-06-21

1688 Dysregulated MEG3 in Myotonic Dystrophy 1: nuclear retention, pathological role, and therapeutic correction by antisense conjugates.

Seoane-Miraz, D.; Stoodley, J.; Galindo-Riera, N.; Jad, Y.; Klein, A. F.; Nikel, L.; Lomonosova, Y.; Reine, J.; Camara, S.; Artero, R.; Furling, D.; Wood, M. J.; Varela, M. A.

10.1101/2025.06.20.658327 — molecular biology — Posted on 2025-06-21

1689 Downregulation of LATS1/2 Drives Endothelial Senescence-Associated Stemness (SAS) and Atherothrombotic Lesion Formation

Kotla, S.; Lee, J.; Ko, K. A.; Chen, W.; Samanthapudi, V. S. k.; Hoang, O.; Mejia, G.; Li, S.; Schadler, K. L.; Rivera, L. A.; Samperio, K. C. T.; Kim, J. H.; Ostos Mendoza, K. C.; Deswal, A.; Cooke, J. P.; Fujiwara, K.; Palaskas, N. L.; Koutroumpakis, E.; Gi, Y. J.; Pathania, R.; Lorenzi, P. L.; Tan, L.; Madhmud, I.; Hanssen, N. M.; Yvan-Charvet, L.; Chini, E.; Herrmann, J.; Vasquez, H.; Shen, Y. H.; Martin, J. F.; Xu, H.; Seeley, E. H.; Burks, J. K.; Brookes, P. S.; Wang, G.; Le, N.-T.; Abe, J.-i.

10.1101/2025.06.19.660635 — molecular biology — Posted on 2025-06-21

1690 Inhibition of pro-atherogenic trimethylamine production by human gut bacteria is not determined by varying chlorogenic acid content in highbush blueberries

McAmis, A. M.; Sweet, M. G.; Chadwick, S.; Ratliff, J. G.; Mengist, M. F.; Bassil, N. V.; Anandh Babu, P. V.; Iorizzo, M.; Neilson, A. P.

10.1101/2025.06.20.660815 — microbiology — Posted on 2025-06-21

1691 Scalable single-cell metagenomic analysis with Bascet and Zorn

Gourle, H.; Yakovenko, I.; Verma, J.; Dicken, J.; Albrecht, F.; Mazutis, L.; Normark, J.; Sheng, N.; Strömberg, N.; Löfstedt, T.; Carroll, L. M.; Henriksson, J. M.

10.1101/2025.06.20.660799 — microbiology — Posted on 2025-06-21

1692 N-myristoyltransferase Inhibitors as Candidate Broad-Spectrum Antivirals to Treat Viral Infections Promoted by Immunosuppression Associated with JAK Inhibitors Therapy

Witwit, H.; de la Torre, J. C.

10.1101/2025.06.20.660686 — microbiology — Posted on 2025-06-21

1693 Phage-based microbiome manipulation elucidates interactions within community context

Hessler, T.; Chiniquy, D.; Adler, B.; Hoff, J.; Tucker, E.; Huddy, R. J.; Sachdeva, R.; Lei, S.; Harrison, S. T. L.; Doudna, J.; Barrangou, R.; Diamond, S.; Deutschbauer, A. M.; Banfield, J. F.

10.1101/2025.06.20.660599 — microbiology — Posted on 2025-06-21

1694 A Cas12a Toolbox for Rapid and Flexible Group B Streptococcus Genomic Editing and CRISPRi

Hillebrand, G. H.; Carlin, S. M.; Giacobe, E. L.; Stephenson, H. A.; Collins, J.; Hooven, T. A.

10.1101/2025.06.20.660720 — microbiology — Posted on 2025-06-21

1695 The macroecology of immunity: predominant influence of climate on invertebrate immune response

Hasik, A.; Blondeau, M.; Harvey, J.; Groleau, T.; DeBellis, T.; Pedersen, E. J.; Cordoba-Aguilar, A.; Marshall, K. E.; Ferguson, L.; Lessard, J.-P.

10.1101/2025.06.16.659911 — immunology — Posted on 2025-06-21

1696 Multi-Level Regulation in RNA-Protein Hybrid Incoherent Feedforward Loop Circuits for Tunable Pulse Dynamics in Escherichia coli

Hong, S.; Shoaib, S. S.; Foo, M.; Tang, X.; Kim, J.

10.1101/2025.06.20.660716 — synthetic biology — Posted on 2025-06-21

1697 Bayesian inference of functional asymmetry in a ligand-gated ion channel

Moffatt, L.; Pierdominici-Sottile, G.

10.1101/2025.06.20.660684 — biophysics — Posted on 2025-06-21

1698 Life identification number (LIN) codes for the genomic taxonomy of Corynebacterium diphtheriae strains

Delgado-Blas, J.; Rethoret-Pasty, M.; Brisse, S.

10.1101/2025.06.20.660692 — microbiology — Posted on 2025-06-21

1699 A lectin receptor-like kinase controls self-pollen recognition in Phlox (Polemoniaceae)

Burgin, G.; Lewis, N.; Hopkins, R.

10.1101/2025.06.17.660178 — plant biology — Posted on 2025-06-21

1700 Atomic resolution ensembles of intrinsically disordered and multi-domain proteins with Alphafold

Schnapka, V.; Morozova, T.; Sen, S.; Bonomi, M.

10.1101/2025.06.18.660298 — bioinformatics — Posted on 2025-06-21

1701 Flexible docking of cyclic peptides to proteins using CABS-dock

Zalewski, M.; Badaczewska-Dawid, A. E.; Kmiecik, S.

10.1101/2025.06.18.660300 — bioinformatics — Posted on 2025-06-21

1702 Functional impact of pathogenic Runt domain mutations in Runx2 in vivo: Insights into the skeletal and dental anomalies of cleidocranial dysplasia

Ogawa, S.; Higuchi, S.; Yoshimoto, Y.; Hoshino, M.; Miura, S.; Hamada, A.; Watanabe, H.; Sakuma, T.; Hu, K.; Ogata, S.; Uchibe, K.; Fujimoto, K.; Yamamoto, T.; Okamoto, T.; Kunimatsu, R.; Sotomaru, Y.; Tanimoto, K.; Kondoh, G.; Docheva, D.; Shukunami, C.

10.1101/2025.06.18.660258 — genetics — Posted on 2025-06-21

1703 Counting Cases, Conserving Species: Addressing Highly Pathogenic Avian Influenza in Wildlife

Knief, U.; Bouwhuis, S.; Globig, A.; Guenther, A.; Courtens, W.

10.1101/2025.06.18.660293 — ecology — Posted on 2025-06-21

1704 Visual Working Memory Guides Attention Rhythmically

Lu, J.; Cai, Y.; Zhang, X.

10.1101/2025.06.18.660380 — neuroscience — Posted on 2025-06-21

1705 Functional Specialization of Angular Gyrus and Precuneus Subregions for Perspective-Guided Autobiographical Memory Retrieval

Kucuktas, S.; St Jacques, P. L.

10.1101/2025.06.20.660447 — neuroscience — Posted on 2025-06-21

1706 Combined Auditory, Tactile, and Visual fMRI Reveals Sensory-Biased and Supramodal Working Memory Regions in Human Frontal Cortex

Tobyne, S. M.; Brissenden, J. A.; Noyce, A. L.; Somers, D. C.

10.1101/2025.06.21.660846 — neuroscience — Posted on 2025-06-21

1707 Schizophrenia-associated 22q11.2 deletion elevates striatal acetylcholine and disrupts thalamostriatal projections to produce amotivation in mice

Patton, M. H.; Teubner, B. J. W.; Thomas, K. T.; Freshour, S. L.; Trevisan, A. J.; Schild, A. B.; Ramirez, C. A.; Bikoff, J. B.; Zakharenko, S. S.

10.1101/2025.06.20.660782 — neuroscience — Posted on 2025-06-21

1708 Twinfilin-1 phosphorylation in reelin signaling regulates actin dynamics and spine development

DONG, G.; Mori, D.; Matsuzaki, T.; Tanaka, R.; Itoh, N.; Matsui, T.; Sato, A.; Arioka, Y.; Okumura, H.; Fukaya, R.; Kuba, H.; Nagai, T.; Nabeshima, T.; Ikesue, H.; Kohno, T.; Hattori, M.; Kaibuchi, K.; Ozaki, N.; Mizoguchi, H.; Yamada, K.

10.1101/2025.06.18.660483 — neuroscience — Posted on 2025-06-21

1709 FunCLAN: A novel and generalisable method for categorising protein complex conformations, measuring their similarities, and solving the chain equivalence problem

Celis Garza, D. C.; Ellaway, J. I. J.; Appasamy, S. D.; Krissinel, E.; Velankar, S.

10.1101/2025.06.16.659920 — bioinformatics — Posted on 2025-06-21

1710 Sideroflexins enable mitochondrial transport of polar neutral amino acids

Block, S.; Chi, F.; Rosen, P. C.; Pineda, S. S.; Darnell, A. M.; Abbott, K. L.; Pena, I. A.; Heiman, M.; Yilmaz, O. H.; Kory, N.; Vander Heiden, M. G.

10.1101/2025.06.18.660357 — biochemistry — Posted on 2025-06-21

1711 RNF13 is a novel interactor of iduronate 2-sulfatase that modifies its glycosylation and maturation

Cabana, V. C.; Bouchard, A. Y.; Senecal, A. M.; Cappadocia, L.; Lussier, M. P.

10.1101/2025.06.20.660705 — biochemistry — Posted on 2025-06-21

1712 Herpes simplex virus-1 fluidizes the nucleus enabling condensate formation

Herzog, N. L.; Kidiyoor, G. R.; Keegan, S.; Korchi, F.; Chenoweth, D. M.; Zhang, H.; Mohr, I.; Wilson, A.; Holt, L. J.

10.1101/2025.06.20.660750 — cell biology — Posted on 2025-06-21

1713 Uromyces plumbarius first reported on Oenothera lindheimeri in Europe with widespread distribution and association with two common natural enemies of rust fungi

Suffert, F.; Meyer, K.; Laval, V.; Andrieux, A.; Slootweg, E.; Frey, P.

10.1101/2025.04.07.647624 — microbiology — Posted on 2025-06-21

1714 Biomechanical simplification of the motor control of whisking

Bresee, C. S.; Luo, Y.; Alade'Fa, J.; Black, M. E.; Kleczka, K. J.; Bush, N. E.; Zhang, K.; Hartmann, M. J.

10.1101/2025.06.21.660818 — neuroscience — Posted on 2025-06-21

1715 Cholinergic modulation of dopamine release drives effortful behavior

Touponse, G. C.; Pomrenze, M. B.; Yassine, T.; Mehta, V.; Denomme, N.; Zhang, Z.; Malenka, R. C.; Eshel, N.

10.1101/2025.06.18.660394 — neuroscience — Posted on 2025-06-21

1716 Preserved cerebellar functions despite structural degeneration in older adults

de Witte, A.; Matthijs, A.; Parrell, B.; Mantini, D.; Gooijers, J.; Orban de Xivry, J.-J.

10.1101/2025.06.18.660418 — neuroscience — Posted on 2025-06-21

1717 MRI-Based Structural Development of the Human Newborn Hypothalamus

Yen, E.; De Asis-Cruz, J.; Rasmussen, J. M.

10.1101/2025.06.20.660741 — neuroscience — Posted on 2025-06-21

1718 The Topological Architecture of Brain Identity

Poetto, S.; Merritt, H.; Santoro, A.; Rabuffo, G.; Battaglia, D. A.; Vaccarino, F.; Saggar, M.; Brovelli, A.; Petri, G.

10.1101/2025.06.20.660792 — neuroscience — Posted on 2025-06-21

1719 The role of dopamine-sensitive motor cortical circuits in the development and execution of skilled forelimb movements

Gorkowska-Nosal, M.; Drwiega, G.; Szumiec, L.; Rodriguez Parkitna, J.; Cieslak, P. E.

10.1101/2025.06.20.660525 — neuroscience — Posted on 2025-06-21

1720 Neuromorphic hierarchical modular reservoirs

Milisav, F.; Luppi, A. I.; Suarez, L. E.; Lajoie, G.; Misic, B.

10.1101/2025.06.20.660760 — neuroscience — Posted on 2025-06-21

1721 Combining Machine Learning and Multiplexed, In Situ Profiling to Engineer Cell Type and Behavioral Specificity

Leone, M. J.; van de Weerd, R.; Brown, A. R.; Noh, M.-C.; Phan, B. N.; Wang, A.; Corrigan, K. A.; Yeramosu, D.; Sestili, H. H.; Arokiaraj, C. M.; Lopes, B. C.; Cherupally, V. K.; Fields, D.; Babu, S.; Srinivasan, C.; Podder, R.; Gadey, L.; headrick, D.; Chen, Z.; Franusich, M. E.; Dum, R.; Lewis, D.; Mathys, H.; Stauffer, W. R.; Seal, R. P.; Pfenning, A. R.

10.1101/2025.06.20.660790 — neuroscience — Posted on 2025-06-21

1722 Neural activity flows through cortical subnetworks during speech production

Castellucci, G. A.; MacKay, M.; Kovach, C. K.; Tabasi, F.; Greenlee, J. D. W.; Long, M. A.

10.1101/2025.06.20.660783 — neuroscience — Posted on 2025-06-21

1723 Ultrastructural analysis of synapses after induction of spike-timing-dependent plasticity

Wang, R.; Schweizer, M.; Anisimova, M.; Gee, C. E.; Oertner, T. G.

10.1101/2025.06.19.660567 — neuroscience — Posted on 2025-06-21

1724 Volume Control for a Cortical Network

Wang, R.; Fridman, G. Y.

10.1101/2025.06.19.660597 — neuroscience — Posted on 2025-06-21

1725 Cortical sculpting of a rhythmic motor program

Kirk, E. A.; Cai, K.; Sauerbrei, B. A.

10.1101/2025.06.20.660772 — neuroscience — Posted on 2025-06-21

1726 Amphiphilic protein surfactants reduce the interfacial tension of biomolecular condensates

Favetta, B.; Wang, H.; Shi, Z.; Schuster, B. S.

10.1101/2025.06.19.660548 — biophysics — Posted on 2025-06-21

1727 Leveraging crystallographic fragment screening, algorithmic merging and digital chemistry to target NCS-1 protein-protein interactions for treatment of neurological disorders

Munoz-Reyes, D.; Fieseler, K. K.; Winokan, M.; Golding, M.; Capkin, E.; Ferla, M.; Perez-Suarez, S.; Tomlinson, C. W. E.; Marples, P. G.; Miro-Rodriguez, C.; Aguado, L.; Mansilla, A.; Fearon, D.; Thompson, W.; von Delft, F.; Sanchez-Barrena, M. J.

10.1101/2025.06.18.660085 — biophysics — Posted on 2025-06-21

1728 Condition-dependent, amorphous protein agglomerates control cytoplasmic rheology

Losa, J.; Simon, F.; Linnik, D.; Kaya, S. G.; Stuart, M. C. A.; Stetsenko, A.; de Boer, R.; Ho, F. Y.; Incarnato, D.; Stevens, J.; van Eck, J.; Fraaije, M. W.; Weiss, L. E.; van Teeffelen, S.; Abeln, S.; Guskov, A.; Marrink, S.-J.; Poolman, B.; Heinemann, M.

10.1101/2025.06.17.660151 — biophysics — Posted on 2025-06-21

1729 FLUID-CELL: Flow-enabled Light and Ultrastructural Imaging Device for Correlative Electron and Light Localization

Rienstra, N. M.; Garvis, S.; Sanchez, J. C.; Sibert, B. S.; Wright, E. R.

10.1101/2025.06.17.660254 — biophysics — Posted on 2025-06-21

1730 Algal Optics

Goldstein, R. E.; Birwa, S. K.; Yang, M.

10.1101/2025.06.18.660391 — biophysics — Posted on 2025-06-21

1731 Transient binding facilitates super-resolution imaging of functional amyloid fibrils on living bacteria

Foust, D. J.; Kolli, D.; Jessel, K.; Hu, Z.; Chapman, M. R.; Biteen, J. S.

10.1101/2025.06.19.660547 — biophysics — Posted on 2025-06-21

1732 Neurogranin Unlocks the L-type Ca2+ Channel and Directs Calmodulin Delivery

Yu, Z.; Geng, J.; Qiu, S.; Zhang, W.; He, M.; Liu, X.

10.1101/2025.06.20.660829 — biophysics — Posted on 2025-06-21

1733 A balance between nucleating and elongating actin filaments controls deformation of protein condensates

Walker, C.; Mansour, D.; Effiong, U.; Jordan, D.; Wang, L.; Lafer, E. M.; Alvarado, J.; Belardi, B.; Rangamani, P.; Stachowiak, J. C.; Rangamani, P.

10.1101/2025.06.18.660423 — biophysics — Posted on 2025-06-21

1734 Protocol for Membrane Permeability Prediction of Cyclic Peptides using Descriptors Obtained from Extended Ensemble Molecular Dynamics Simulations and Chemical Structures

Sugita, M.; Noso, Y.; Li, J.; Fujie, T.; Yanagisawa, K.; Akiyama, Y.

10.1101/2025.06.18.660352 — biophysics — Posted on 2025-06-21

1735 Multiscale mechanics of granular biofilms

Mansson, L. K.; Warsaw, A. E.; Wilbanks, E. G.; Pitenis, A. A.

10.1101/2025.06.18.660425 — biophysics — Posted on 2025-06-21

1736 Balancing Speed and Precision in Protein Folding: A Comparison of AlphaFold2, ESMFold, and OmegaFold

Hyskova, A.; Marsalkova, E.; Simecek, P.

10.1101/2025.06.20.660709 — bioinformatics — Posted on 2025-06-21

1737 Enhancer Poising Enables Pathogenic Gene Activation by Noncoding Variants

Hollingsworth, E.; Chen, Z.; Chen, C. X.; Jacinto, S. H.; Liu, T. A.; Kvon, E.

10.1101/2025.06.20.660819 — genomics — Posted on 2025-06-21

1738 A threshold level of JNK activates damage-responsive enhancers via JAK/STAT to promote tissue regeneration

Quinn, J. W.; Lee, M. C.; Van Hazel, C.; Wilson, M. A.; Harris, R. E.

10.1101/2024.10.31.621241 — genetics — Posted on 2025-06-21

1739 Fecal proteomics of wild capuchins reveals impacts of season, diet, age, and, sex on gut physiology

Orkin, J. D.; Fournier, A.; Young, D.; Webb, S. E.; Hernandez, S. C.; Jack, K. M.; Campos, F. A.; Dufour, A.; Melin, A. D.

10.1101/2025.06.16.659980 — ecology — Posted on 2025-06-21

1740 The genetic origin of fetal growth restriction and mitochondrial complex I dysregulation

Fisher, J. J.; Wang, C. A.; Botha, V. B.; Acharya, S.; Murray, H. C.; Schjenken, J. E.; Pennell, C. E.; Smith, R.

10.1101/2025.06.19.660636 — developmental biology — Posted on 2025-06-21

1741 Mind Captioning: Evolving descriptive text of mental content from human brain activity

Horikawa, T.

10.1101/2024.04.23.590673 — neuroscience — Posted on 2025-06-21

1742 The Impact of Acute High-Intensity Activity on Perceptual Decision-Making Dynamics

Davranche, K.; Giraud, D.; Hays, A.; Gajdos Preuss, T.

10.1101/2023.02.14.528466 — neuroscience — Posted on 2025-06-21

1743 Deep Neural Networks to Register and Annotate Cells in Moving and Deforming Nervous Systems

Atanas, A. A.; Lu, A. K.-Y.; Goodell, B.; Kim, J.; Baskoylu, S.; Kang, D.; Kramer, T. S.; Bueno, E.; Wan, F. K.; Cunningham, K. L.; Weissbourd, B.; Flavell, S. W.

10.1101/2024.07.18.601886 — neuroscience — Posted on 2025-06-21

1744 Tracking visual rhythms: a concert of sensory and motor simulation

Kaltenmaier, A.; Gehmacher, Q.; Kok, P.; Davis, M. H.; Press, C.

10.1101/2025.06.18.660330 — neuroscience — Posted on 2025-06-21

1745 A Single-Cell Atlas of DNA Methylation in Autism Spectrum Disorder Reveals Distinct Regulatory and Aging Signatures

Eyring, K. W.; Liu, C.; Elhajjaoui, N.; Abuhanna, K. D.; Zhang, Y.; von Behren, Z.; Eskin, E.; Geschwind, D. H.; Luo, C.

10.1101/2025.06.17.660162 — neuroscience — Posted on 2025-06-21

1746 Horizontally Tiled Network of Cortico-Basal Ganglia Modules Performs Reinforcement Learning

Hirokane, K.; Takehara, R.; Kita, T.; Onoi, S.; Matsushita, S.; Kitsukawa, T.

10.1101/2025.06.18.660381 — neuroscience — Posted on 2025-06-21

1747 Mesoscale differences in brain organization in schizophrenia revealed by topological data analysis

Dmitruk, E.; Metzner, C.; Steuber, V.; Kadir, S. N.

10.1101/2025.06.19.660631 — neuroscience — Posted on 2025-06-21

1748 Parallel emergence of perisomatic inhibition and ripples in the developing hippocampal circuit

Da Silva, A. F. G.; Dubanet, O.; Rouault, H.; Leinekugel, X.

10.1101/2025.06.17.660075 — neuroscience — Posted on 2025-06-21

1749 Beyond Reorganization: Intrinsic cortical hierarchies constrain experience-dependent plasticity in sensory-deprived humans

Orsenigo, D.; Setti, F.; Pagani, M.; Petri, G.; Tamietto, M.; Luppi, A. I.; Ricciardi, E.

10.1101/2025.06.19.660510 — neuroscience — Posted on 2025-06-21

1750 Measurements of Contractility in Actin Convergence Zone and KIF11-Inhibited Mitotic Spindles

Matov, A.

10.1101/2024.06.28.601275 — cell biology — Posted on 2025-06-21

1751 Multimodal Analysis of Sepsis-induced Cardiomyopathy in a Baboon Model

Lupu, F.; Abe, T.; Silasi, R.; Keshari, R.; Popescu, N.; Regmi, G.; Matsuzaki, S.; Georgescu, C.; Kudo, M.; Lupu, C.; Humphries, K. M.; Simmons, J.

10.1101/2025.06.16.659963 — pathology — Posted on 2025-06-21

1752 AWmeta empowers adaptively-weighted transcriptomic meta-analysis

Hu, Y.; Wang, Z.; Hu, Y.; Feng, C.; Fang, Q.; Chen, M.

10.1101/2025.05.06.650408 — bioinformatics — Posted on 2025-06-21

1753 Estimation of substitution and indel rates via k-mer statistics

HERA, M. R.; Medvedev, P.; Koslicki, D.; Blanca, A.

10.1101/2025.05.14.653858 — bioinformatics — Posted on 2025-06-21

1754 Overhang Optimizer for Golden Gate Assembly (OOGGA)

Mukundan, S.; Madhusudhan, M. S.

10.1101/2025.06.16.659877 — bioinformatics — Posted on 2025-06-21

1755 Nanofluid-Enhanced Laser Lithotripsy Using Conducting Polymer Nanoparticles

Fan, Q.; Chen, J.; Mishra, A.; Stewart, A.; Anees, F.; Dominguez, J.; Chen, T.-H.; Payne, C.; Lipkin, M.; Zhong, P.; Hsu, P.-C.

10.1101/2024.06.01.596977 — bioengineering — Posted on 2025-06-21

1756 Robust-tedana: An automated denoising pipeline for multi-echo fMRI data

Tahayori, B.; Smith, R. E.; Vaughan, D. N.; Tailby, C.; Handwerker, D. A.; Pierre, E. Y.; Jackson, G. D.; Abbott, D. F.

10.1101/2025.06.16.660050 — bioengineering — Posted on 2025-06-21

1757 Biocompatible PVDF Nanofibers with Embedded Magnetite Nanodiscs Enable Wireless Magnetoelectric Neuromodulation

Signorelli, L.; Wolters, A.; Duran Toro, V.; Kocar, E.; Wasner, F.; Goldenstein, N. I.; Englhard, J.; Shojaei Baghini, M.; Heidari, H.; Bachmann, J.; Hescham, S. A.; Gregurec, D.

10.1101/2025.06.16.660052 — bioengineering — Posted on 2025-06-21

1758 Identification of High Blanchability Donors, Candidate genes and Markers in Groundnut

Shah, P.; Gangurde, S. S.; Senthil, R.; Singh, K.; Singam, P.; Janila, P.; Mayes, S.; Pandey, M. K.

10.1101/2025.06.18.660288 — genomics — Posted on 2025-06-21

1759 The evolution of allostery in a protein family

Marti-Aranda, A.; Lehner, B.

10.1101/2025.06.20.660748 — genomics — Posted on 2025-06-21

1760 Modeling Epithelial Morphogenesis and Cell Rearrangement during Zebrafish Epiboly: Tissue Deformation, Cell-Cell Coupling, and the Mechanical Response to Stress

Minsuk, S. B.; Sego, T. J.; Umulis, D. M.; Mullins, M. C.; Glazier, J. A.

10.1101/2025.02.12.637977 — developmental biology — Posted on 2025-06-21

1761 Interoceptive training enhances emotional awareness and body image perception: evidence from improved heartbeat detection and psychological outcomes

Rusinova, A.; Aksiotis, V.; Potapkina, E.; Kozhanova, E.; Akimov, V.; Ossadtchi, A.; Volodina, M.

10.1101/2025.06.16.659873 — physiology — Posted on 2025-06-21

1762 Label-Free Targeted High Efficiency Electroporation with Single-Cell Feedback Control Using Focused Microscale Electric Fields

Rudge, J.; Rallapalli, Y.; Hoyle, M.; Sarkar, A.

10.1101/2025.06.16.659916 — bioengineering — Posted on 2025-06-21

1763 Impacts of sea level rise on an endemic butterfly and its freshwater wetland habitat in the Florida Keys

Cabrera, S. R. S.; Sarabia, R.; Henry, E. H.; Anderson, C. T.; Daniels, J. C.

10.1101/2025.06.16.659612 — ecology — Posted on 2025-06-21

1764 Single cell transcriptomics in a treatment-segregated cohort exposes a STAT3-regulated therapeutic gap in idiopathic pulmonary fibrosis

McKenna, N.; Ochsner, S. A.; Cohen, A. W.; Cala-Garcia, J.; Echartea, M. E.; Grimm, S. L.; Poli, F.; Castillo, R. C.; Zuluaga, J. D.; Poli, S.; Adams, T. S.; Pineda, R.; Moss, B.; Ryter, S.; Pillich, R. T.; Villalba, J.; Kato, K.; Hecker, L.; Celada, L. J.; Sauler, M.; Koenigshoff, M.; Kaminski, N.; Raby, B.; Agarwal, S. K.; Tsoyi, K.; Coarfa, C.; Rosas, I.

10.1101/2025.06.16.659944 — cell biology — Posted on 2025-06-21

1765 A systems biology approach to evaluate potential probioticcandidates for womens vaginal health

Glass, E. M.; Kolling, G. L.; Papin, J. A.

10.1101/2025.06.16.659967 — systems biology — Posted on 2025-06-21

1766 Larval environment reshapes mosquito disease risk via phenotypic and molecular plasticity

Chandrasegaran, K.; Walker, M.; Marano, J. M.; Rami, S.; Bisese, A.; Weger-Lucarelli, J.; Lahondere, C.; Robert, M. A.; Childs, L. M.; Vinauger, C.

10.1101/2025.06.16.659972 — physiology — Posted on 2025-06-21

1767 Super-resolution microscopy reveals distinct epigenetic states regulated by estrogen receptor activity

Akhshi, T.; Hu, S. S.; Wheeler, E.; Hellriegel, C.; Richardson, D. S.; Cayting, N.; Mvula, W.; Ahmed, B.; Jeselsohn, R.; Zang, C.; Brown, M.

10.1101/2025.06.16.659976 — cancer biology — Posted on 2025-06-21

1768 Spatial proteomics of the human atherosclerotic microenvironment reveals heterogeneity in intra-plaque proteomes and extracellular matrix remodeling

Jokumsen, K. V.; Lorentzen, L. G.; Yeung, K.; Resch, T. A.; Eiberg, J. P.; Davies, M. J.; Gamon, L. F.

10.1101/2025.06.13.659602 — biochemistry — Posted on 2025-06-21

1769 Molecular characterisation of neurons across animals identifies conserved gene expression.

Rivera-Rivera, C. J.; Feuda, R.; Pisani, D.

10.1101/2025.06.04.657789 — evolutionary biology — Posted on 2025-06-21

1770 Patterned embryonic invagination evolved in response to mechanical instability

Vellutini, B. C.; Cuenca, M. B.; Krishna, A.; Szałapak, A.; Modes, C. D.; Tomancak, P.

10.1101/2023.03.30.534554 — developmental biology — Posted on 2025-06-21

1771 Killer Toxin K28 resistance in yeast relies on COG complex mediated trafficking of the defence factor Ktd1

Laidlaw, K.; Nadir, H.; Milburn, A.; Cruz, M.; Stanislovas, J.; Droop, A.; MacDonald, S.; Andreev, I.; Leech, A.; Ungar, D.; Sadhu, M. J.; MacDonald, C.

10.1101/2024.12.20.629825 — cell biology — Posted on 2025-06-21

1772 Plasmodium falciparum DNA repair dynamics reveal unique roles for TLS polymerases and PfRad51 in genome diversification

Vishwanatha, A.; Zhang, X.; Liu, Y. J.; Leung, A.; Herring, M.; Chan, A.; Calhoun, S.; Deitsch, K. W.; Kirkman, L.

10.1101/2025.04.07.647301 — microbiology — Posted on 2025-06-21

1773 Nociceptor Neurons Control Pollution-Mediated Neutrophilic Asthma

Wang, J.-C.; Kulle, A.; Crosson, T.; Reza Nikpoor, A.; Gupta, S.; Roger, A.; Rafei, M.; Thanabalasuriar, A.; Talbot, S.

10.1101/2024.08.22.609202 — immunology — Posted on 2025-06-21

1774 Prevalence of Heartwater in Guadeloupe (2024): Stable endemicity and Evidence of Spread to Les Saintes

Dufleit, V.; Guerrini, L.; Dhune, M.; Viry, L.; Belfort, A.; Jacquet-Cretides, L.; Deddy, J.; Cozier, J.; Naves, M.; Arthein, L.; Sammut, T.; Pezeron, M.; Rodrigues, V.; MEYER, D. F.; Etter, E.

10.1101/2025.06.11.659135 — immunology — Posted on 2025-06-21

1775 The serotonin 1B receptor is required for some of the behavioral effects of psilocybin in mice

Fleury, S.; Nautiyal, K. M.

10.1101/2024.10.18.618582 — neuroscience — Posted on 2025-06-21

1776 Parameterization of intraoperative human microelectroderecordings: Linking action potential morphology to brainanatomy

Baker, M. R.; Klassen, B. T.; Jensen, M.; Valencia, G. O.; Heydari, H.; Ince, N. F.; Muller, K. R.; Miller, K. J.

10.1101/2025.01.20.633934 — neuroscience — Posted on 2025-06-21

1777 Local Adaptive Mapping of Karyotype Fitness Landscapes

Beck, R. J.; Andor, N.

10.1101/2023.07.14.549079 — cancer biology — Posted on 2025-06-21

1778 Droplet growth, Ostwald's rule, and emergence of order in Fused in Sarcoma

Maksudov, F.; Mugnai, M.; Dominguez, L.; Makarov, D.; Thirumalai, D.

10.1101/2025.05.11.653346 — biophysics — Posted on 2025-06-21

1779 Membrane wetting by biomolecular condensates is facilitated by mobile tethers

GrandPre, T.; Yu, Q.; Pyo, A. G. T.; Kosmrlj, A.; Wingreen, N. S.

10.1101/2024.12.04.626804 — biophysics — Posted on 2025-06-21

1780 OLIVE Provides Rapid Visualization and Analysis of Chromatin Tracing Experiments

Zhou, Y.; Sheng, Y.; Hu, D.; Jay, A.; Vahedi, G.; Faryabi, R. B.

10.1101/2025.06.18.660347 — bioinformatics — Posted on 2025-06-21

1781 Cell type-specific functions of nucleic acid-binding proteins revealed by deep learning on co-expression networks

Osato, N.; Sato, K.

10.1101/2025.03.03.641203 — bioinformatics — Posted on 2025-06-21

1782 Limitations of acyclovir and identification of potent HSV antivirals using 3D bioprinted human skin equivalents

Ellison, S. T.; Hayman, I.; Derr, K.; Derr, P.; Frebert, S.; Itkin, Z.; Shen, M.; Jones, A.; Olson, W.; Corey, L.; Wald, A.; Johnston, C. M.; Fong, Y.; Ferrer, M.; Zhu, J.

10.1101/2024.12.04.626896 — bioengineering — Posted on 2025-06-21

1783 Free energies of the Gln tautomerization and rotation mechanism of dark-state recovery in blue light-using flavin proteins

Perez de Alba Ortiz, A.; Rovira, C.; Ensing, B.

10.1101/2023.08.11.551373 — biochemistry — Posted on 2025-06-21

1784 An HIV-1 Reference Epitranscriptome

Bosmeny, M. S.; Pater, A. A.; Zhang, L.; Larkai, L.; Sha, B. E.; Lyu, Z.; Damha, M. J.; Mamede, J. I.; Gagnon, K. T.

10.1101/2025.01.30.635805 — genomics — Posted on 2025-06-21

1785 Substrate-specific regulation of the mTORC1 pathway by G protein-coupled receptors

Atkinson, S. J.; Negoita, F.; Ritchie, W. V.; Thompson, K.; Sakamoto, K.; Thompson, D.; Hislop, J. N.; Hatakeyama, R.

10.1101/2024.09.18.613687 — cell biology — Posted on 2025-06-21

1786 Physiological febrile heat stress increases cytoadhesion through increased protein trafficking of Plasmodium falciparum surface proteins into the red blood cell

Jones, D.; Belda, H.; Broncel, M.; Fuchs, G.; Anaguano, D.; Nofal, S. D.; Treeck, M.

10.1101/2025.05.14.653932 — cell biology — Posted on 2025-06-21

1787 Bitesize bundles F-actin and influences actin remodeling in syncytial Drosophila embryo development

Yeh, A. R.; Hoeprich, G. J.; McDougal, A.; Goode, B. L.; Martin, A. C.

10.1101/2023.04.17.537198 — cell biology — Posted on 2025-06-21

1788 Polyamines regulate cell fate by altering the activity of histone-modifying enzymes

Emmons-Bell, M.; Sundquist, A.; Rabon, M. R.; Forsyth, G.; Oldeman, S.; Ayyappan, S.; Gardikioti, A.; de Souza, R.; Coene, J.; Kamel, M.; Fuchs, H. A.; Sudunagunta, V. S.; Stewart, E. M.; Verhelst, S.; Smeeton, J.; Viny, A. D.; Musselman, C. A.; Schvartzman, J. M.

10.1101/2024.07.02.600738 — cell biology — Posted on 2025-06-21

1789 The actin module of endocytic internalization in Aspergillus nidulans: a critical role of the WISH/DIP/SPIN90 family protein Dip1

Delgado, M.; Pinar, M.; Polonio, P.; Fandino, S.; Espeso, E. A.; Penalva, M. A.

10.1101/2025.02.13.638025 — cell biology — Posted on 2025-06-21

1790 Microtubule stiffening by doublecortin-domain protein ZYG-8 contributes to spindle orientation during C. elegans zygote division

Cueff, L.; Huet, E.; Schmitt, L.; Pastezeur, S.; Coquil, M.; Savary, T.; Pecreaux, J.; Bouvrais, H.

10.1101/2024.11.29.624795 — cell biology — Posted on 2025-06-21

1791 Long noncoding RNA HSCHARME is altered in human cardiomyopathies and promotes stem cell-derived cardiomyocyte differentiation by splicing regulation.

Buonaiuto, G.; Desideri, F.; Setti, A.; Palma, A.; D'Angelo, A.; Storari, G.; Santini, T.; Laneve, P.; Trisciuoglio, D.; Ballarino, M.

10.1101/2024.11.06.622297 — molecular biology — Posted on 2025-06-21

1792 Whole Virion Proteomics of HCMV Reveals that gpUL141 is a Virion Component that Regulates Envelope Glycoprotein Composition to Protect Against Humoral Immunity

Bentley, K.; Statkute, E.; Murrell, I.; Fielding, C.; Antrobus, R.; Preston, H.; Kerr, L.; Cochrane, D.; Brizic, I.; Lehner, P. J.; Wilkinson, G. W.; Wang, E. C. Y.; Graham, S. C.; Weekes, M. P.; Stanton, R. J.

10.1101/2024.11.29.626001 — microbiology — Posted on 2025-06-21

1793 Structural basis for antibody cross-neutralization of Dengue and Zika viruses

Hurlburt, N. K.; Lubow, J.; Goo, L.; Pancera, M.

10.1101/2025.06.05.658091 — immunology — Posted on 2025-06-21

1794 Assessing the robustness of deep learning based brain age prediction models across multiple EEG datasets

Tveitstoel, T.; Tveter, M.; Hatlestad-Hall, C.; Hammer, H. L.; Engemann, D.; Haraldsen, I.

10.1101/2025.05.20.655022 — neuroscience — Posted on 2025-06-21

1795 When Meaning Matters Most: Rethinking Cloze Probability in N400 Research

Arkhipova, Y.; Lopopolo, A.; Vasishth, S.; Rabovsky, M.

10.1101/2025.04.29.651301 — neuroscience — Posted on 2025-06-21

1796 A Unique Role for the Hippocampus in Cue Integration During Human Spatial Navigation

Wei, Z.; Wolbers, T.; Chen, X.

10.1101/2025.05.14.654008 — neuroscience — Posted on 2025-06-21

1797 Exact linear theory of perturbation response in a space- and feature-dependent cortical circuit model

Chau, H. Y.; Miller, K. D.; Palmigiano, A.

10.1101/2024.12.27.630558 — neuroscience — Posted on 2025-06-21

1798 Preparatory attentional templates in prefrontal and sensory cortex encode target-associated information

Zhou, Z.; Geng, J. J.

10.1101/2024.07.01.601634 — neuroscience — Posted on 2025-06-21

1799 Dissecting origins of wiring specificity in dense reconstructions of neural tissue

Harth, P.; Udvary, D.; Boelts, J.; Macke, J. H.; Baum, D.; Hege, H.-C.; Oberlaender, M.

10.1101/2024.12.14.628490 — neuroscience — Posted on 2025-06-21

1800 Structured stabilization in recurrent neural circuits through inhibitory synaptic plasticity

Festa, D.; Cusseddu, C.; Gjorgjieva, J.

10.1101/2024.10.12.618014 — neuroscience — Posted on 2025-06-21

1801 Beyond Letters: Optimal Transport as a Model for Sub-Letter Orthographic Processing

Taylor, J. E.; Sinn, R.; Iaia, C.; Fiebach, C. J.

10.1101/2024.11.11.622929 — neuroscience — Posted on 2025-06-21

1802 Two time scales of adaptation in human learning rates

Simoens, J.; Braem, S.; Verbeke, P.; Chen, H.; Mattioni, S.; Chai, M.; Schuck, N. W.; Verguts, T.

10.1101/2025.06.05.658048 — neuroscience — Posted on 2025-06-21

1803 Modulation of habenula axon terminals supports action-outcome associations in larval zebrafish

Paoli, E.; Palieri, V.; Shenoy, A.; Portugues, R.

10.1101/2025.02.13.638047 — neuroscience — Posted on 2025-06-21

1804 Personalized whole-brain Ising models with heterogeneous nodes capture differences among brain regions

Craig, A. G.; Chen, S.; Tang, Q.-Y.; Zhou, C.

10.1101/2025.06.09.658769 — neuroscience — Posted on 2025-06-21

1805 Tamarixia citricola Hansson and Guerrieri sp. nov. (Hymenoptera: Eulophidae): a new parasitoid of Diaphorina citri Kuwayamava (Hemiptera: Psyllidae) found during a classical biological control program in Cyprus

Urbaneja, A.; Perez-Hedo, M.; Seraphides, N.; Melifronidou- Pantelidou, A.; Giallouridou, S.; Markou, L.; Stavrinides, M.; Kaponas, C.; Ruiz-Rivero, O.; Morgan, D. J. W.; Hansson, C.; Hoddle, M. S.; Tena, A.; Guerrieri, E.

10.1101/2025.06.16.660002 — zoology — Posted on 2025-06-21

1806 Orco regulates the circadian activity of pheromone-sensitive olfactory receptor neurons in hawkmoths

Vijayan, A.; Forlino, M.; Chang, Y.; Rojas, P.; Schroeder, K.; Schneider, A. C.; Garcia, M. E.; Stengl, M.

10.1101/2025.06.17.659282 — physiology — Posted on 2025-06-21

1807 Prediction of Aggregation Prone Regions in Proteins Using Deep Neural Networks and Their Suppression by Computational Design

Cima, V.; Kunka, A.; Planas-Iglesias, J.; Grakova, E.; Havlasek, M.; Subramanian, M.; Beloch, M.; Marek, M.; Slaninova, K.; Damborsky, J.; Prokop, Z.; Bednar, D.; Martinovic, J.

10.1101/2024.03.06.583680 — bioinformatics — Posted on 2025-06-21

1808 The Impact of Exogenous Mutagens on Human Mitochondrial DNA Ploidy: Analysis of Changes and Possible Protective Mechanisms.

Van Leiden, N.; Potapova, N.; Ree, N.

10.1101/2025.05.09.648561 — bioinformatics — Posted on 2025-06-21

1809 Alveolar epithelial cell plasticity and injury memory in human pulmonary fibrosis

Adams, T. S.; Schupp, J. C.; Balayev, A.; Khoury, J.; Justet, A.; Nikola, F.; Laurens, D. S. J.; Garcia, J. C.; Zapata-Ortega, M.; Panayiotis, B. V.; McDonough, J. E.; Ahangari, F.; Koenigshoff, M.; Ding, J.; Homer, R. J.; Rosas, I. O.; Yan, X.; Vanaudenaerde, B. M.; Wuyts, W. A.; Kaminski, N.

10.1101/2025.06.10.658504 — cell biology — Posted on 2025-06-21

1810 Advancing Ligand Binding Affinity Prediction with Cartesian Tensor-Based Deep Learning

Yu, J.; Sheng, X.; Fan, Z.; Wang, Z.; Cao, D.; Hao, Y.; Zhang, Y.; Shao, P.; Ma, H.; Cao, T.; rao, J.; Chen, M.; Chen, K.; Li, X.; Teng, D.; Luo, X.; Wang, M.; Zhang, S.; Zheng, M.

10.1101/2025.06.04.657800 — molecular biology — Posted on 2025-06-21

1811 Cortical markers of PAS-induced long-term potentiation and depression in the motor system: A TMS-EEG Registered Report

Arrigoni, E.; Bolognini, N.; Pisoni, A.; Guidali, G.

10.1101/2025.04.03.647045 — neuroscience — Posted on 2025-06-21

1812 FcεR1γ-based Activating Chimeric Antigen Receptors enhanced Natural Killer cell function against HLA-E+ cells

Lanier, L.; Greenland, J. R.; Momburg, F.; Calabrese, D. R.; Shemesh, A.

10.1101/2025.06.16.659984 — immunology — Posted on 2025-06-20

1813 Cellulase secretion by engineered Pseudomonas putida enables growth on cellulose oligomers.

Smith, M. R.; Moffitt, K.; Holdsworth, W.; Luna-Flores, C. H.; Goyal, M.; Beliaev, A.; Speight, R. E.; Behrendorff, J. B.

10.1101/2025.06.19.659671 — synthetic biology — Posted on 2025-06-20

1814 ProtoBind-Diff: A Structure-Free Diffusion Language Model for Protein Sequence-Conditioned Ligand Design

Mistryukova, L.; Manuilov, V.; Avchaciov, K.; Fedichev, P. O.

10.1101/2025.06.16.659955 — biophysics — Posted on 2025-06-20

1815 Substrate stiffness modulates phenotype-dependent fibroblast contractility and migration independent of TGF-β stimulation

D'Urso, M.; van den Bersselaar, P.; Pragnere, S.; Maiuri, P.; Bouten, C. C. V.; Kurniawan, N. A.

10.1101/2025.06.16.659915 — biophysics — Posted on 2025-06-20

1816 Tree bark as a substrate for mycelium-bound composites with two Ganoderma species

Felle, T. K.; Estenfelder, J.; Wenig, C.; Berendt, F.; Eder, M.; Cheng, T.; Benz, J. P.

10.1101/2025.06.16.659851 — bioengineering — Posted on 2025-06-20

1817 Novel mechanistic insights for catalytic bioluminescence of mammalian Gaussia Luciferase through mutant and ancestral analysis

Borum, R. M.; Lanzillotti, M.; Sahasrabuddhe, A.; Hui, J.; Xie, V.; Ferbas, J.

10.1101/2025.06.16.659893 — biochemistry — Posted on 2025-06-20

1818 Differential DNA methylation in blood in nuclear genes that encode mitochondrial proteins in mild cognitive impairment and Alzheimers disease

Boruch, A. E.; Madrid, A.; Papale, L. A.; Bergmann, P. E.; Renteria, I. S.; Faasen, S.; Cook, D. B.; Alisch, R. S.; Hogan, K. J.

10.1101/2025.06.16.659556 — genomics — Posted on 2025-06-20

1819 A Comprehensive Analysis of Atlantic Salmon Gonad and Pituitary Transcriptomes Identifies Novel Players in Sexual Maturation

Huang, X.-D.; Frapin, M.; Ahi, E. P.; Primmer, C. R.; Verta, J.-P.

10.1101/2025.06.16.659895 — genetics — Posted on 2025-06-20

1820 Cytokine-induced memory-like responses in endothelial cells link chronic inflammation to vascular disease risk

Le, K. T. T.; Keur, N.; Middelkamp, H.; Do, T. L.; Berg, A. v. d.; Orlova, V.; Joosten, L. A.; Netea, M.; Wijmenga, C.; Jonkers, I.; Withoff, S.; Meer, A. V. d.; Kumar, V.

10.1101/2025.06.16.659872 — molecular biology — Posted on 2025-06-20

1821 Metabolic and genomic adaptations of Salmonella Typhimurium grown on itaconate

Pierscianowski, J.; Diaconescu-Grabari, S.; Chowdhury, F. R.; Lupien, A.; Findlay, B. L.; Auclair, K.

10.1101/2025.06.20.660670 — microbiology — Posted on 2025-06-20

1822 Glial cells promote infection by neurotropic Influenza A viruses in vitro

Rieke, N.; Rohde, M.; Kaeune, M.; Gabele, L.; Muesken, M.; Michaelsen-Preusse, K.; Hosseini, S.; Korte, M.; Sieben, C.

10.1101/2025.06.20.660606 — microbiology — Posted on 2025-06-20

1823 Establishing Conserved Biosynthetic Gene Clusters of the Phylum Myxococcota

Khanal Pokharel, S.; Shehata, N.; Ahearne, A.; Knehans, T.; Bailey, C. B.; Boudreau, P. D.; Stevens, D. C.

10.1101/2025.06.19.660557 — microbiology — Posted on 2025-06-20

1824 A Structural Atlas of TAP Inhibition by Herpesviruses and Poxviruses

Lee, J.; Manon, V.; Chen, J.

10.1101/2025.06.19.660632 — biophysics — Posted on 2025-06-20

1825 PAH-former: Transfer Learning for Efficient Discovery of Pulmonary Arterial Hypertension-Associated Genes

Kawakami, T.; Hosokawa, S.; Masamichi, I.; Kurozumi, A.; Tanaka, R.; Minatsuki, S.; ishida, J.; Isagawa, T.; Kodera, S.; Takeda, N.

10.1101/2025.06.16.660027 — bioinformatics — Posted on 2025-06-20

1826 Lipid nanoemulsion incorporating DOTAP reverse micelles as clinically translatable carriers of ALDH inhibitors for lung cancer therapy

Irujo, M.; Poussereau, L.; Ezziani, M.; Joubertt, C.; Prunier, C.; Vollaire, J.; Josserand, V.; Sarazin, C.; Fenel, D.; Zarkadas, E.; Perez, M.; Texier, I.; Gaudin, A.

10.1101/2025.06.16.659868 — bioengineering — Posted on 2025-06-20

1827 Structures of a lipin/Pah phosphatidic acid phosphatase in distinct catalytic states reveal a signature motif for substrate recognition

Vitkovska, T.; Welcome, F. S.; Khayyo, V. I.; Gao, S.; Wymore, T.; Airola, M. V.

10.1101/2025.06.16.660012 — biochemistry — Posted on 2025-06-20

1828 Structure guided significance testing correction for hydrogen deuterium exchange mass spectrometry

Crook, O.

10.1101/2025.06.16.659914 — biochemistry — Posted on 2025-06-20

1829 Dynamic assembly of malate dehydrogenase-citrate synthase multienzyme complex in the mitochondria

Omini, J.; Krassovskaya, I.; Dele-Osibanjo, T.; Pedersen, C.; Obata, T.

10.1101/2025.06.16.659985 — biochemistry — Posted on 2025-06-20

1830 Control of 3' Splice Site Selection in S. cerevisiae by a Highly Conserved Amino Acid within the Prp8 α-finger Domain

Liu, Y.; Paulson, J. C.; Hoskins, A. A.

10.1101/2025.06.16.659908 — biochemistry — Posted on 2025-06-20

1831 Bacteriophage-Mimetic DNA Origami Needle for Targeted Membrane Penetration and Cytosolic Cargo Delivery

Samanta, A.; Malle, M. G.; Tsang, E.; Omer, M.; Skaanning, M. K.; Kjems, J.; Gothelf, K. V.

10.1101/2025.06.16.659898 — biochemistry — Posted on 2025-06-20

1832 Almost Free Enhancement of Multi-Population PRS: From Data-Fission to Pseudo-GWAS Subsampling

Xu, L.; Dong, Y.; Zeng, X.; Bian, Z.; Zhou, G.; Guan, L.; Zhao, H.

10.1101/2025.06.16.659952 — genetics — Posted on 2025-06-20

1833 UAV-based Remote Sensing of Bee Nesting Aggregations with Computer Vision for Object Detection

Mueller, T. G.; Buckner, M. A.

10.1101/2025.06.16.659683 — ecology — Posted on 2025-06-20

1834 Spleen-derived Small Extracellular Vesicles Protect against Myocardial Infarction via Mediating Spleen-heart Crosstalk

Liu, K.; Luo, Y.; Liao, W.; Chen, R.; Chen, T.; Huang, H.; Xu, J.; Fang, F.; Lin, D.; Gu, T.; Chen, Q.; Yang, B. B.; Chen, W.; Zhang, L.

10.1101/2025.06.16.660039 — molecular biology — Posted on 2025-06-20

1835 Stony coral tissue loss disease (SCTLD) destabilizes the coral microbiome

Nandi, S.; Stephens, T. G.; Walsh, K.; Garcia, R.; Villalpando, M. F.; Sellares-Blasco, R. I.; Zubillaga, A. L.; Croquer, A.; Bhattacharya, D.

10.1101/2025.06.19.660612 — microbiology — Posted on 2025-06-20

1836 Discovery of orally bioavailable Zika and West Nile Virus antiviral compounds targeting the NS2B-NS3 protease

Kenton, N. T.; Barr, H.; Cherepakha, A.; Coelmont, L.; Collard, C.; Cousins, D.; Davies, G. H. M.; Degtyarenko, O.; Dirksen, A.; Elbrecht, D.; Fearon, D.; Gayvert, J.; Griffen, E.; Jochmans, D.; Kaptein, S.; Kliatskiy, P.; Kochetkov, A.; Kordubailo, M.; Lahav, N.; London, N.; Maas, E.; Marples, P.; Nady, N.; Neyts, J.; Nguyen, L.; Ni, X.; Ogorodnik, Y.; Robinson, M. C.; Simpson, C. T.; Tarabara, I.; Tkachenko, A.; von Delft, A.; von Delft, F.; Yakymenko, O.; Lee, A. A.

10.1101/2025.06.19.660642 — microbiology — Posted on 2025-06-20

1837 New Histone H4 variant and H2B variant Exhibits Distinct Genomic Locations, Chromatin Affinities, and Dynamics Throughout Life Cycle and Cell Cycle of Trypanosoma cruzi

Roson, J. N.; Loterio Silva, M.; Silva, H. G.; Rodrigues, T.; Silva, N. S. d. L.; Gachet-Castro, C.; Costa-Silva, H. M.; Viala, V. L.; Shenkman, S.; Elias, M. C.; da Cunha, J. P. C.

10.1101/2025.06.20.660671 — microbiology — Posted on 2025-06-20

1838 Seasonal dynamics and thermal vulnerability of marine microbial communities in Uruguayan coastal waters

Pereira, E.; Zanetti, J. A.; Griffero, L.; Martinez, A.; Amann, R.; Alonso, M. C.

10.1101/2025.06.19.660397 — microbiology — Posted on 2025-06-20

1839 Pectobacterium sinaloense sp. nov., a novel phytopathogenic species isolated from potato plants in Mexico

Valdez-Lopez, J. L.; Palafox-Leal, N. L.; Santos-Lopez, G.; Fantino, E. I.; Kukavica, I.; Levesque, R. C.; Mendez-Lozano, J.; Mora-Zamudio, C. I.; Rodriguez-Negrete, E. A.; Santos-Cervantes, M. E.; Leyva-Lopez, N. E.; Perez-Lopez, E.

10.1101/2025.06.20.660644 — microbiology — Posted on 2025-06-20

1840 Pp6-Pfkfb1 axis modulates intracellular bacterial proliferation by orchestrating host-pathogen metabolic crosstalk

Fan, L.; Sun, Y.; Lou, F.; Fang, Z.; Ding, W.; Li, X.; Li, Y.; Shen, Q.; Deng, S.; Liang, J.; Zhang, F.; Tang, S.; Wang, Z.; Cai, X.; Tong, J.; Xu, Z.; Zou, J.; Yang, Q.; Wang, H.

10.1101/2025.06.20.660667 — microbiology — Posted on 2025-06-20

1841 Klebsiella pneumoniae remodels its Kdo2-lipid A in a TLR4-dependent manner to adapt to the macrophage intracellular environment

Bartholomew, T. L.; sa=Pessoa, J.; Lancaster, R.; Zhang, N.; Wojtania-O'Farrell, K.; Hancock, S. J.; Mills, G.; Kissenpfennig, A.; Bengoechea, J.

10.1101/2025.06.20.660740 — microbiology — Posted on 2025-06-20

1842 An open source MALDI-TOF mass spectrometry database for the identification of North American tick species of medical and veterinary importance.

Daniel, I.; Holley, A.; Hays, S.; Teel, P. D.; Tchifteyan, T.; Verocai, G. G.; Laroche, M.

10.1101/2025.06.19.660628 — microbiology — Posted on 2025-06-20

1843 Emetine dihydrochloride inhibits Chikungunya virus nsP2 helicase and shows antiviral activity in the cell culture and mouse model of virus infection

Sharma, A.; Subramani, C.; KA, S.; Sharma, G.; Basu, B.; Pandey, A. D.; Rout, A.; Sharma, D.; Jain, D.; Vrati, S.

10.1101/2025.06.20.660672 — microbiology — Posted on 2025-06-20

1844 Complete cross strain protection against congenital cytomegalovirus infection requires a vaccine encoding key antibody (gB) and T-cell (immediate early 1 protein) viral antigens

Choi, K. Y.; Qin, Y.; El-Hamdi, N.; McGregor, A.

10.1101/2025.06.18.660432 — immunology — Posted on 2025-06-20

1845 Transient Dietary Changes Modulate Inflammatory Disease Trajectory in the Lean State

Jiang, Z.; Tayeri, J. M.; Tabuchi, C.; Gayer, S. G.; Yoo, A.; Sun, I.-H.; Wang, J.; Yin, H.; Chuah, S. S.; Deshpande, P.; Johri, V.; Davidson, B.; Tsui, J.; Kuhn, N. F.; Courau, T.; Combes, A. J.; Gardner, J. M.; Bapat, S. P.

10.1101/2025.06.15.659784 — immunology — Posted on 2025-06-20

1846 Level Up the Brain! Novel PCA Method Reveals Key Neuroplastic Refinements in Action Video Gamers

Cahill, K.; Dhamala, M.

10.1101/2025.06.16.660043 — neuroscience — Posted on 2025-06-20

1847 Gene expression profile dynamics of earthworms exposed to ZnO and ZnO:Mn nanomaterials

van Lingen, H. J.; Ke, C.; Saccenti, E.; Lada, Z. G.; Baccaro, M.; van den Brink, N. W.; Suarez-Diez, M.

10.1101/2025.06.16.660036 — systems biology — Posted on 2025-06-20

1848 Mind the Gap: An Embedding Guide to Safely Travel in Sequence Space

Wu, A.; Trolliet, Q.; Rajendran, A.; Lala, J.; Angioletti-Uberti, S.

10.1101/2025.06.19.660524 — synthetic biology — Posted on 2025-06-20

1849 Temporal gene regulation enables controlled expression of gas vesicles and preserves bacterial viability

Li, Z.; Jeong, S.; Lu, G. J.

10.1101/2025.06.20.660610 — synthetic biology — Posted on 2025-06-20

1850 Distribution and Effect of Echium Plantagineum L. on Floral Species Diversity in the Dejen District, Northern Ethiopia

Tamiria, G. K.; Meteko, K. B.

10.1101/2025.06.16.660053 — plant biology — Posted on 2025-06-20

1851 Evaluating the Safety of Intravenous Injection of Nitric Oxide, Magnesium, and Hydrogen Nano Bubble Solution in Sprague Dawley Rats

Novrial, D.; Inayati, N. S.; Gumilas, N. S. A.; Kurniawan, D. W.; Sumitro, S. B.

10.1101/2025.06.16.659826 — pharmacology and toxicology — Posted on 2025-06-20

1852 BiGER: Bayesian Rank Aggregation in Genomics with Extended Ranking Schemes

Wang, K.; Yang, Y.; Xia, Y.; Xiao, G.; Lim, J.; Wang, X.

10.1101/2025.06.17.660022 — genomics — Posted on 2025-06-20

1853 Uncovering the Pathophysiological Pattern of Expression from Integrated Analysis across Uniformly Processed RNA Sequencing COVID-19 Datasets

Cole, A.; Fukuda, B.; Dahlstrom, T. J.; Hung, L.-H.; Yeung, K. Y.

10.1101/2025.06.18.660454 — genomics — Posted on 2025-06-20

1854 Satb1 integrates cohesin mediated genome organization and transcriptional regulation during T cell development

Madhok, A.; Patta, I.; Desai, I.; Tayyab, M.; Choudhary, V.; Vishwakarma, S.; Saha, S.; Lahesmaa, R.; Narlikar, G.; Galande, S.

10.1101/2025.06.19.657327 — immunology — Posted on 2025-06-20

1855 Prenatal anti-oxidant treatment suppresses maternal immune activation induced increases in alcohol self-administration in a sex-specific manner

Nicholson, S.; Hewitt, K.; Brauen, C.; Henricks, A. M.

10.1101/2025.06.16.660024 — pharmacology and toxicology — Posted on 2025-06-20

1856 Epigenetic Subtypes of High-Grade T1 Bladder Cancer Reveal Intra-Tumor Heterogeneity and Distinct Interactions with Tumor Microenvironment.

Bellmunt, J.; Xie, Y.; Juanpere, N.; Munoz, M.; Kukreja, S.; Liria, S.; Li, R.; Qiu, X.; Jiang, Y.; Font-Tello, A.; Nunez, M.; Epstein, I.; Hernandez, S.; Lorenzo, M.; Menendez, S.; Choueiri, T. K.; Brown, M. C.; LONG, H. W.; Cejas, P.

10.1101/2025.06.20.659124 — cancer biology — Posted on 2025-06-20

1857 NKX2-5 congenital heart disease mutations show diverse loss and gain of epigenomic, biochemical and chromatin search functions underpinning pathogenicity

Ward, A. O.; Schonrock, N.; McCann, A. J.; Phanor, S. K.; Kock, K. H.; Kurland, J. V.; Wu, F.; Murray, N. J.; Walshe, J.; Alankarage, D.; Dunwoodie, S. L.; Meunier, F. A.; Francois, M.; Bulyk, M. L.; Ramialison, M.; Harvey, R. P.

10.1101/2025.06.20.659510 — genomics — Posted on 2025-06-20

1858 Host mRNA 3'-end processing machinery are critical binding partners during dengue virus infection

Tan, M. J. A.; Mohamed Naim, A. N.; Lim, Y. T.; Sobota, R. M.; Hibberd, M. L.; Vasudevan, S. G.

10.1101/2025.06.20.659860 — microbiology — Posted on 2025-06-20

1859 Early disruption of the innate-adaptive immune axis in vivo after infection with virulent Georgia2007/1 ASFV

Tng, P. Y.; Al-Adwani, L.; Goatley, L. C.; Portugal, R.; Rathakrishnan, A.; Netherton, C. L.

10.1101/2025.06.18.660190 — immunology — Posted on 2025-06-20

1860 Behavioral Signature of Trihexyphenidyl in The Tor1a (DYT1) Knockin Mouse Model of Dystonia

Qader, A. A.; Donsante, Y.; Markowitz, J. E.; Jinnah, H. A.; Pandarinath, C.; Hess, E. J.

10.1101/2025.06.17.659360 — neuroscience — Posted on 2025-06-20

1861 Exogenous Hormone Treatments Reveal Species-Specific Regulation of Individual Components of Root Architecture and Salt Ion Accumulation in Cultivated and Wild Tomatoes

Rahmati-Ishka, M.; Craft, E.; Pineros, M.; Julkowska, M. M.

10.1101/2025.06.17.660158 — plant biology — Posted on 2025-06-20

1862 The equilibrium between two quaternary assembly states determines the activity of SPOP and its cancer mutants

Cuneo, M. J.; Güllülü, O.; Ammar, M.-R.; Gui, X.; Churion, K.; Turk, M.; O'Flynn, B.; Sabri, N.; Mittag, T.

10.1101/2025.06.19.659812 — biophysics — Posted on 2025-06-20

1863 Membrane-bound cargo carried by teams of motors with heterogeneous velocities go faster and further than rigid cargo

Sarpangala, N.; Gopinathan, A.

10.1101/2025.06.17.660035 — biophysics — Posted on 2025-06-20

1864 Monotherapy cancer drug-blind response prediction is limited to intraclass generalization

Herbert, W.; Chia, N.; Jensen, P. A.; Walther-Antonio, M. R.

10.1101/2025.06.16.659838 — bioinformatics — Posted on 2025-06-20

1865 Frequency-Blended Diffusion Models for Synthetic Generation of Biologically Realistic Splice Site Sequences

Kabanga, E.; Jee, S.; Van Messem, A.; De Neve, W.

10.1101/2025.06.16.660047 — bioinformatics — Posted on 2025-06-20

1866 Comparative study of manganese catalase monomers, interfaces and cage architecture within the ferritin superfamily

Amrita, A.; Chakraborti, S.; Dey, S.

10.1101/2025.06.17.660058 — bioinformatics — Posted on 2025-06-20

1867 Versatile Vasculature Chips for Ultrasound Localization Microscopy

Wang, R.; Liu, Q.; Zhao, X.; Lee, W.-N.

10.1101/2025.06.15.659747 — bioengineering — Posted on 2025-06-20

1868 Expanded gene targeting in RNA hacking with G-tract-supply Staple oligomer

Kida, T.; Hasegawa, Y.; Kato, M.; Ohtani, M.; Matsumoto, A.; Taniguchi, R.; Ohno, R.; Sugiyama, H.; Ihara, T.; Hagihara, M.; Sato, S.-i.; Katsuda, Y.

10.1101/2025.06.17.660051 — bioengineering — Posted on 2025-06-20

1869 Feedback regulation of iron-sulfur cluster biogenesis

Stuteley, S. M.; Chen, J.; Wang, J.; Dawes, S. S.; Baker, E. N.; Squire, C. J.; Pandelia, M.-E.; Bashiri, G.

10.1101/2025.06.15.659787 — biochemistry — Posted on 2025-06-20

1870 Large-scale discovery and annotation of hidden substructure patterns in mass spectrometry profiles

Torres Ortega, L. R.; Dietrich, J.; Wandy, J.; Mol, H.; van der Hooft, J. J. J.

10.1101/2025.06.19.659491 — biochemistry — Posted on 2025-06-20

1871 Accurate prediction of gene deletion phenotypes with Flux Cone Learning

Merzbacher, C.; Mac Aodha, O.; Oyarzun, D. A.

10.1101/2025.06.15.659788 — systems biology — Posted on 2025-06-20

1872 Metabolomic Profiling of Ashwagandha (Withania somnifera): Linking Bioactive Compounds to Functional Therapeutic Roles

Tripathi, G.; Bindal, V.; Yadav, M.; Sharma, N.; Pandey, S.; Mathew, B.; Sharma, N.; Yadav, S.; Sharma, V.; Sharma, S.; Sarin, S. K.; Maras, J. S.

10.1101/2025.06.16.659832 — pharmacology and toxicology — Posted on 2025-06-20

1873 Photocrosslinked mucoadhesive hyaluronic acid hydrogel for transmucosal drug delivery

Asamoah, S.; Pravda, M.; Snejdrova, E.; Cepa, M.; Jiri, M.; Gruber-Traub, C.; Velebny, V.

10.1101/2025.06.14.659729 — pharmacology and toxicology — Posted on 2025-06-20

1874 Acute exposure to groundwater contaminants mixture of nitrate, atrazine and imidacloprid impacts growth kinetics of poultry cecal microbiomes and significantly decreases Caco-2 cell viability

Majumder, E. L.- W.; Chatman, C. C.

10.1101/2025.06.15.659797 — pharmacology and toxicology — Posted on 2025-06-20

1875 Monomeric and oligomeric forms of Bcl-xL in direct andindirect inhibition of apoptosis

Elsner, C.; Roderer, D.; Bordignon, E.

10.1101/2025.06.16.659449 — biophysics — Posted on 2025-06-20

1876 Regulation Flow Analysis discovers molecular mechanisms of action from large knowledge databases

Roca, C. P.; Sysoev, O.; Eyre, E.; Galan, S.; Sinibaldi, D.; Tedder, P.; Mangion, J.

10.1101/2025.06.15.659785 — bioinformatics — Posted on 2025-06-20

1877 Accelerating k-mer-based sequence filtering

Martayan, I.; Vandamme, L.; Constantinides, B.; Cazaux, B.; Paperman, C.; Limasset, A.

10.1101/2025.06.16.659853 — bioinformatics — Posted on 2025-06-20

1878 How F repeats help in peptide binding with VIM-2 metallo-beta-lactamase and destabilizing the enzyme

Anand, A. A.; Anwar, S.; Mondal, R. K.; Samanta, S. K.

10.1101/2025.06.15.659760 — bioinformatics — Posted on 2025-06-20

1879 Development and Characterization of 3D Printable Caprine derived dECM/DAS Crosslinked Hydrogels for Tissue Engineering Applications

Thirumalai, D.; Kundanati, L.

10.1101/2025.06.16.659462 — bioengineering — Posted on 2025-06-20

1880 Investigating the dynamics of precursor availability for sesquiterpenoid production in the cytoplasm and plastid of Chlamydomonas reinhardtii

Abdallah, M. N.; Wellman, G. B.; Overmans, S.; Lauersen, K. J.

10.1101/2025.06.15.659761 — bioengineering — Posted on 2025-06-20

1881 Single-Cell Spatial Mapping of Human Kidney Development Reveals the Critical Role of the Local Microenvironment in Cell Fate Decisions

Levinsohn, J.; Grindel, S.; Dumoulin, B.; Abedini, A.; Huang, A.; Levin-Klein, R.; Weicz, B.; Rabinowitz, G.; Bergeson, A. M.; Ha, E.; Klotzer, K. A.; Zhang, N.; Titchenell, P.; Li, M.; Park, J.-S.; Finn, L. S.; Sasaki, K.; Beckerman, P.; Pleniceanu, O.; Hughes, A. J.; Susztak, K.

10.1101/2025.06.15.659579 — genomics — Posted on 2025-06-20

1882 The forecasted mean of 80 percent of wild populations and communities shows no change, and why

Bozzuto, C.; Ives, A. R.

10.1101/2025.06.13.659576 — ecology — Posted on 2025-06-20

1883 A continuous-time microparasite model incorporating infection intensity and parasite aggregation

Sun, R.; Walsman, J. C.; Wilber, M.; Briggs, C. J.

10.1101/2025.06.15.659604 — ecology — Posted on 2025-06-20

1884 LiaS-dependent activation of the MadR regulon enables cross-talk between Enterococcus faecalis cell envelope defense systems

Hood, K. S.; Rizvi, S. A.; Hoppe-Elsholz, G. A.; Streling, A. P.; Panesso, D.; Pratap, S.; Shamoo, Y.; Arias, C. A.; Miller, W. R.

10.1101/2025.06.19.660511 — microbiology — Posted on 2025-06-20

1885 Human myelocyte and metamyelocyte-stage neutrophils suppress tumor immunity and promote cancer progression

Liu, W.; Shi, T.; Lu, C.; Che, K.; Zhang, Z.; Luo, Y.; Hirschhorn, D.; Wang, H.; Liu, S.; Wang, Y.; Liu, S.; Sun, H.; Lu, J.; Liu, Y.; Shi, D.; Ding, S.; Xu, H.; Lu, L.; Xu, J.; Jun, X.; Liang, Y.; Merghoub, T.; Jia, W.; Li, Y.

10.1101/2025.06.14.659663 — immunology — Posted on 2025-06-20

1886 Muscle control of an extra robotic digit

Russ, J. P.; Dowdall, L.; Cenciarelli, F.; Goodridge, K.; Ziman, M.; Dimitrov, H.; Clode, D.; Makin, T. R.

10.1101/2025.06.18.658087 — neuroscience — Posted on 2025-06-20

1887 A Human Tumor-Immune Organoid Model of Glioblastoma

Baisiwala, S.; Fazzari, E.; Li, M. X.; Martija, A.; Azizad, D. J.; Sun, L.; Herrera, G.; Phan, T.; Monteleone, A.; Nathanson, D. A.; Wang, A. C.; Kim, W.; Everson, R. G.; Patel, K. S.; Liau, L. M.; Prins, R. M.; Bhaduri, A.

10.1101/2025.06.16.660009 — cancer biology — Posted on 2025-06-20

1888 Metastatic niche mediated activation of metastasis initiating cells in ovarian cancer through miR-193b-3p downregulation via the ERK/EZH2/DNMT1 axis

Dasari, S.; Wang, J.; Cheng, F.; Melissa Halprin, M.; Pepin, D.; Yang-Hartwich, Y.; Mitra, A. K.

10.1101/2025.06.17.660246 — cancer biology — Posted on 2025-06-20

1889 Multiphase separation in postsynaptic density regulated by membrane geometry via interaction valency and volume

Yamada, R.; Brandani, G. B.; Takada, S.

10.1101/2025.02.19.638939 — biophysics — Posted on 2025-06-20

1890 QCatch: A framework for quality control assessment and analysis of single-cell sequencing data

Gao, Y.; He, D.; Patro, R.

10.1101/2025.06.15.659779 — bioinformatics — Posted on 2025-06-20

1891 Geometric morphometric analysis of facial sexual dimorphism in a contemporary sample : An application to sex prediction of ancient human remains

Legros, J.; Borde, P.; Savall, F.; Dedouit, F.; Crubezy, E.; Telmon, N.

10.1101/2025.06.17.660135 — evolutionary biology — Posted on 2025-06-20

1892 Cis-regulation of gene expression between sexes and life stages in Rumex hastatulus

Yuan, M.; Sacchi, B. M.; Choudhury, B. I.; Barrett, S. C. H.; Stinchcombe, J. R.; Wright, S. I.

10.1101/2025.06.16.659834 — evolutionary biology — Posted on 2025-06-20

1893 Metabolite correlation networks reveal complex phenotypes of adaptation-driving mutations

Samuel, S.; Jasinska, W.; Sternlicht, E.; Nikelshparg, M.; Kleiner, D.; Pilosof, S.; Bershtein, S.

10.1101/2025.06.17.660120 — evolutionary biology — Posted on 2025-06-20

1894 MiTo: tracing the phenotypic evolution of somatic cell lineages via mitochondrial single-cell multi-omics

Cossa, A.; Dalmasso, A.; Campani, G.; Bugani, E.; Caprioli, C.; Bulla, N.; Tirelli, A.; Zhan, Y.; Pelicci, P. G.

10.1101/2025.06.17.660165 — bioinformatics — Posted on 2025-06-20

1895 Predicting the Evolutionary and Functional Landscapes of Viruses with a Unified Nucleotide-Protein Language Model: LucaVirus

Pan, Y.-F.; He, Y.; Liu, Y.-Q.; Shan, Y.-T.; Liu, S.-N.; Liu, X.; Pan, X.; Bai, Y.; Xu, Z.; Wang, Z.; Ye, J.; Holmes, E. C.; Li, B.; Chen, Y.-Q.; Li, Z.-R.; Shi, M.

10.1101/2025.06.14.659722 — bioinformatics — Posted on 2025-06-20

1896 Phylogenetic meta-analysis implicates large brains and our unusual posture in human handedness

Püschel, T. A.; Hurwitz, R. M.; Venditti, C.

10.1101/2025.06.17.660131 — evolutionary biology — Posted on 2025-06-20

1897 Genetic variation in host selectivity and adaptive strain enrichment within legume-rhizobia symbiosis: processes are host-dependent, far from perfect, and correlate with nodule morphology

Burghardt, L. T.; Sydow, P.; Sutherland, J.; Epstein, B.; Tiffin, P.

10.1101/2025.06.16.659998 — evolutionary biology — Posted on 2025-06-20

1898 Loss of immune signalling pathways and increased pathogen susceptibility associated to photosymbiosis in acoels

Pinton, F.; Rimskaya-Korsakova, N.; Felbel, K.; Grimmer, E.; Hejnol, A.

10.1101/2025.06.17.660074 — evolutionary biology — Posted on 2025-06-20

1899 A chromosomal inversion accumulates adaptive and barrier loci in a cold-adapted insect species

Poikela, N.; Hoikkala, V.; Ritchie, M. G.; Kankare, M.

10.1101/2025.06.16.659880 — evolutionary biology — Posted on 2025-06-20

1900 Variation in response to water availability across Phlox species

Steinecke, C.; Tabin, J. A.; Caven, J.; Hale, C. O.; Serrato-Capuchina, A.; Hopkins, R.

10.1101/2025.06.17.660163 — evolutionary biology — Posted on 2025-06-20

1901 Extensive horizontal transfer of transposable elements shape fungal mobilomes

Romeijn, J.; Belaunde, I. B.; Seidl, M. F.

10.1101/2025.06.16.659975 — evolutionary biology — Posted on 2025-06-20

1902 THE HARD AND SOFT OF IT: THE ROLE OF SUBSTRATE IN PATTERNS OF PHASE DOMINANCE AND PHENOLOGY IN GRACILARIA VERMICULOPHYLLA

Krueger-Hadfield, S. A.; Oetterer, A.; Kelley, D.; Ryan, W.

10.1101/2025.06.17.660238 — evolutionary biology — Posted on 2025-06-20

1903 Simple 3D-Printed Stirred Bioreactor Enhances Retinal Organoid Production Via Improved Oxygenation

Schwab, K.; Hwang, P.; Nam, K.; Batz, Z.; Hiriyanna, S.; Regent, F.; Morgan, N.; Lelkes, P.; Li, T.

10.1101/2025.06.13.659558 — bioengineering — Posted on 2025-06-20

1904 Evaporation and Focus Degradation Mitigation in In-Incubator Live Cell Imaging for Capacitance Lab-on-CMOS Microsystem Calibration

Gilpin, Y.; Lin, C.-Y.; Dandin, M. P.

10.1101/2025.06.14.659688 — bioengineering — Posted on 2025-06-20

1905 Induction of meningioma stem signature via hydrogel reprogramming and application of meningioma stem cell marker CXCR4 to pathological diagnosis and treatment.

Oda, Y.; Tsuda, M.; Wang, L.; Suzuka, J.; Yuzawa, S.; Ise, K.; Habiba, U.; He, J.; Tanikawa, S.; Sugino, H.; Tanei, Z.-i.; Mawrin, C.; Gong, J. P.; Tanaka, S.

10.1101/2025.06.14.659672 — bioengineering — Posted on 2025-06-20

1906 Dynamic but constrained: Repeated acquisitions of nutritional symbionts in bed bugs (Heteroptera: Cimicidae) from a narrow taxonomic pool.

Hypsa, V.; Martinu, J.; Mahmood, S.; Gupta, S.; Novakova, E.; Balvin, O.

10.1101/2025.06.13.659472 — evolutionary biology — Posted on 2025-06-20

1907 Resilience in zebrafish embryoids

Joavnic, S.; Eckert, J.; Savy, T.; Peyrieras, N.

10.1101/2025.06.18.660370 — developmental biology — Posted on 2025-06-20

1908 Specific GPCRs Elicit Unique Extracellular Vesicle MiRNA Array Signatures: An Exploratory Study

Shi, X.; Palumbo, M. C.; Benware, S.; Wiedrick, J.; Markwardt, S.; Janowsky, A. J.

10.1101/2025.06.16.659918 — cell biology — Posted on 2025-06-20

1909 Pseudovirus-Mediated Proximity Labeling Identifies Candidate Host Cell Membrane Proteins Involved in Viral Attachment

Kotani, N.; Iwasa, K.; Amimoto, T.; Yamashita, C.; Komatsu, K.; Narimichi, Y.; Wakabayashi, Y.; Kurebayashi, Y.; Horiuchi, Y.; Kashimata, R.; Sasaki, R.; Kumagai, M.; Yagishita-Kyo, N.; Awaji, T.; Murakami, T.; Mizuno, Y.; Nakano, M.; Takahashi, T.; Takeuchi, H.; Honke, K.

10.1101/2025.06.18.660084 — microbiology — Posted on 2025-06-20

1910 Potential beneficial effects of PD-1/PD-L1 blockade in Alzheimer's disease: A systematic review and meta-analysis of preclinical and clinical studies

Yoon, J.; Ha, H.; Lee, H. W.; Kim, S.; Yu, Y. M.; Chun, H.

10.1101/2025.06.18.660247 — neuroscience — Posted on 2025-06-20

1911 Integrative Gene Co-expression Network Analysis Reveals Protein-Coding and lncRNA Genes Associated with Alzheimer's Disease Pathology

Zebardast, F.; Riethmueller, M. P. S.; Nowick, K.

10.1101/2025.01.19.633755 — neuroscience — Posted on 2025-06-20

1912 Tau-seed interactome analysis reveals distinct functional signatures in Alzheimer's disease across model systems.

Martinez, P.; Patel, H.; You, Y.; Lopes, D.; Amaro, A.; Jury-Garfe, N.; Min, Y.; Redding-Ochoa, J.; Dutta, S.; Rochet, C.; Ertekin-Taner, N.; Troncoso, J.; Lasagna-Reeves, C. A.

10.1101/2025.06.17.660179 — neuroscience — Posted on 2025-06-20

1913 Application of Unmanned Aircraft Systems (UASs) for Disease Assessment and High Throughput Field Phenotyping of Plant Breeding Trials

Anberbir, T.; Bankole, F.; Mamo, G.; Blasch, G.; Dabi, A.

10.1101/2025.06.16.659708 — bioinformatics — Posted on 2025-06-20

1914 OLIVE Provides Rapid Visualization and Analysis of Chromatin Tracing Experiments

Faryabi, R. B.; Zhou, Y.; Sheng, Y.; Hu, D.; Jay, A.; Vahedi, G.

10.1101/2025.06.18.660347 — bioinformatics — Posted on 2025-06-20

1915 Foundation Model Attributions Reveal Shared Inflammatory Program Across Diseases

Gold, M. P.; Reyes, M.; Diamant, N.; Kuo, T.; Hajiramezanali, E.; Newburger, J. W.; Son, M. B. F.; Lee, P. Y.; Scalia, G.; BenTaieb, A.; Kapadia, S. B.; Tripathi, A.; Corrada Bravo, H.; Heimberg, G.; Biancalani, T.

10.1101/2025.06.14.659567 — bioinformatics — Posted on 2025-06-20

1916 Integrated Microfluidic Platform for High-Throughput Generation of Intestinal Organoids in Hydrogel Droplets

Lavickova, B.; Kronabitter, H. T.; Cervera-Negueruela, M.; Ceylan, E.; Benito-Zarza, L.; Cubela, I.; Lopez-Sandoval, R.; Camp, G.; Garcia-Cordero, J. L.

10.1101/2025.06.14.659486 — bioengineering — Posted on 2025-06-20

1917 Identification of High Blanchability Donors, Candidate genes and Markers in Groundnut

Shah, P.; Gangurde, S. S.; Senthil, R.; Singh, K.; Singham, P.; Pasupuleti, J.; Mayes, S.; Pandey, M. K.

10.1101/2025.06.18.660288 — genomics — Posted on 2025-06-20

1918 CDKN1A (p21Cip/Waf1) stabilizes Cyclin D3 by inhibiting its phosphorylation-dependent nuclear export following butyrate treatment

Ghrib, M. A.; Dayhoff, G. W.; Chahtour, C.; Rodrigues-Machado, C.; Youssef, A.; Schillaci, G.; Gautreau, G.; Henry, C.; Uversky, V. N.; Rigolet, P.; Blottiere, H. M.; Lelievre, J.-M.

10.1101/2025.06.19.660543 — cell biology — Posted on 2025-06-20

1919 Comparative Transcriptomics Reveals Inflammatory and Epigenetic Programs that Actively Orchestrate Pineal Brain Sand Calcification

Vazquez Ramos, G. J. A.

10.1101/2025.06.16.660032 — neuroscience — Posted on 2025-06-20

1920 Alginate Oligosaccharides (from DP2 to DP9) Differentially Modulate Phytohormone Levels in Botrytis cinerea-Infected Wheat

Zhang, Z.; Wang, X.; Chi, Y.

10.1101/2025.06.18.660292 — plant biology — Posted on 2025-06-20

1921 Perceptual clustering in auditory streaming

Larigaldie, N.; Yates, T.; Beierholm, U. R.

10.1101/2021.05.27.446050 — neuroscience — Posted on 2025-06-20

1922 How Varenicline Works: Identifying Critical Receptor and Ligand-based Interactions

Aiken, S. G.; Fiorito, D.; Harper, M.; Pikus, G.; Underhill, J.; Murray, J.; Rawlinson, J.; O'Donoghue, A. C.; Gotti, C.; Lummis, S.; Minguez Vinas, T.; Viscarra, F.; Bermudez, I.; Gallagher, T.; Oliveira, A. S. F.

10.1101/2025.06.14.659675 — pharmacology and toxicology — Posted on 2025-06-20

1923 Grb7 is dispensable for Erbb2-driven mouse mammary tumorigenesis

Lofgren, K. A.; Feiszt, P.; Kenny, P. A.

10.1101/2025.06.15.659799 — cancer biology — Posted on 2025-06-20

1924 Fluoro-forest: A random forest workflow for cell type annotation in high-dimensional immunofluorescence imaging

Brand, J.; Zhang, W.; Carchman, E.; Dinh, H. Q.

10.1101/2025.06.13.659547 — bioinformatics — Posted on 2025-06-20

1925 Squidly: Enzyme Catalytic Residue Prediction Harnessing a Biology-Informed Contrastive Learning Framework

Rieger, W. J.; Boden, M.; Arnold, F. H.; Mora, A.

10.1101/2025.06.13.659624 — bioinformatics — Posted on 2025-06-20

1926 Born to Scratch: Towards Cutaneous Microtrauma in Newborns as a Driver of Immune Imprinting

Tozzi, A.

10.1101/2025.06.14.659676 — immunology — Posted on 2025-06-20

1927 Rethinking Representation Complexity in Drug-Target Prediction via Supervised Vector Quantization

Chen, J.; Zhang, Y.-z.; Lu, L.; Wu, M.; Chen, Z.; Imoto, S.; Li, C.

10.1101/2025.06.13.659523 — bioinformatics — Posted on 2025-06-20

1928 Gene Symphony: Two-Layered Musification of Gene Expression Clusters with Functional Backgrounds

Goutham, B.; Narayanan, M.

10.1101/2025.06.13.659566 — bioinformatics — Posted on 2025-06-20

1929 Accelerating Drug Repurposing with AI: The Role of Large Language Models in Hypothesis Validation

Zunzunegui Sanz, I.; Otero-Carrasco, B.; Rodriguez-Gonzalez, A.

10.1101/2025.06.13.659527 — bioinformatics — Posted on 2025-06-20

1930 OmicsSankey: Crossing Reduction of Sankey Diagram on Omics Data

Li, S.; Tan, B.; Ouyang, S.; Ling, Z.; Huo, M.; Shen, T.; WANG, j.; Feng, X.

10.1101/2025.06.13.659656 — bioinformatics — Posted on 2025-06-20

1931 PLAID: ultrafast single-sample gene set enrichment scoring

Zito, A.; Escriba-Montagut, X.; Scorici, G.; Martinelli, A.; Akhmedov, M.; Kwee, I.

10.1101/2025.06.14.659661 — bioinformatics — Posted on 2025-06-20

1932 YAP signaling promotes resistance to MEK and AKT inhibition in NF1-related MPNSTs

McGee, L. E.; Grit, J. L.; Essenburg, C. J.; Agrusa, S.; Turner, L.; Becker, K.; Dey, A.; Klomp, J. E.; Klomp, J. A.; Adams, M.; Beddows, I.; Wolfrum, E.; Fu, D.; Hirbe, A. C.; Graveel, C. R.; Steensma, M. R.

10.1101/2025.06.16.659334 — cancer biology — Posted on 2025-06-20

1933 Gastric cancer treatment target identified from an accelerated Helicobacter-induced gastric cancer mouse model

Kurstjens, E. M.; Cox, K.; Bali, P.; Amirfakhri, S.; Hernandez, J.; Lozano-Pope, I.; Benner, C.; Bouvet, M.; Obonyo, M.

10.1101/2025.06.14.659641 — cancer biology — Posted on 2025-06-20

1934 De novo proteins integrate cellular systems using ancient protein targeting and degradation pathways

Houghton, C. J.; Castilho Coelho, N.; Chiang, A.; Hedayati, S.; Parikh, S. B.; Ozbaki-Yagan, N.; Wacholder, A.; Iannotta, J.; Berger, A.; Wohlever, M. L.; Carvunis, A.-R.; O'Donnell, A. F.

10.1101/2024.08.28.610198 — evolutionary biology — Posted on 2025-06-20

1935 Global analysis of cancer cell responses to USP9X inhibition

Schenk, P.; Devine, S. M.; Cobbold, S. A.; Ang, C.-S.; Geoghegan, N. D.; Calleja, D. J.; Multari, D. H.; Vaibhav, V.; Lu, B. G. C.; Klemm, T. A.; Dagley, L. F.; Lowes, K. N.; Williamson, N.; Eichhorn, P. J. A.; Ng, A. P.; Feltham, R.; Komander, D.

10.1101/2025.06.18.660475 — cell biology — Posted on 2025-06-20

1936 Cell barcoding with tandem fluorescent proteins enables high-throughput signaling dynamics analysis

Wu, J.-W.; Yang, J.-M.; Wang, S.; Chen, Y.; Huang, C.-H.

10.1101/2025.06.17.660155 — cell biology — Posted on 2025-06-20

1937 Heme drives cardiac endothelial senescence in sepsis via STING activation

Li, T.; Zhu, P.; Zhang, T.; Adams, J.; Tu, F.; Garbe, C.; Zhang, X.; Liu, L.; Singh, K.; Williams, D.; Li, C.; Wang, X.

10.1101/2025.06.18.660159 — cell biology — Posted on 2025-06-20

1938 Intrinsically Disordered Regions Form Nucleoli and Cajal Bodies While Fostering RNA Modification

Meznad, K.; Deogharia, M.; Wacheul, L.; Zorbas, C.; Lafontaine, D. L.; Meier, U. T.

10.1101/2025.06.18.660405 — cell biology — Posted on 2025-06-20

1939 Phosphorylation-Coupled Autoregulation Maintains Functional ER Exit Sites

Maeda, M.; Arakawa, M.; Wakabayashi, M.; Komatsu, Y.; Saito, K.

10.1101/2025.06.18.660491 — cell biology — Posted on 2025-06-20

1940 Trailer Hitch coordinates P-body organization and facilitates transcript-specific mRNA regulation through nuclear actin-mediated feedback loop

Milano, S. N.; Bayer, L. V.; Ko, J.; Posner, G. S.; Casella, C. E.; Bratu, D.

10.1101/2025.06.18.660414 — cell biology — Posted on 2025-06-20

1941 Mind Captioning: Evolving descriptive text of mental content from human brain activity

Horikawa, T.

10.1101/2024.04.23.590673 — neuroscience — Posted on 2025-06-20

1942 Chromatin remodeling with combined FACT and BET inhibition disrupts oncogenic transcription in Diffuse Midline Glioma

Holliday, H.; Khan, A.; Ehteda, A.; Nguyen, H.; Ross, S. E.; Jayatilleke, N.; Gopalakrishnan, A.; Wang, E.; Colino Sanguino, Y.; Kavanagh, D.; Guo, X.; Liu, J.; Lawrence, D.; Sun, C. X.; Lehmann, R.; Ip, C. K.; Lee, A.; Rangel-Sanchez, L.; Li, W.; Salomon, R.; Firestein, R.; Weatheritt, R. J.; Valdes-Mora, F.; Dinger, M. E.; Phoenix, T. N.; Mayoh, C.; Rayner, B. S.; Tsoli, M.; Ziegler, D. S.

10.1101/2024.06.06.597703 — cancer biology — Posted on 2025-06-20

1943 Reprogramming of Cellular Plasticity via ETS and MYC Core-regulatory Circuits During Response to MAPK Inhibition in BRAF-mutant Colorectal Cancer

Lee, H. M.; Zheng, Z.; Sorokin, A.; Wong, C. W.; Napolitano, S.; Chowdhury, S.; Kanikarla, P. M.; Singh, A. K.; Kochat, V.; Bristow, C. A.; Srinivasan, S.; Peoples, M.; Arslan, E.; Alshenaifi, J. Y.; Villarreal, O. E.; Morris, V. K.; Shen, J. P.; Meric-Bernstam, F.; Jain, A. K.; Fowlkes, N. W.; Anderson, A.; Menter, D. G.; Saw, A. K.; Rai, K.; Kopetz, S.

10.1101/2025.06.15.659716 — cancer biology — Posted on 2025-06-20

1944 Mechanisms of resistance to VHL loss-induced genetic and pharmacological vulnerabilities

Ge, J.; Hirosue, S.; Patel, S. A.; Wesolowski, L.; Dyas, A.; Yong, C.; Castillon, L.; de Haan, S.; Drost, J.; Stewart, G. D.; Obenauf, A.; Munoz-Espin, D.; Vanharanta, S.

10.1101/2025.06.14.659649 — cancer biology — Posted on 2025-06-20

1945 Bioinformatics classification of the MgtE Mg2+ channel and de novo protein design for the stabilization of its novel subclass

Zhao, Z.; Omae, K.; Iwasaki, W.; Zhang, Z.; Pan, F.; Lee, E.-J.; Hattori, M.

10.1101/2025.05.26.656215 — biophysics — Posted on 2025-06-20

1946 Multimodal Validation of the Existence of Transitional Cerebellar Progenitors in the Human Fetal Cerebellum

Luo, Z.; Xia, M.; Zhang, F.; Xin, D.; Rao, R.; Kiang, K.; Berry, K.; Xiong, Y.; Liu, H.; Lin, Y.; Hu, M.; Xin, M.; Ma, J.; Li, H.; Taylor, M. D.; Zhou, W.; Lu, Q. R.

10.1101/2025.06.01.657310 — developmental biology — Posted on 2025-06-20

1947 Biome-specific genome catalogues reveal functional potential of shallow sequencing

Escobar-Zepeda, A.; Ruuskanen, M. O.; Beracochea, M.; Lu, J.; Mongad, D.; Richardson, L.; Finn, R. D.; Lahti, L.

10.1101/2025.06.16.659887 — bioinformatics — Posted on 2025-06-20

1948 MFPLI: A Computational Framework for Assessing Biological Authenticity of Protein-Ligand Interactions Using Molecular Fingerprints and Structural Features

Zhang, H.; Zheng, J.; Li, H.; Wan, S.; Guan, G.; Li, B.; Liu, L.; He, W.

10.1101/2025.06.19.659858 — molecular biology — Posted on 2025-06-19

1949 CPT1B-Mediated Fatty Acid Oxidation Induces Pigmentation in Solar Lentigo

Choi, Y.; Nam, U.; Kim, J.; Yoon, S.-Y.; Lee, N.; Cho, H.; Kim, S.; Yu, S.; Kim, J.; Moon, H.-N.; Lew, B.-L.; Lee, Y.; Kim, M. S.; Kwon, S.-H.

10.1101/2025.06.15.659823 — systems biology — Posted on 2025-06-19

1950 Development of a Nested Association Mapping (NAM) population for untangling complex traits in lentil (Lens culinaris Medik.)

Neupane, S.; Stonehouse, R.; Ramsay, L.; Baker, M.; Haile, T.; Konkin, D. J.; Sidebottom, C.; Bett, K.

10.1101/2025.06.17.660011 — plant biology — Posted on 2025-06-19

1951 Safeguarding evolutionary history in a biodiversity hotspot: downscaling the EDGE metric to a regional application

Ramos-Gutierrez, I.; Pipins, S.; Molina-Venegas, R.; Fernandez-Mazuecos, M.; Mejias, P. J.; Moreno-Saiz, J. C.; Forest, F.

10.1101/2025.06.16.659859 — plant biology — Posted on 2025-06-19

1952 APOE4 drives widespread changes to the hepatic proteome and alters metabolic function

Lysaker, C.; Johnson, C.; Csikos, V.; Franczak, E.; Benson, M.; Thyfault, J.; Geiger, P.; Morris, J.; Wilkins, H.

10.1101/2025.06.15.659815 — physiology — Posted on 2025-06-19

1953 Circadian disruption beneath the surface: a screening approach to identify actigraphy-based markers of split shift work in submariners

Marques, D.; Fernandes, C.; Barbosa-Morais, N. L.; Reis, C.

10.1101/2025.06.16.659930 — bioinformatics — Posted on 2025-06-19

1954 Exploring Mycobacterium tuberculosis rRNA Transcriptomic Signatures asResponse to Anti-TB Treatment in Whole Blood RNA-seq Data

Lopez-Exposito, P.; Calvet Seral, J.; Ferrer, S.; Mendoza-Losana, A.; M. Gordaliza, P.; Vaquero, J. J.

10.1101/2025.06.16.659901 — bioinformatics — Posted on 2025-06-19

1955 Small uncultured viral-like entities redraw the origin of viruses and cellular compartments

Aguilar, A.; Miranda, I.; Nadel, O.; Nayfach, S.; Segall, A.; Rohwer, F.; Roux, S.; White, S.; Luque, A.

10.1101/2025.06.18.659913 — bioinformatics — Posted on 2025-06-19

1956 Evolutionary chemical learning in dimerization networks

Tkachenko, A. V.; Mognetti, B. M.; Maslov, S.

10.1101/2025.06.16.660005 — bioengineering — Posted on 2025-06-19

1957 A miniaturized, high-throughput buffer-centric method for protein solubility screening

Svoboda, A.; Molineris, M.; Pluskal, T.; Hebra, T.

10.1101/2025.06.16.659941 — biochemistry — Posted on 2025-06-19

1958 Signatures of selection and mechanisms of insecticide resistance in Ugandan Anopheles funestus: Insights from embedding translational genomics into the LLINEUP cluster randomised trial.

Kayondo, L. N.; Nagi, S. C.; Njoroge, H.; Hernandez-Koutoucheva, A.; McDermott, D. P.; Gonahasa, S.; Lynd, A. R.; Oruni, A.; Sebuguzi, C. M.; Opigo, J.; Yeka, A.; Katureebe, A.; Kyohere, M.; Kamya, M.; Dorsey, G.; Hemingway, J.; Staedke, S. G.; Sam, N.; Nankabirwa, J.; Kayondo, J.; Clarkson, C. S.; Miles, A.; Lawniczak, M. K. N.; Lucas, E. R.; Donnelly, M. J.

10.1101/2025.06.17.659961 — genomics — Posted on 2025-06-19

1959 Coral genetic structure in the Western Indian Ocean mirrors ocean circulation and thermal stress

Guillaume, A. S.; Joost, S.; Curpen, S.; Dumur Neelayya, D.; Harree-Somah, L.; Sadasing, O.; Saponari, L.; Dale, C.; Barret, L.; Andrews, N.; Poretti, M.; Berteaux-Lecellier, V.; Lecellier, G.; Selmoni, O.

10.1101/2025.06.16.659828 — evolutionary biology — Posted on 2025-06-19

1960 The evolution of gene regulatory programs controlling gonadal development in primates

Trost, N.; Fallahshahroudi, A.; Sarropoulos, I.; Schneider, C.; Schmidt, J.; Mbengue, N.; Wolff, E.; Drummer, C.; Frömel, R.; Lisgo, S.; Murat, F.; Sepp, M.; Cardoso-Moreira, M.; Behr, R.; Kaessmann, H.

10.1101/2025.06.17.659946 — evolutionary biology — Posted on 2025-06-19

1961 Redox robustness drives LPMO evolution

Ayuso-Fernandez, I.; Emrich-Mills, T. Z.; Golten, O.; Forsberg, Z.; Hall, K. R.; Nagy, L. G.; Sorlie, M.; Rohr, A. K.; Eijsink, V. G. H.

10.1101/2025.06.16.659879 — evolutionary biology — Posted on 2025-06-19

1962 scoup: Simulate Codon Sequences with Darwinian Selection Incorporated as an Ornstein-Uhlenbeck Process

Sadiq, H.; Martin, D. P.

10.1101/2025.06.14.659628 — evolutionary biology — Posted on 2025-06-19

1963 Fast or slow - light climate modulates intra-population sinking velocities in small phytoplankton

Berthold, M.; Campbell, D. A.; Vortmeyer-Kley, R.

10.1101/2025.06.13.659648 — ecology — Posted on 2025-06-19

1964 Plant sexual and asexual contributions to the seed microbiome

Faticov, M.; Tack, A. J. M.; Ortner, D.; Berg, G.; Abdelfattah, A.

10.1101/2025.06.16.659819 — ecology — Posted on 2025-06-19

1965 Gradual ontogenetic shifts in the mobility and space use of long-lived migratory greater flamingos

Lopez-Ricaurte, L.; Vansteelant, W. M. G.; Antoine, A.; Duriez, O.; Jiguet, F.; Nissardi, S.; Scridel, D.; Serra, L.; Tillo, S.; Bechet, A.; Champagnon, J.

10.1101/2025.06.16.659883 — ecology — Posted on 2025-06-19

1966 Predators at the Viral Gate: Multi-Species Foraging at a Marburg Virus Reservoir

Atukwatse, B.; Cornille, O.; Muhereza, J.; Nsabimana, W.; Ssemakula, Y.; Braczkowski, A. A.

10.1101/2025.06.16.659814 — ecology — Posted on 2025-06-19

1967 Excretory-secretory products from the parasite Schistocephalus solidus enhance viability and function of threespine stickleback splenocytes

Collias, A.; Cary, A.; Steinel, N. C.

10.1101/2025.06.16.659396 — immunology — Posted on 2025-06-19

1968 Classifying Resting State Connectivity: Lag-One Autocorrelation and Pattern Differentiability

Ding, Y.

10.1101/2025.06.17.659817 — neuroscience — Posted on 2025-06-19

1969 Stochasticity in mammalian cell growth rates drives cell-to-cell variability independently of cell size and divisions

Levien, E.; Kang, J. H.; Biswas, K.; Manalis, S. R.; Amir, A.; Miettinen, T. P.

10.1101/2025.06.18.659700 — systems biology — Posted on 2025-06-19

1970 Metabolite-based genome-wide association studies enable the dissection of the genetic bases of bioactive compounds in Chickpea seeds

Ruan, S.; Rocchetti, L.; Bitocch, E.; Wendenburg, R.; Santamarina, C.; Di Vittori, V.; Istanbuli, T.; Hamwieh, A.; Fernie, A. R.; Papa, R.; Alseekh, S.

10.1101/2025.06.16.659862 — plant biology — Posted on 2025-06-19

1971 An Integrative Approach to Develop and Characterise Antibodies Against the Cancer Associated Antigen Sialyl Lewis A (CA 19-9)

Freitag, A.; Khilji, S. K.; Nedielkov, R.; Kumar, S. M.; Krummhaar, M.; Arndt, J.; Moreira, G. S. G.; Luehle, J.; Goerdeler, F.; Kamphues, C.; Roth, C.; Mroginski, M.-A.; Seeberger, P.; Moeller, H. M.; Moscovitz, O.

10.1101/2025.06.15.659274 — cancer biology — Posted on 2025-06-19

1972 FastGA: Fast Genome Alignment

Myers, E. W.; Durbin, R.; Zhou, C.

10.1101/2025.06.15.659750 — bioinformatics — Posted on 2025-06-19

1973 PathoEye: a deep learning framework for the whole-slide image analysis of skin tissue

Lin, Y.; Lin, F.; Zhang, Y.; Wen, J.; Li, G.; Zeng, X.; Sun, H.; Jiang, H.; Yan, T.; Xue, R.; Sun, H.; Yang, B.; Zhou, J.

10.1101/2025.06.16.659818 — bioinformatics — Posted on 2025-06-19

1974 Predicting Spatial Transcriptomics from H&E Image by Pretrained Contrastive Alignment Learning

Zou, J.; Xiao, K.; Chen, Z.; Pei, J.; Xu, J.; Chen, T.; Hou, L.; Wu, C.; She, Y.; Yuan, Z.; Chen, L.

10.1101/2025.06.15.659438 — bioinformatics — Posted on 2025-06-19

1975 LadybirdBase: a comprehensive biology, ecology and omics resource for ladybird beetles (Coccinellidae)

Sun, Y.-F.; Yang, K.-Y.; Li, H.; Liang, Y.-S.; Cai, L.-Q.; Xie, J.-Y.; Zhang, Y.-W.; Liang, J.-Y.; Mou, Q.; Wang, Y.-M.; Chen, D.; Qi, M.-X.; Carlos Ramos Aguila, L.; Li, H.-S.; Pang, H.

10.1101/2025.06.15.659824 — bioinformatics — Posted on 2025-06-19

1976 PET imaging for non-invasive monitoring of 89Zr-Talidox delivery to the brain following focused ultrasound-mediated blood-brain barrier opening

Mishra, A.; Payne, C.; Carrascal-Minino, A.; Halbherr, S.; Pouliopoulos, A.; de Rosales, R. T. M.

10.1101/2025.06.16.659954 — bioengineering — Posted on 2025-06-19

1977 Analytical model of the selective cutting mechanism used by ovipositors of sawflies

Verdaguer Mallorqui, M.; Vincent, J. F. V.; Liston, A.; Blagoderov, V.; Desmulliez, M. P. Y.

10.1101/2025.06.15.659745 — bioengineering — Posted on 2025-06-19

1978 Real-Time Human Interaction with Virtual Swarms in Shared Physical Space

Mezey, D.; Bartashevich, P.; Hasbani, G. E.; Romanczuk, P.; Hamann, H.; Deffner, D.; James, D.

10.1101/2025.06.15.659521 — animal behavior and cognition — Posted on 2025-06-19

1979 One Sea, Different Whales: Genomics Sheds Light on a Small Population of Fin Whales

Biello, R.; Iannucci, A.; Fuselli, S.; Desiato, E.; Urban R., J.; Fossi, M. C.; Panti, C.; Mancia, A.

10.1101/2025.06.16.659691 — genomics — Posted on 2025-06-19

1980 buzzdetect: an open-source deep learning tool for automated bioacoustic pollinator monitoring

Hearon, L. E.; Johnson, L. H.; Underwood, J.; Lin, C.-H.; Johnson, R. M.

10.1101/2025.06.13.659554 — ecology — Posted on 2025-06-19

1981 Intracellular glutamine fluctuates with nitrogen availability and regulates Mycobacterium smegmatis biofilm formation

Varner, E.; Meyer, M. D.; Whalen, J.; Wang, Y.-H.; Rodriguez, C.; Malik, I.; Mullet, S. J.; Gelhaus, S. L.; DePas, W. H.

10.1101/2025.06.18.660496 — microbiology — Posted on 2025-06-19

1982 Dynamic changes to the plastoglobule lipidome and proteome in heat-stressed maize

Devadasu, E.; Susanto, F. A.; Schilmiller, A. L.; Johnny, C.; Lundquist, P. K.

10.1101/2025.06.13.659543 — plant biology — Posted on 2025-06-19

1983 Active Merlin Binds RalB to Regulate Exocytosis

Hennigan, R. F.; McLaughlin, K.; Ratner, N.

10.1101/2025.06.13.659557 — cancer biology — Posted on 2025-06-19

1984 Microbial diversity of Atlantic Rainforest ponds assessed by nanopore sequencing

Atum, S. V.; Soares, D. M.; Santos, I.; Johnson, G. A.; Domingos, A. H.; Bechara, E. J.; Setubal, J. C.; Urban, L.; Stevani, C. V.; Freire, R. S.

10.1101/2025.06.17.660208 — bioinformatics — Posted on 2025-06-19

1985 Chaperone Dependency during Primary Protein Biogenesis Does Not Correlate with Chaperone Dependency during in vitro Refolding

Yadav, D.; Demiralp, I. I.; Fakler, M.; Fried, S. D.

10.1101/2025.06.16.659923 — biochemistry — Posted on 2025-06-19

1986 POMPOMS: Crosslinked biomolecular condensates as a versatile platform for multifunctional protein microparticles.

Park, A. S.; Ding, E. A.; Schuster, B. S.

10.1101/2025.06.13.659498 — biochemistry — Posted on 2025-06-19

1987 A high sensitivity strategy to screen NAD(P)H-dependent oxidoreductase activity by coupled enzyme cascade

Ghosh, T.; Sicheri, J.; Kwan, D.

10.1101/2025.06.15.659766 — biochemistry — Posted on 2025-06-19

1988 Role of Uba7-UFD in E1-E2 ISGylation: NMR-Based Insights into E2 Binding Dynamics

Dag, C.; Kazar, A. E.; Kahraman, K.; Gocenler, O.; Lee, W.; Lambert, M.; Tozkoparan Ceylan, C. D.; Shim, J. G.; Haas, A. L.; Dotsch, V.; Ziarek, J. J.; Elgin, E. S.

10.1101/2025.06.14.659664 — biochemistry — Posted on 2025-06-19

1989 Intrinsically disordered bHLH family member TCF4 drives LLPS in a DNA-dependent manner

Sozanska, N.; Klepka, B. P.; Niedzwiecka, A.; Greb-Markiewicz, B. P.; Ozyhar, A.; Tarczewska, A.

10.1101/2025.06.18.660356 — biochemistry — Posted on 2025-06-19

1990 A cell-based degrader assessment platform facilitates discovery of functional NUDT5 PROTACs

Alam, S.; Pires, M. J.; Tidestav, G.; Jemth, A.-S.; Eklund, J.; Klingegard, F.; Caraballo, R.; Gaetani, M.; Rotili, D.; van den Elzen, S.; van Berkum, E.; Wallner, O.; Malmström, J.; Arvidsson, P. I.; Valerie, N. C. K.; Altun, M.

10.1101/2025.06.13.659494 — biochemistry — Posted on 2025-06-19

1991 MTBP allosterically activates Cdk8-CycC kinase activity

Zaffar, E.; vieyto, J.; Pravi, K.; Aslam, M. F.; Almeida, Y.; Perez, J. M.; Kaschani, F.; Kaiser, M.; Kroesen, A.; Boos, D.; Garcia, E. S.

10.1101/2025.06.16.659917 — biochemistry — Posted on 2025-06-19

1992 Peptides at vesicle and mineral prebiotic interfaces

Cherepashuk, I.; Makarov, M.; Soucek, R.; Krystufek, R.; Hadravova, R.; Giacobelli, V. G.; Longo, L. M.; Fujishima, K.; Jordan, S. F.; Hlouchova, K.

10.1101/2025.06.13.659467 — evolutionary biology — Posted on 2025-06-19

1993 Identification of a conserved RNA structure in the TNFRSF1A 3'UTR: Implications for post-transcriptional regulation

Moss, W.; Rouse, W.; Wang, J.; Woodman, M. E.; Dow, E. R.; Jessop, T. C.

10.1101/2025.06.18.660452 — molecular biology — Posted on 2025-06-19

1994 EXOSC10-mediated pre-tRNA surveillance safeguards neuron survival

Nishimoto, Y.; Yang, X.; Gregory, R. I.

10.1101/2025.06.19.660564 — molecular biology — Posted on 2025-06-19

1995 γ-Amino Carboxylic Acid Modification Enhances the Efficacy of PNAs Targeting miR-221-3p in A549 Cells

Yoon, Y.; Joo, N.-r.; Min, J.; Bae, D.; Lee, S.; Choi, Y.

10.1101/2025.06.15.659802 — molecular biology — Posted on 2025-06-19

1996 A selective and augmentable FFAR2 signal circuitry programs a butyrate-induced cellular identity of enteroendocrine L-cells

Hirdaramani, A.; Hanyaloglu, A.; Frost, G.; Cheng, C.-W.

10.1101/2025.06.14.659710 — molecular biology — Posted on 2025-06-19

1997 A TIR-SAVED effector mediates antiviral immunity via a conserved host signal

Choudhary, D. K.; Vassover, D.; Singla, H.; Shukrun, H.; Gophna, U.

10.1101/2025.06.19.660554 — microbiology — Posted on 2025-06-19

1998 A new role for lipoproteins LpqZ and FecB in orchestrating mycobacterial cell envelope biogenesis

Lissner, R.; Franklin, A.; Benedict, S.; Charitou, V.; Speer, A.; Knol, J.; Jimenez, C.; Moynihan, P.; Nejentsev, S.; Kuijl, C.; Bitter, W.

10.1101/2025.06.19.660376 — microbiology — Posted on 2025-06-19

1999 Linear scaling reveals low-dimensional structure in observable microbial dynamics

Zhou, Z.; Chen, X.; Simsek, E.; Hamrick, G. S.; Baig, Y.; Holmes, Z. A.; Du, Z.; Karig, D. K.; You, L.

10.1101/2025.06.13.659614 — systems biology — Posted on 2025-06-19

2000 A map of Non-translated RNA (nt-RNA) junctions in cancer genomes: a database resource of unproductive splicing

Huang, D.; Kwan, T.-K.; Ma, S.-L.; Tang, N. L.-s.

10.1101/2025.06.15.659434 — cancer biology — Posted on 2025-06-19

2001 Intra-Crater Bubble Expansion Drives the Fracture of Impacted Ureteral Stones in Laser Lithotripsy

Chen, J.; Zhong, P.

10.1101/2025.06.13.659568 — bioengineering — Posted on 2025-06-19

2002 MeCP2 requires interactions with nucleosome linker DNA to read chromatin DNA methylation

Watson, J. A.; Alexander-Howden, B. K.; Hall, T. S.; Wear, M. A.; McGhie, F. A.; Clifford, G.; Wapenaar, H.; Zou, J.; Bird, A.; Wilson, M. D.

10.1101/2025.06.17.659564 — biochemistry — Posted on 2025-06-19

2003 Radiolabeling Isolated Mitochondria with Tc-99m: A First-in-Field Protocol and Early Feasibility Findings

Walker, M.; Miralles, F.; Prijoles, K. L.; Kazmi, J.; Hough, J.; Lewis, D. H.; Levitt, M.; Sancak, Y.

10.1101/2025.06.15.658690 — cell biology — Posted on 2025-06-19

2004 Discovery and characterization of cell-permeable inhibitors of Leishmania mexicana CLK1 using an in-cell target engagement assay

Catta-Preta, C. M. C.; Ramos, P. Z.; Carnielli, J. B. T.; Vasconcelos, S. N. S.; Dowle, A.; Fanti, R. C.; dos Reis, C. V.; Coelho, A. C.; Massirer, K. B.; Mottram, J. C.; Counago, R. M.

10.1101/2025.06.17.659316 — cell biology — Posted on 2025-06-19

2005 Host- and microbial-mediated mucin degradation differentially shape Pseudomonas aeruginosa physiology and gene expression

Arif, S. J.; Hoffman, K. M.; Flynn, J. M.; Wiggen, T. D.; Lucas, S. K.; Villarreal, A. R.; Gilbertsen, A. J.; Dunitz, J. M.; Hunter, R. C.

10.1101/2025.06.18.660398 — microbiology — Posted on 2025-06-19

2006 Single cell analysis of HIV expression and integration sites reveals robust viral expression across diverse chromatin environments

Ma, Y.; Peterson, J. J.; Margolis, D.; Browne, E. P.

10.1101/2025.06.19.660519 — microbiology — Posted on 2025-06-19

2007 Sex bias determines MERS-CoV infection outcomes in a mouse model of differential pathogenicity

Habbick, M. R.; Bushmaker, T.; Singh, R.; Sharma, P.; Munster, V. J.; van Doremalen, N.; Rasmussen, A. L.

10.1101/2025.06.19.660369 — microbiology — Posted on 2025-06-19

2008 Biofilm development of Porphyromonas gingivalis on titanium surfaces in response to 1,4-dihydroxy-2-naphthoic acid - a hybrid in vitro - in silico approach

Szafranski, S. P.; Mukherjee, R.; Klempt, F.; Fuchs, F.; Doll-Nikutta, K.; Soleimani, M.; Wriggers, P.; Junker, P.; Stiesch, M.

10.1101/2025.06.19.660513 — microbiology — Posted on 2025-06-19

2009 Molecular interplay between peptidoglycan integrity and outer membrane asymmetry in maintaining cell envelope homeostasis

Nandy, S.; Tehrani, A. F.; Hunt-Serracin, A. C.; Biboy, J.; Pybus, C.; Vollmer, W.; Boll, J. M.

10.1101/2025.06.19.660527 — microbiology — Posted on 2025-06-19

2010 The unique role of nucS-mediated non-canonical mismatch repair in Mycobacterium tuberculosis resistance evolution

Martin-Blecua, I.; Valverde, J. R.; Garcia-Bravo, P.; Ruiz-Enamorado, A.; Prados-Rosales, R.; Sastre-Dominguez, J.; Das, L.; Jacobs, W. R.; San Millan, A.; Blazquez, J.; Gullon, S.

10.1101/2025.06.19.660520 — microbiology — Posted on 2025-06-19

2011 Cross-feeding interactions between Fusobacterium nucleatum and the glycan forager Segatella oris

Fletcher, J. R.; Hunter, R. C.

10.1101/2025.06.18.660387 — microbiology — Posted on 2025-06-19

2012 Comprehensive Cross-Domain Taxonomic Classification of Microbiotas using Partitioned Amplification Multiplexed Amplicon Sequencing (PAMA-seq)

Li, X.; Trepka, K. R.; Song, F.; Kyaw, T. S.; Turnbaugh, P. J.; Abate, A. J.

10.1101/2025.06.18.660470 — microbiology — Posted on 2025-06-19

2013 Iterative in vivo cut'n'paste of chromosomal loci in Escherichia coli K-12 using synthetic DNA

Gude, S.; Bertelsen, A. B.; Norholm, M. H. H.

10.1101/2025.06.19.660532 — microbiology — Posted on 2025-06-19

2014 Anaerobic microbiota facilitate pathogen access to the airway epithelium in a novel co-culture model of colonization

Moore, P. J.; Kent, L. A.; Hunter, R. C.

10.1101/2025.06.18.660211 — microbiology — Posted on 2025-06-19

2015 Dynamic growth trajectories distinguish bacteriostatic and bactericidal antibiotics at subinhibitory concentrations

Vaisbourd, E.; Glass, D. S.; Yang, Y.; Mayo, A.; Bren, A.; Alon, U.

10.1101/2025.06.14.659040 — systems biology — Posted on 2025-06-19

2016 Fibulin-4 is highly expressed in metastatic breast cancer and can serve as a target of peptide-based imaging probes and experimental therapeutics

Daquinag, A. C.; AghaAmiri, S.; Farmer, S. M.; Zhang, S.; Ghosh, S. C.; Vargas, S. H.; Ramesh, A. K.; An, Z.; Azhdarinia, A.; Kolonin, M. G.

10.1101/2025.06.18.657655 — cancer biology — Posted on 2025-06-19

2017 Interactive delineation and quantification of anatomical structure with virtual reality

Garkov, D.; Lein, E.; Kielkopf, N.; Dullin, C.; Klein, K.; Sommer, B.; Jordan, A. L.; Schreiber, F.

10.1101/2025.06.17.659041 — bioinformatics — Posted on 2025-06-19

2018 Embracing the power of genomics to inform evolutionary significant units

Bergman, J. C.; Taylor, R. S.; Manseau, M.

10.1101/2025.06.14.659582 — genomics — Posted on 2025-06-19

2019 Mutation-biased adaptation is consequential even in large bacterial populations

Barber, J. N.; Couce, A.

10.1101/2025.06.16.655099 — evolutionary biology — Posted on 2025-06-19

2020 Phylogram instead of chronogram when assessing the neutral evolution of a trait

Latrille, T.; Gaboriau, T.; Salamin, N.

10.1101/2025.06.16.659089 — evolutionary biology — Posted on 2025-06-19

2021 Carbon and nitrogen stable isotopic profiling of chimpanzees and other primate hairs in Kalinzu Forest Reserve, Uganda

Tsutaya, T.; Aruga, N.; Ishikawa, N. F.; Sasaki, Y.; Kitayama, H.; Yoneda, M.; Ogawa, N. O.; Ohkouchi, N.; Hashimoto, C.

10.1101/2025.06.15.658141 — ecology — Posted on 2025-06-19

2022 Parental exposure to wet and dry conditions shapes the viability and thermotolerance of eggs in Aedes aegypti

Chakraborty, S.; Shah, D.; Dayal, D.; Lutz, L.; Wang, L.; Garcia, J.; Lefevre, G.; Susanto, E.; Benoit, J. B.

10.1101/2025.06.16.658957 — physiology — Posted on 2025-06-19

2023 Orco regulates the circadian activity of pheromone-sensitive olfactory receptor neurons in hawkmoths

Vijayan, A.; Forlino, M.; Chang, Y.; Rojas, P.; Schroeder, K.; Schneider, A. C.; Garcia, M. E.; Stengl, M.

10.1101/2025.06.17.659282 — physiology — Posted on 2025-06-19

2024 MYC-induced oncogenesis is dependent on acidic patches within its N-terminal intrinsically disordered domain.

Llombart, V.; O'Connor, D.; Demeulemeester, J.; Bhamra, A.; Surinova, S.; Turna, A.; Fung, K.; Wang, L.; Li, Y.; Rapoz-D'Silva, T.; Ahmed, F.; Niskanen, H.; Stöppelkamp, I.; Hnisz, D.; Bottaro, S.; Fisicaro, C.; He, S.; Look, A. T.; Mansour, M. R.

10.1101/2025.06.16.659507 — cancer biology — Posted on 2025-06-19

2025 RhoA activation promotes ordered membrane domain coalescence and suppresses neuronal excitability

Sabouri, S.; Handlin, L. J.; Macchi, N. L.; Dumaire, N. L.; Moutal, A.; Dai, G.

10.1101/2025.06.18.658998 — biophysics — Posted on 2025-06-19

2026 UniCure: A Foundation Model for Predicting Personalized Cancer Therapy Response

Chen, Z.; Tian, S.; Pei, J.; Gu, R.; Li, Y.; Ding, S.; Xu, Y.; Zheng, X.; Liu, M.; Du, X.; Zhu, J.; Zou, J.; Xu, J.; Jiang, W.; Chen, Y.; Dong, B.; Zhang, Q.; Ren, S.; Wang, S.; Wen, H.; Zhang, W.; Chen, L.

10.1101/2025.06.14.658531 — bioinformatics — Posted on 2025-06-19

2027 ZIPcnv: accurate and efficient inference of copy number variations from shallow whole-genome sequencing

Xue, Z.; Zeng, J.; Yuan, J.; Wang, T.; Lai, X.; Wang, L.; Wang, Y.; Zhu, H.; Jin, X.; Wang, J.

10.1101/2025.06.13.659496 — bioinformatics — Posted on 2025-06-19

2028 Amino acid exchangeability and surface accessibility underpin the effects of single substitutions

Alpay, B. A.; Nanda, P.; Nagy, E.; Desai, M. M.

10.1101/2025.06.13.659595 — bioinformatics — Posted on 2025-06-19

2029 Monooxygenase-dehydrogenase cascade for sustained enzymatic remediation of TMA in salmon protein hydrolysates

Ree, R.; Larsen, O.; Gaykawad, S.; Ramanand, S. S.; Garcia-Moyano, A.; Chiriac, I. E.; Puntervoll, P.; Bjerga, G. E. K.

10.1101/2025.06.16.658034 — biochemistry — Posted on 2025-06-19

2030 Heterogeneity of Genetic Sequence within Quasi-species of Influenza Virus Revealed by Single-Molecule Sequencing

Tamao, K.; Noji, H.; Tabata, K. V.

10.1101/2025.06.19.658006 — genomics — Posted on 2025-06-19

2031 Genotype-first approach revealed unrecognized breed-specific genetic diseases in dogs

Mizukami, K.; Yamada, R.; Toyoda, H.; Aoi, T.; Endo, M.; Kawasaki, J.; Nakashima, K.; Endo, T.; Watanabe, T.; Ikeda, N.; Honnami, M.; Fujita, N.; Nakagawa, T.; Nishimura, R.; Uchiyama, J.; Hisasue, M.; Tsujimoto, H.; Sakaguchi, M.; Tomiyasu, H.; Momozawa, Y.

10.1101/2025.06.16.659006 — genomics — Posted on 2025-06-19

2032 Benchmarking DNA Foundation Models for zero-shot variant effect prediction: the role of context, training, and architecture

Alfisi, I.; Ciapi, F.; Baragli, M.; Magi, A.

10.1101/2025.06.15.659748 — genomics — Posted on 2025-06-19

2033 Evolution of opsin genes in closely-related species of butterflies specialized in different microhabitats.

Ledamoisel, J.; Dang, A.; Devilliers, J.; Marvillet, T.; Lemoine, S.; Lopez Villavicencio, M.; Briscoe, A. D.; Debat, V.; Llaurens, V.

10.1101/2025.06.13.659549 — evolutionary biology — Posted on 2025-06-19

2034 A general allometric rule predicts sustainable growth across societies

Angulo, M. T.; Michel-Mata, S.; Velasco-Hernandez, J. X.; Saavedra, S.; Marquet, P. A.

10.1101/2025.06.13.659593 — ecology — Posted on 2025-06-19

2035 Wildlife movement and contact responses to intensive culling: implications for disease control

Chalkowski, K.; Snow, N. P.; Feuka, A. B.; Leland, B. R.; VerCauteren, K. C.; Miller, R. S.; Pepin, K. M.

10.1101/2025.06.13.659516 — ecology — Posted on 2025-06-19

2036 Genome-wide analysis reveals mutual gene flow between goats from Island Southeast Asia and from Southern Africa

Masuko, R.; Ayin, A.; Masaoka, M.; Kawaguchi, F.; Sasazaki, S.; Dagong, M. I. A.; Bugiwati, S. R. A.; Masangkay, J. S.; Wu, J.; Yonezawa, T.; Lenstra, J. A.; Mannen, H.

10.1101/2025.06.13.659639 — ecology — Posted on 2025-06-19

2037 Testing the priming effect in the deep ocean: are microbes too starved to consume recalcitrant organic carbon?

LaBrie, R.; Selden, C. R.; Mahmoudi, N.

10.1101/2025.06.13.658936 — ecology — Posted on 2025-06-19

2038 Orphan nuclear receptors recruit TRIM28 to promote telomeric H3K9me3 for the alternative lengthening of telomeres pathway

Tsai, C.-T.; Gaela, V. M.; Hsia, H.-Y.; Huang, Y.-C.; Chen, L.-Y.

10.1101/2025.06.16.658187 — molecular biology — Posted on 2025-06-19

2039 Enhancing Functional Connectivity Analysis in Task-Based fMRI Using the BOLD-Filter Method: Greater Network and Activation Voxel Sensitivities

Sung, Y.-W.; Choi, U.-S.; Tanabe, M.; Ogawa, S.

10.1101/2025.06.18.653042 — neuroscience — Posted on 2025-06-19

2040 Genes govern metabolism-Enzymes define pathways and metabolic relationships

Zhan, J.; Jarrell, Z. R.; Kemp, M. L.; Weinberg, J.; Go, Y.-M. G.; Martin, G. S.; Jones, D. P.

10.1101/2025.06.16.657199 — systems biology — Posted on 2025-06-19

2041 Efficient genetic code expansion tools enable in vivo study of lysine acetylation in non-model bacteria

Van Fossen, E. M.; Stephenson, M.; Frank, A.; Akella, S.; Wooldridge, R.; Wilson, A.; You, Y.; Nakayasu, E.; Egbert, R.; Elmore, J. R.

10.1101/2025.04.14.648644 — synthetic biology — Posted on 2025-06-19

2042 From muscle fibres to gears: How fibre rotation and shape change impact muscle function

Pinto, M.; Wakeling, J.; Almonacid, J.; Blazevich, A.

10.1101/2025.06.15.659256 — physiology — Posted on 2025-06-19

2043 Data Representation Bias and Conditional Distribution Shift Drive Predictive Performance Disparities in Multi-Population Machine Learning

Kumar, S.; Cui, Y.

10.1101/2025.06.18.658431 — bioinformatics — Posted on 2025-06-19

2044 MimicNeoAI: An integrated pipeline for identifying microbial mimicry antigens and tumor neoantigen partners

Chen, T.; Wang, W.; Zuo, X.; Zhang, Y.; Li, Z.; He, Y.; Ye, F.; Zhang, B.; Jiang, Q.; Liu, H.; Zhang, L.; Fang, J.; Zhang, Y.

10.1101/2025.06.13.658292 — bioinformatics — Posted on 2025-06-19

2045 Deciphering enzymatic potential in metagenomic reads through DNA language models

R, P.; Bromberg, Y.

10.1101/2024.12.10.627786 — bioinformatics — Posted on 2025-06-19

2046 Nup107 is a crucial regulator of torso-mediated metamorphic transition in Drosophila melanogaster

Kawadkar, J.; Joshi, P. A.; Mishra, R. K.

10.1101/2024.08.19.608657 — developmental biology — Posted on 2025-06-19

2047 Metabolic reprogramming in the spinal cord drives the transition to pain chronicity

Tagne, A. M.; Fotio, Y.; Lee, H.-L.; Jung, K.-M.; Katz, J.; Ahmed, F.; Le, J.; Bazinet, R.; Jang, C.; Piomelli, D.

10.1101/2025.01.30.635746 — neuroscience — Posted on 2025-06-19

2048 The Spatial Atlas of Human Anatomy (SAHA): A Multimodal Subcellular-Resolution Reference Across Human Organs

Park, J.; De Gregorio, R.; Hissong, E.; Ozcelik, E.; Bartelo, N.; Dezem, F. S.; Zhang, L.; Marcao, M.; DuBose, H.; Zheng, Y.; Abila, E.; Kim, J.; Proszynski, J.; Agyemang, A. A.; Arikatla, M. R.; Wani, A.; Liu, Y.; Metzger, E.; Rogers, S.; Divakar, P.; Dulai, P. S.; Reeves, J. W.; Liang, Y.; Pan, L.; Bhattacharjee, S.; Patrick, M.; Young, K.; Heck, A.; Korukonda, M.; McGuire, D.; Wu, L.; Wardhani, A.; Beechem, J.; Church, G.; Lipkin, S. M.; Patel, S.; Socciarelli, F.; Chandwani, R.; Monette, S.; Robinson, B.; Loda, M.; Elemento, O.; Martelotto, L.; Plummer, J. T.; Rendeiro, A. F.; Alonso, A.;

10.1101/2025.06.16.658716 — systems biology — Posted on 2025-06-19

2049 A genetic driver of epileptic encephalopathy impairs gating of synaptic glycolysis

Koshenov, Z.; Kokotos, A. C.; Benedetti, L.; Schwartz, J. L.; Ryan, T. A.

10.1101/2025.06.17.660213 — neuroscience — Posted on 2025-06-19

2050 High-speed whole-brain imaging in Drosophila

Gauthey, W.; Lin, A.; Ahmed, O. M.; Leifer, A. M.; Murthy, M.; Thiberge, S.

10.1101/2025.06.18.660371 — neuroscience — Posted on 2025-06-19

2051 A model investigation of short-term synaptic plasticity tuned via Unc13 isoforms.

Springer, M.; Sigrist, S. J.; Nawrot, M. P.

10.1101/2025.06.18.660326 — neuroscience — Posted on 2025-06-19

2052 Resolving synaptic events using subsynaptically targeted GCaMP8 variants

Chen, J.; Lin, J.; He, K.; Wang, L.; Han, Y.; Qiu, C.; Dickman, D. K.

10.1101/2025.06.19.660577 — neuroscience — Posted on 2025-06-19

2053 Interaction of Genetic Variants Activates Latent Metabolic Pathways in Yeast

Sasikumar, S.; Parkins, S. T.; Sudarsan, S.; Sinha, H.

10.1101/2024.10.21.619385 — systems biology — Posted on 2025-06-19

2054 Charged peptides enriched in aromatic residues decelerate condensate ageing driven by cross-β-sheet formation

Sanchez-Burgos, I.; Tejedor, A. R.; Castro, A.; Feito, A.; Collepardo-Guevara, R.; Rene Espinosa, J.

10.1101/2024.12.16.628676 — biophysics — Posted on 2025-06-19

2055 Characterization of spatial homogeneous regions in tissues with concordex

Jackson, K. C.; Booeshaghi, A. S.; Galvez-Merchan, A.; Moses, L.; Chari, T.; Kim, A.; Hosten-Mittermaier, O.; Pachter, L.

10.1101/2023.06.28.546949 — bioinformatics — Posted on 2025-06-19

2056 FlatProt: 2D visualization eases protein structure comparison

Olenyi, T.; Carl, C.; Senoner, T.; Koludarov, I.; Rost, B.

10.1101/2025.04.22.650077 — bioinformatics — Posted on 2025-06-19

2057 MHC-IIB disassortative mate choice in a genetically monogamous seabird

Thel, L.; Pineaux, M.; Ribeiro, L.; Danchin, E.; Whelan, S.; Hatch, S. A.; Blanchard, P.; Leclaire, S.

10.1101/2024.12.19.629314 — animal behavior and cognition — Posted on 2025-06-19

2058 SARS-CoV-2 NSP13 interacts with TEAD to suppress Hippo-YAP signaling

Meng, F.; Kim, J. H.; Tsai, C.-R.; Steimle, J. D.; Wang, J.; Shi, Y.; Li, R. G.; Xie, B.; Deshmukh, V.; Li, X.; Martin, J. F.

10.1101/2023.11.30.569413 — cell biology — Posted on 2025-06-19

2059 A pathogenic CD4 T cell phenotype in experimental uveitis shares common features with other immune mediated inflammatory

Ward, A.; Bell, O. H.; Martinez-Robles, L. D.; Lait, P. J. P.; Chu, C. J.; Copland, D. A.; Dick, A. D.; Nicholson, L. B.

10.1101/2025.06.14.659471 — immunology — Posted on 2025-06-19

2060 Characterisation of the dual roles of senescent-like T cells that arise during healthy and unhealthy ageing

Garrod-Ketchely, C.; Callender, L. A.; Schroth, J.; Littlewood, K.; Carroll, E. C.; Tamsan, D.; Tsang, V. S.; Nessel, I.; Riddell, N. E.; Chain, B.; Harding, D.; Marelli-Berg, F. M.; Bystrom, J.; Pereira Da Costa, M.; Carrascal-Minino, A.; Keeling, G. P.; Pham, T. T.; Sunassee, K.; De Rosales, R. T.; Terry, S. Y.; Pattrick, M.; Sutcliffe, C.; Worthington, A.; Hood, G.; Finer, S.; Henson, S. M.

10.1101/2025.06.16.659752 — immunology — Posted on 2025-06-19

2061 In silico discovery of pathogenic PD-L1 nsSNVs with altered glycosylation and immunotherapy binding

Tan, K. W.; Chacko, A.-M.; Khare, S.; Verma, C.; Kannan, S.; Petersen, S.; Ong, J.; Tan, C.

10.1101/2025.06.17.660108 — bioinformatics — Posted on 2025-06-19

2062 AND-gate fluorescence prodrug of the self-immolative delivery for overcoming multidrug resistance

Liu, J.; Liu, Z. q.; Yang, Y. f.; Long, Y. l.

10.1101/2025.06.16.660040 — biochemistry — Posted on 2025-06-19

2063 25 Hydroxy Cholesterol Effectively Inhibits Japanese Encephalitis Virus Infection in Vero Cells

Archana, K.; Qazi, B.; Bohra, B.; Tripathi, R. K.; Haldar, S.

10.1101/2024.12.18.628890 — biochemistry — Posted on 2025-06-19

2064 Motivational trade-offs as evidence for sentience in bees: a critique

Read, J.; Nityananda, V.

10.1101/2025.04.04.647054 — animal behavior and cognition — Posted on 2025-06-19

2065 Disease-associated programming of cell memory in glycogen storage disorder type 1a

Sprecher, U.; Dsouza, J.; Mishra, K.; Muchtar, N.; Shalev, O.; Eliassaf, A.; Morshina, A.; Miliano, A. C.; Mithieux, G.; Rajas, F.; Avraham, S.; Castellani, F. M.; Kaufman, H.; Bergman, Y.; Garti, N.; Garti, S.; Linial, M.; Anikster, Y.; Kakhlon, O.; Weil, M.

10.1101/2023.02.20.529109 — cell biology — Posted on 2025-06-19

2066 Methylome profiling of SetDB1 deficient ESCs reveals diverse epigenetic cross-talk during pluripotency

Bovee, N. G. P.; Hoogland, S. H. A.; Habibi, E.; Fröhlich, S.; Brinkman, A. B.; Mulder, K.; Jansen, J. H.; Lorincz, M.; Stunnenberg, H. G.; Marks, H.

10.1101/2025.06.18.660343 — molecular biology — Posted on 2025-06-19

2067 Q1020R in the spike proteins of MERS-CoV from Arabian camels and recent human cases confers resistance against soluble human DPP4

Chen, N.; Kleine-Weber, H.; Alkharsah, K. R.; Winkler, M.; Volz, A.; Muller, M.; Corman, V. M.; Drosten, C.; Hoffmann, M.; Pohlmann, S. H.

10.1101/2025.06.17.660103 — microbiology — Posted on 2025-06-19

2068 Mannoprotein Cig1 Contributes to the Immunogenicity of a Heat-Killed F-box Protein Fbp1 Cryptococcus neoformans Vaccine Model

Avina, S.; Pawar, S.; Rivera, A.; Xue, C.

10.1101/2025.06.17.660137 — microbiology — Posted on 2025-06-19

2069 The effects of external cue overlap and internal goals on selective memory retrieval as revealed by electroencephalographic (EEG) neural pattern reinstatement

Moccia, A.; Plummer, M.; Simpson, I. J. A.; Morcom, A. M.

10.1101/2022.10.21.513221 — neuroscience — Posted on 2025-06-19

2070 Explaining tip-of-the-tongue experiences in older adults: how cardiorespiratory fitness is associated with mechanisms of brain function, structure, and perfusion

Rahman, F.; Tsvetanov, K. A.; Feron, J.; Mullinger, K.; Joyce, K.; Gilani, A.; Fernandes, E. G.; Wetterlin, A.; Wheeldon, L. R.; Lucas, S. J. E.; Segaert, K.

10.1101/2023.12.08.570799 — neuroscience — Posted on 2025-06-19

2071 How did evolution halve genome size during an oceanic island colonization?

Pisarenco, V. A.; Boada-Figueras, A.; Olive-Muniz, M.; Escuer, P.; Macias-Hernandez, N.; Arnedo, M. A.; Librado, P.; Sanchez-Gracia, A.; Guirao-Rico, S.; Rozas, J.

10.1101/2025.06.14.659697 — genomics — Posted on 2025-06-19

2072 High-throughput genetic mapping discovers novel zinc toxicity response loci in Drosophila melanogaster

Hanson, K. M.; Long, A. D.; Macdonald, S. J.

10.1101/2025.06.12.659401 — genetics — Posted on 2025-06-19

2073 Chiari II brain malformation is secondary to open spina bifida

Clark, M.; Edwards, T. J.; Savery, D.; Galea, G. L.; Samy, N.; Pauws, E.; Kessaris, N.; Greene, N. D.; Copp, A. J.

10.1101/2025.01.06.631442 — developmental biology — Posted on 2025-06-19

2074 The sequence and structural integrity of the SARS-CoV-2 Spike protein transmembrane domain is crucial for viral entry

Ortiz-Mateu, J.; Belda, D.; Aviles-Alia, A. I.; Alonso-Romero, J.; Garcia-Murria, M. J.; Mingarro, I.; Geller, R.; Martinez-Gil, L.

10.1101/2024.11.19.624333 — molecular biology — Posted on 2025-06-19

2075 GerAB residues predicted to interfere with water passage based on steered Molecular Dynamics are key to germinosome stability

Chen, L.; Beekhuis, H.; Bosch, C. v. d.; Vinay, G.; Korza, G.; Vreede, J.; Setlow, P.; Brul, S.

10.1101/2024.06.28.601167 — microbiology — Posted on 2025-06-19

2076 Identification of a Highly Functional Effector CD8+ T Cell Program After Transplantation in Mice and Humans

Cohen, G. S.; Freibaum, J. S.; Leathem, R. P.; Shirkey, M. W.; Welsh, R. A.; Hatano, R.; Morimoto, C.; Cihakova, D.; Oh, B. C.; Bromberg, J. S.; Krummey, S. M.

10.1101/2024.11.26.625263 — immunology — Posted on 2025-06-19

2077 Progressive remote memory decline coincides with parvalbumin interneuron hyperexcitability and enhanced inhibition of cortical engram cells in a mouse model of Alzheimer's disease

van Adrichem, J. J.; van der Loo, R. J.; Ambrosini Defendi, R.; Smit, A. B.; van den Oever, M.; van Kesteren, R. E.

10.1101/2025.03.26.645537 — neuroscience — Posted on 2025-06-19

2078 Linking reduced prefrontal microcircuit inhibition in schizophrenia to EEG biomarkers in silico

Rosanally, S.; Mazza, F.; Yao, H. K.; Moghbel, F.; Seo, H.; Hay, E.

10.1101/2023.08.11.553052 — neuroscience — Posted on 2025-06-19

2079 F2,6BP restores mitochondrial genome integrity in Huntingtons Disease

Chakraborty, A.; Mandal, S. M.; Mankevich, M.; Shahabi, S.; Biswas, T.; Mani, R. S.; Sreenivasmurthy, S. G.; Kodavati, M.; Tapryal, N.; Weinfeld, M.; Hegde, M.; Krishnan, B.; Ghosh, G.; Hazra, T.

10.1101/2024.11.04.621834 — neuroscience — Posted on 2025-06-19

2080 "Smurf Mice": revolutionising our understanding of age-related and end-of-life animal physiology

Cansell, C.; Goepp, V.; Bain, F.; Todd, N.; Douard, V.; Monnoye, M.; Zane, F.; Sanchez, C.; Pietrancosta, N.; ROVERE, C.; Denis, R.; Luquet, S.; Rera, M.

10.1101/2025.06.14.659669 — physiology — Posted on 2025-06-19

2081 When is spontaneous formation of spatial patterns robust?

Piskovsky, V.; Maini, P. K.

10.1101/2024.10.30.621030 — biophysics — Posted on 2025-06-19

2082 From Correlation to Causation: Unraveling the Impact of Closure onOpen-Ended Evolution within the Kauffman Model

Faggian, M. F.

10.1101/2024.10.30.621154 — biophysics — Posted on 2025-06-19

2083 Intrinsically Dominant Conformational Diversity in PDZ1 within the Tandem PDZ1-PDZ2 of Human Syntenin-1 Underlined by Crystal Structures.

Ando, N.; Hanazono, Y.; Sakuma, K.; Numoto, N.; Tenno, T.; Oshima, A.; Ito, N.; Hiroaki, H.

10.1101/2025.05.22.655525 — biophysics — Posted on 2025-06-19

2084 A computational analysis of the glycoprotein LRP1 structure and the role of glycans as quaternary glue

Tuveri, G. M.; Basile, M.; Acosta Gutierrez, S.; Kausas, M.; Pujals, S.; Tian, X.; Franzese, G.; Ruiz Perez, L.; Battaglia, G.

10.1101/2025.06.10.658798 — biophysics — Posted on 2025-06-19

2085 Extracellular K+ modulates the pore conformations of Cys-loop receptor anion channels

Shimomura, T.; Kubo, Y.; Saitoe, M.; Suzuki, Y.

10.1101/2025.06.15.658987 — biophysics — Posted on 2025-06-19

2086 STACCato: Identifying condition-related cell-cell communication events using supervised tensor analysis

DAI, Q.; Epstein, M.; Yang, J.

10.1101/2023.12.15.571918 — bioinformatics — Posted on 2025-06-19

2087 Unique territorial and compartmental organization of chromosomes in the holocentric silkworm

Gil, J.; Navarrete, E.; Hockens, C.; Chowdhury, N.; Abraham, S.; Cornilleau, G.; Lei, E. P.; Mozziconacci, J.; Banigan, E. J.; Mirny, L. A.; Rosin, L. F.; Muller, H.; Drinnenberg, I. A.

10.1101/2023.09.14.557757 — genomics — Posted on 2025-06-19

2088 Assessing the effect of experimental evolution under combined thermal-nutritional stress on larval thermotolerance and thermal plasticity in Drosophila melanogaster

Choy, Y. M. M.; Kutz, T.; Cockerell, F. E.; Lombardi, E.; Hangartner, S.; Mirth, C.; Sgro, C. M.

10.1101/2024.06.12.598748 — evolutionary biology — Posted on 2025-06-19

2089 Conformational changes, excess area, and elasticity of the Piezo protein-membrane nanodome from coarse-grained and atomistic simulations

Dixit, S.; Noe, F.; Weikl, T. R.

10.1101/2024.11.11.622954 — molecular biology — Posted on 2025-06-19

2090 A unified rodent atlas reveals the cellular complexity and evolutionary divergence of the dorsal vagal complex

Hes, C.; Tomlinson, A. J.; Michielsen, L.; Murdoch, H. J.; Soltani, F.; Kokoeva, M.; Sabatini, P. V.

10.1101/2024.09.19.613879 — neuroscience — Posted on 2025-06-19

2091 Identification and optimization of trans-species reactive TfR1-binding VHH as tools for drug delivery across the blood brain barrier

David, M.; Cohen, R.; Beuzelin, D.; Ferracci, G.; Cresci, M.; Faucon, A.; Abouzid, K.; Godefroy, G.; Masse, M.; Mechioukhi, Y.; Girard, S. D.; Julien-Gau, I.; Boursery, C.; Fraisier, C.; Varini, K.; Thomas, M.; Jacquot, G.; Lecorche, P.; Serrano, B.; Romette, A.; Dangla Pelissier, G.; Godard, M.; Saillant, V.; Pruvost, T.; Sierocki, R.; Chames, P.; Kerfelec, B.; Temsamani, J.; KHRESTCHATISKY, M.

10.1101/2025.05.23.649291 — neuroscience — Posted on 2025-06-19

2092 Connectomic and behavioral alterations in creatine transporter deficiency are partially normalized by gene therapy

Montani, C.; Iovino, L.; Di Vetta, F.; Pasquin Mariani, J.-C. R.; de Guzman, A. E.; Gini, S.; Galbusera, A.; D'Epifanio, B.; Ghirardini, E.; Cornuti, S.; Dada, L.; Putignano, E.; Alessandri, M. G.; Mandrup Bertozzi, S.; Armirotti, A.; Baroncelli, L.; Gozzi, A.

10.1101/2024.01.12.575377 — neuroscience — Posted on 2025-06-19

2093 Segment-specific axon guidance by Wnt/Fz signaling diversifies motor commands in Drosophila larvae

Takagi, S.; Takano, S.; Kubo, T.; Hashimoto, Y.; Morise, S.; Zeng, X.; Nose, A.

10.1101/2023.09.05.555126 — neuroscience — Posted on 2025-06-19

2094 Mind Captioning: Evolving descriptive text of mental content from human brain activity

Horikawa, T.

10.1101/2024.04.23.590673 — neuroscience — Posted on 2025-06-19

2095 Gaming the Metrics? Bibliometric Anomalies and the Integrity Crisis in Global University Rankings

Meho, L. I.

10.1101/2025.05.09.653229 — scientific communication and education — Posted on 2025-06-19

2096 Xylazine and fentanyl co-administration delays wound healing in mice

Bedard, M. L.; Seim, R. F.; Brown, A. R.; Cline, C. A.; Gilley, K. R.; Wykoff, L. A.; Huffstickler, M.; Nakkala, P. B.; Rausser, S.; Dasgupta, N.; Strickland, J. C.; Coleman, L. G.; McElligott, Z. A.

10.1101/2025.06.18.660449 — pharmacology and toxicology — Posted on 2025-06-19

2097 Towards foundation models that learn across biological scales

Kalfon, J.; Cantini, L.; Peyre, G.

10.1101/2025.05.16.653447 — bioinformatics — Posted on 2025-06-19

2098 Structural and functional characterisation of isolated puff adder (B. arietans) serine proteases

Wilkinson, M. C.; Modahl, C.; Saviola, A.; Tianyi, F.; Harrison, R. A.; Casewell, N. R.

10.1101/2025.06.11.659063 — biochemistry — Posted on 2025-06-19

2099 Representation of male features in the female mouse Accessory Olfactory Bulb, and their stability during the estrus cycle

Ben-Shaul, Y.; Cohen, O.

10.1101/2024.10.01.615787 — neuroscience — Posted on 2025-06-19

2100 Vocal distinctiveness in young Eurasian Scops Owls (Otus scops)

Grieco, F.

10.1101/2023.09.17.558098 — animal behavior and cognition — Posted on 2025-06-19

2101 Structural variants contribute to the gut microbiome, blood metabolic traits and their causal relationships

Zhou, Q.; Wang, K.; Chen, J.; Tan, X.; Jin, X.; Zhang, S.; Xiao, L.; Zhang, T.; Liu, X.

10.1101/2025.03.15.643427 — genomics — Posted on 2025-06-19

2102 Reappraisal of the place of cultivated plants in the carbon budget

Muller-Feuga, A.

10.1101/2025.05.17.654640 — ecology — Posted on 2025-06-19

2103 Mealtime alters daily rhythm in nuclear O-GlcNAc proteome to regulate hepatic gene expression

Liu, X.; Cai, Y. D.; Hou, C.; Liu, X.; Luo, Y.; Mendiola, A. J. P.; Xu, X.; Luo, Y.; Zheng, H.; Zhao, C.; Chen, C.-H.; Zhang, Y.; Xiang, Y.; Ma, J.; Chiu, J. C.

10.1101/2024.06.13.598946 — physiology — Posted on 2025-06-19

2104 Coordinated horizontal transfer of multiple genes assembles a carotenoid biosynthesis pathway in aphids

Hu, R.; Wu, J.; Li, S.; Yang, P.; Wu, G.; Niu, C.; Zhan, S.; Chen, Y.

10.1101/2025.03.24.644864 — evolutionary biology — Posted on 2025-06-18

2105 Comparative microbiome analyses reveal differences between wild populations and captive groups of the Montseny Brook Newt (Calotriton arnoldi)

Tulloch, S. A.; Estarellas, M.; Adams, D. C.; Bonacolta, A.; Pagone, V.; Fernandez-Guiberteau, D.; Amat, F.; Montori, A.; Carbonell, F.; Obon, E.; Alonso, M.; Santmartin, M.; Xarles, J.; Marsol, R.; Guinart, D.; Solorzano, S.; Talavera, A.; Burriel-Carranza, B.; Bosch, E.; del Campo, J.; Carranza, S.

10.1101/2025.06.18.660306 — microbiology — Posted on 2025-06-18

2106 Rice stripe virus utilizes an Laodelphax striatellus salivary carbonic anhydrase to facilitate plant infection by direct molecular interaction

Zhao, J.; Meng, X.; Yang, J.; Fang, R.; Huo, Y.; Zhang, L.

10.1101/2023.04.04.535507 — plant biology — Posted on 2025-06-18

2107 PharmAverse: An Interactive Dashboard Using MedDRA Hierarchy

Omran, A.; Fuezi, B.; Amberg, A.; Ecker, G. F.

10.1101/2025.06.17.660110 — pharmacology and toxicology — Posted on 2025-06-18

2108 AlliGator: Open Source Fluorescence Lifetime Imaging Analysis in G

Michalet, X.

10.1101/2025.05.22.655640 — biophysics — Posted on 2025-06-18

2109 PRC1 resists microtubule sliding in two distinct resistive modes due to variations in the separation between overlapping microtubules

Steckhahn, D.; Fiorenza, S.; Tai, E.; Forth, S.; Kramer, P. R.; Betterton, M.

10.1101/2024.12.31.630898 — biophysics — Posted on 2025-06-18

2110 Directional Sensing by Eukaryotic Receptors

Goetz, A.; Dixit, P. D.

10.1101/2024.11.22.624862 — biophysics — Posted on 2025-06-18

2111 From Mechanistic Interpretability to Mechanistic Biology: Training, Evaluating, and Interpreting Sparse Autoencoders on Protein Language Models

Adams, E.; Bai, L.; Lee, M.; Yu, Y.; AlQuraishi, M.

10.1101/2025.02.06.636901 — bioinformatics — Posted on 2025-06-18

2112 ZNF865 (BLST) Regulates Human Cell Senescence and DNA Damage

Lewis, C.; Levis, H.; Holbrook, J.; Polaski, J. T.; Jacobsen, T. D.; Gullbrand, S. E.; Diekman, B. O.; Iatridis, J. C.; Gertz, J.; Lawrence, B.; Bowles, R. D.

10.1101/2025.06.13.659603 — bioengineering — Posted on 2025-06-18

2113 Pseudouridine residues as substrates for serum ribonucleases

Gutierrez, C. S.; Silkenath, B.; Kojasoy, V.; Pich, J. A.; Lim, D. C.; Raines, R. T.

10.1101/2025.06.18.660232 — biochemistry — Posted on 2025-06-18

2114 CP12 controls ribulose 1,5 bisphosphate recycling and carbon acquisition in Chlamydomonas reinhardtii

Gerard, C.; Lebrun, R.; Verthuy, C.; Le Guenno, H.; Kosta, A.; Guerard, F.; Chang, K. S.; Avilan, L.; Gakiere, B.; Jin, E.; Maberly, S. C.; Gontero, B.; Launay, H.

10.1101/2025.06.13.659560 — biochemistry — Posted on 2025-06-18

2115 Spatial proteomics of the human atherosclerotic microenvironment reveals heterogeneity in intra-plaque proteomes and extracellular matrix remodeling

Jokumsen, K. V.; Lorentzen, L. G.; Yeung, K.; Resch, T. A.; Eiberg, J. P.; Davies, M. J.; Gamon, L. F.

10.1101/2025.06.13.659602 — biochemistry — Posted on 2025-06-18

2116 Cooperativity among clustered κB sites within promoters and enhancers dictates transcriptional specificity of NF-κB RelA along with specific cofactors

Shahabi, S.; Biswas, T.; Shen, Y.; Zou, Y.; Sanahmadi, R.; Ghosh, G.

10.1101/2024.07.03.601930 — biochemistry — Posted on 2025-06-18

2117 In mitochondrial disease respiratory complex III2 assembles complex I via toxic intermediate

Ayala-Hernandez, M. G.; Torales, A. B.; Tan, H. C.; Montgomery, C. B.; Padavannil, A.; Cortopassi, G.; Letts, J. A.

10.1101/2025.06.17.660237 — biochemistry — Posted on 2025-06-18

2118 Integrative structural interactomics reveals protein organization and structure in a giant virus

Muehlberg, L.; Ruta, J.; Mikirtumov, V.; Burton-Smith, R. N.; Murata, K.; Kudryashev, M.; Okamoto, K.; Bogdanow, B.; Liu, F.

10.1101/2025.06.16.659922 — biochemistry — Posted on 2025-06-18

2119 Structural and functional clues challenge the hypothesis that the yjdF riboswitch is natively regulated through broad recognition of azaaromatic compounds

Spradlin, S.; Dickerson, K. A.; Batey, R. T.

10.1101/2025.06.18.660367 — biochemistry — Posted on 2025-06-18

2120 Larval diapause slows adult epigenetic ageing in an insect model, Nasonia vitripennis

Foley, E. E.; Thomas, C. L.; Kyriacou, C.; Mallon, E. B.

10.1101/2025.05.22.655466 — genetics — Posted on 2025-06-18

2121 Spatially structured host genetic diversity leads to the evolution of local specialization

Visher, E.; Ali, A.; Barajas, J.; Masud, S.; McBride, A.; Ramos, E.; Sui, M.; Villalobos-Heredia, C.; Walzer, N.; White, P. S.; Boots, M.

10.1101/2023.05.12.540593 — evolutionary biology — Posted on 2025-06-18

2122 Modeling Adeno-Associated Viral Vector 6-mediated In Vivo Gene Delivery to Expanded Non-Mobilized Haemopoietic Stem Cells from Transfusion dependent Thalassemia Patients in a Humanized Mouse

Ramesh, J.; Kandasamy, K.; Yusof, N. N.; Sujuandy, I.; Keng, C. T.; Chen, L.; Chia, B. S.; Liu, M.; Her, Z.; Kukumberg, M.; Sia, K. C.; Mohd Rodhi, S. H.; Fu, Z. Y.; AJ, R.; Franco-Obregon, A.; Choolani, M.; Sesurajan, B. P.; Lai, P.-S.; Lee, S. Y.; Koh, P. L.; Chen, Q.; Gan, S.-U.; Chew, W. L.; Mattar, C. N.

10.1101/2025.06.17.659025 — molecular biology — Posted on 2025-06-18

2123 Intraspecific differences in habitat depth in a deep-sea isopod, Bathynomus doederleini (Crustacea: Isopoda: Cirolanidae), off the west coast of Kyushu, Japan

Anzai, S.; Tanaka, S.; Tsuchida, S.; Kato, R.; Azmi, S. S.; Izumi, S.; Maruyama, Y.; Hoshina, S.; Masumi, S.; Aizawa, I.; Uchida, J.; Kinoshita, T.; Yamawaki, N.; Aoshima, T.; Morii, Y.; Shimizu, K.; Yagi, M.

10.1101/2025.06.13.659626 — ecology — Posted on 2025-06-18

2124 Selective Biogenesis and Structural Diversity Shape tRNA-Derived Fragment Landscapes across Mouse Organs

Ando, D.; Rashad, S.; Niizuma, K.

10.1101/2025.06.18.660468 — molecular biology — Posted on 2025-06-18

2125 The RNA splicing factor Prp45 directs histone H2B ubiquitination through its C-terminal domain

Paul, A.; Johnson, T.

10.1101/2025.06.18.660225 — molecular biology — Posted on 2025-06-18

2126 Inhibitors of trehalose-6-phosphate synthase activity in fungal pathogens compromise thermal tolerance pathways

Miao, Y.; Yadav, V.; Shadrick, W.; Liu, J.; Jenner, A. R.; Nichols, C. B.; Gee, C.; Schäfer, M.; Tenor, J. L.; Perfect, J. R.; Lee, R. E.; Brennan, R. G.; Washington, E. J.

10.1101/2025.03.07.642065 — microbiology — Posted on 2025-06-18

2127 Use of Genome Scale Metabolic Reconstructions of Avian Pathogenic Escherichia coli (APEC) phylogroups for the identification of lineage-specific metabolic pathways

Long, H.; Mehat, J. W.; Wu, H.; van Vliet, A. H. M.; La Ragione, R. M.

10.1101/2024.12.20.629819 — microbiology — Posted on 2025-06-18

2128 Porcine epidemic diarrhea virus infection promotes Peyer's patch immune induction and epithelial defense via single-cell transcriptional reprogramming

Wiarda, J. E.; Arruda, B.; Zanella, E. L.; Kim, H.; Hau, S. J.; Zhang, J.; Buckley, A. C.

10.1101/2025.06.13.659514 — immunology — Posted on 2025-06-18

2129 Flexible and Efficient Use of Visual Motion Features in the Perception of Physical Object Properties

Paulun, V. C.; Bayer, F. S.; Tenenbaum, J. B.; Fleming, R. W.

10.1101/2023.03.24.534031 — neuroscience — Posted on 2025-06-18

2130 The neuroreceptors and transporters underlying spontaneous brain activity

Nakuci, J.; Bansal, K.

10.1101/2024.12.06.627265 — neuroscience — Posted on 2025-06-18

2131 Probing inter-areal computations with a cellular resolution two-photon holographic mesoscope

Abdeladim, L.; Jagadisan, U.; Shin, H.; Ogando, M.; Adesnik, H.

10.1101/2023.03.02.530875 — neuroscience — Posted on 2025-06-18

2132 Attractor-based models for sequences and pattern generation in neural circuits

Londono Alvarez, J.; Morrison, K.; Curto, C.

10.1101/2025.03.07.642121 — neuroscience — Posted on 2025-06-18

2133 A T7 RNAP regulatory toolbox for cell-free network engineering and biosensing applications

Lee, P.-W.; Mottaghi, S. S.; Lugnier, M. G.; Maerkl, S. J.

10.1101/2025.06.18.660355 — synthetic biology — Posted on 2025-06-18

2134 PGR5 is needed for redox-dependent regulation of ATP synthase both in chloroplasts and in cyanobacteria

Nikkanen, L.; Wey, L. T.; Woodford, R.; Mustila, H.; Kosmützky, D.; Ermakova, M.; Rintamäki, E.; Allahverdiyeva, Y.

10.1101/2024.11.03.621747 — plant biology — Posted on 2025-06-18

2135 Programmed downregulation of METTL3 is essential for decidualization in both humans and mice

Hong, Y.-Q.; Jiang, R.-F.; Tang, S.; Yang, X.-Q.; Zhang, M.; Liu, Y.; Zhang, Q.-Y.; Ding, C.-H.; Zheng, Z.-H.; Xu, Y.-W.; Yang, S.-H.; Liu, J.-L.

10.1101/2025.06.14.659666 — physiology — Posted on 2025-06-18

2136 Paracrine Action of Bone Morphogenetic Protein 3 in Pulmonary Arterial Hypertension

Halouani, A.; Mensah, E.; Athumani, Z.; Katz, M. G.; Jankowski, K.; Mansoori, M.; Rosen, V.; Ishikawa, K.; Hadri, L.; Sassi, Y.

10.1101/2025.06.13.659638 — pathology — Posted on 2025-06-18

2137 Smartphone-integrated RPA-CRISPR-Cas12a Detection System with Microneedle Sampling for Point-of-Care Diagnosis of Potato Late Blight in Early Stage

Zhao, J.; xu, h.; Xu, C.; Yin, W.; Luo, L.; Liu, G.; Wang, Y.

10.1101/2025.06.17.660259 — molecular biology — Posted on 2025-06-18

2138 Tissue-specific consequences of tag fusions on protein expression in transgenic mice

Taylor, G. C.; Macdonald, L.; Szulc, N. A.; Gudauskaite, E.; Moran, B. H.; Brisbane, J. M.; Donald, M.; Taylor, E.; Zheng, D.; Gu, B.; Mill, P.; Yeyati, P. L.; Pokrzywa, W.; de Almeida, C. R.; Wood, A. J.

10.1101/2025.06.18.660429 — molecular biology — Posted on 2025-06-18

2139 Boltz-2: Towards Accurate and Efficient Binding Affinity Prediction

Passaro, S.; Corso, G.; Wohlwend, J.; Reveiz, M.; Thaler, S.; Ram Somnath, V.; Getz, N.; Portnoi, T.; Roy, J.; Stark, H.; Kwabi-Addo, D.; Beaini, D.; Jaakkola, T.; Barzilay, R.

10.1101/2025.06.14.659707 — molecular biology — Posted on 2025-06-18

2140 Inactivation of Influenza A Viruses (H1N1, H5N1) During Grana-Type Raw Milk Cheesemaking: Implications for Foodborne Transmission Risk

Moreno, A.; Pongolini, S.; Merialdi, G.; Cattoli, G.; Terregino, C.; Santini, N.; Benedetti, S.; Loli Piccolomini, L.; Padovani, A.; Rosamilia, A.; Alborali, G. L.; Daminelli, P.

10.1101/2025.06.18.660327 — microbiology — Posted on 2025-06-18

2141 Evidence that Entomophthora muscae controls the timing of host death via its own circadian clock

Ulloa, L. T.; Roy, D.; Minichiello, A.; Bechthold, F.; de Bivort, B.; Elya, C.

10.1101/2025.06.18.660419 — microbiology — Posted on 2025-06-18

2142 Denitrification genes in SAR11 and other ubiquitous lineages of marine bacteria isolated from the northern Benguela Upwelling System

Morris, R. M.; Mattes, T. E.; Bubphamanee, K.; Sadler, M. C.; Calderaro, L. A.; Karolewski, J.; Casciotti, K. L.; Mason, O. U.

10.1101/2025.06.18.660415 — microbiology — Posted on 2025-06-18

2143 Pathogenicity and transmissibility of Monkeypox virus in dormice

Chen, Z.; Zhang, L.; Li, L.; Shao, M.; Zhao, Z.; Shang, C.; Liu, Z.; Liu, J.; Liu, Y.; Li, X.; Guo, Z.

10.1101/2025.06.17.660157 — microbiology — Posted on 2025-06-18

2144 Generation of antigen-specific and functionally stable Treg cells from effector/memory T cells for cell therapy of immunological diseases

Mikami, N.; Kawakami, R.; Sugimoto, A.; Arai, M.; Sakaguchi, S.

10.1101/2025.06.13.659621 — immunology — Posted on 2025-06-18

2145 Single administration of mosaic-8b RBD-nanoparticle vaccine prepared with atomic layer deposition technology elicits broadly neutralizing anti-sarbecovirus responses

Cohen, A. A.; Keeffe, J. A.; Rorick, A. V.; Rho, S.; Fils, A.-C. P.; Manasyan, L.; Gao, H.; Gnanapragasam, P. N. P.; Funke, H. H.; Randolph, T. W.; Garcea, R. L.; Bjorkman, P. J.

10.1101/2025.06.16.660007 — immunology — Posted on 2025-06-18

2146 Retro Nasal blockade reduces the Neural Processing of Sucrose in the Human Brain

Ko, H. K.; Shi, J.; Eidenberger, T.; Shi, W.; McCabe, C.

10.1101/2025.02.11.637706 — neuroscience — Posted on 2025-06-18

2147 Gas-sensing neurons prime mitochondrial fitness to offset metabolic stress

Cornell, R.; Handley, A.; Pocock, R.

10.1101/2025.06.18.660458 — neuroscience — Posted on 2025-06-18

2148 AAV gene therapy for GBA-PD and Gaucher Disease

Ayloo, S.; Ryu, J.; Chou, S.-C.; Blatnik, L.; Wischhof, E.; Bu, J.; Guo, L.; Hossain, M.; Ghosh, D.; McCarty, W.; Bryne, A.; Chai, L.; Clarke, J.; Kayatekin, C.; Zhang, B.; Sardi, S. P.; Goulet, M.; Elmer, B.; Mueller, C.; Ramachandran, S.

10.1101/2025.06.17.660133 — neuroscience — Posted on 2025-06-18

2149 Yellow Fever Virus Interactomes Reveal Common and Divergent Strategies of Replication and Evolution for Mosquito-borne Flaviviruses

Kenaston, M. W.; Cherkashchenko, L.; Skawinski, C. L. S.; Fishburn, A. T.; Peddamallu, V.; Florio, C. J.; Robertson, A. E.; Bhattacharya, T.; Young, J. M.; Malik, H. S.; Shah, P. S.

10.1101/2025.06.14.659623 — systems biology — Posted on 2025-06-18

2150 Global Assessment of Ligation Reactions in Self-Assembled DNA Nanostructures at the Single-Nick Level

Hacker, K.; Tomm, E.; Suma, A.; Keller, A.; Zhang, Y.

10.1101/2025.06.18.660358 — synthetic biology — Posted on 2025-06-18

2151 Xylazine and fentanyl co-administration delays wound healing in mice

Bedard, M. L.; Seim, R. F.; Brown, A. R.; Cline, C. A.; Gilley, K. R.; Huffstickler, M.; Nakkala, P. B.; Rausser, S.; Dasgupta, N.; Strickland, J. C.; Coleman, L. G.; McElligott, Z. A.

10.1101/2025.06.18.660449 — pharmacology and toxicology — Posted on 2025-06-18

2152 Poldip2 deficiency attenuates disease severity in a mouse model of COVID-19

Hu, R.; Valdivia, A.; White, T.; Ju, W.; Brockman, M. L.; Zhang, Z.; Qu, H.; Gafford, G.; Joseph, G.; Burton, S.; Bassit, L.; Charles, T. P.; Levit, R. D.; Derdeyn, C. A.; Griendling, K. K.; Lassegue, B.; Hernandes, M. S.

10.1101/2025.06.17.657579 — pathology — Posted on 2025-06-18

2153 Faster R-CNN Model for Predicting Endometrial Cancer Recurrence: A Five-Subclass Approach with Texture Analysis and Validation

Duc Vu, H.; Lee, H. J.; Lee, J.; Lee, H. J.; Youn, S. W.

10.1101/2025.06.13.659644 — cancer biology — Posted on 2025-06-18

2154 Neuronal SEL1L-HRD1 ERAD regulates one-carbon metabolism and is essential for motor function and survival

Torres, M.; Lu, Y.; Pederson, B.; Wang, H.; Gretzinger, A.; Lin, L.; Hwang, J.; Rupp, A.; Tomlinson, A.; Scott, A.; Zhao, Z.; Wahl, D.; Myers, M. G.; Lyssiotis, C. A.; Qi, L.

10.1101/2025.06.16.659938 — cell biology — Posted on 2025-06-18

2155 The Luminal Ring Protein C2CD3 Acts as a Radial In-to-Out Organizer of the Distal Centriole and Appendages

Bertiaux, E.; Louvel, V.; McCafferty, C.; van den Hoek, H.; Batman, U.; Mukherjee, S.; Bournonville, L.; Mercey, O.; Mean, I.; Mueller, A.; Van der Stappen, P.; Buss, G.; Daraspe, J.; Genoud, C.; Stearns, T.; Engel, B. D.; Hamel, V.; Guichard, P.

10.1101/2025.06.17.660204 — cell biology — Posted on 2025-06-18

2156 E2f coordinates the cell cycle and cell fate of hematopoietic progenitors to drive stress myelopoiesis

Viatour, P.; Cachon, A.; Crosier, G.; Kim, E.; Hayer, K.; Narravula, Y.; Hino, L.; Kjelstrom, S.; Tober, J.; Tan, K.; Speck, N. A.

10.1101/2025.06.16.659412 — cell biology — Posted on 2025-06-18

2157 Twinfilin is a potent uncapper of actin capping protein and modulates actomyosin contractility in the C. elegans spermatheca

Saini, A.; Kreizman, S.; Towsif, E.; Martinez-Lopez, J.; Maimon Zielonka, I.; Nitzan, A.; Rudnik, L.; Shekhar, S.; Zaidel-Bar, R.

10.1101/2025.06.17.660173 — cell biology — Posted on 2025-06-18

2158 The Mediator complex subunit Med19 extends healthy lifespan in Drosophila by preventing cellular and organismal frailty

Payet, A.; Guillou, E.; Bernat-Fabre, S.; Dromard-Berthezene, C.; Contreras, X.; Rivero, A.; Jullien, D.; BOURBON, H.-M.; FRENDO, J.-L.; Sengenes, C.; BOUBE, M.

10.1101/2025.06.18.659864 — cell biology — Posted on 2025-06-18

2159 Cytoprotective roles of "E3 ubiquitin ligases-NF-κB-autophagy" axis in Pacific oysters Crassostrea gigas exposed to phenanthrene

Guo, Z.; Zhu, Z.; Ma, H.; Du, H.; Tan, R.; Wang, W.; Ru, S.; Cui, P.

10.1101/2025.06.15.659737 — cell biology — Posted on 2025-06-18

2160 NSD1 governs H3K36me2-mediated DNA methylation and drives differentiation of human iPSCs by regulating HIDEN lncRNA expression

Hansknecht, A.; Mankarious, M.; Baranda, M. V.; Torlak, E. D.; Wagner, W.; Zeevaert, K.; Puri, D.

10.1101/2025.06.16.659867 — cell biology — Posted on 2025-06-18

2161 ERM proteins regulate the shape and number of Endoplasmic Reticulum-Plasma Membrane Junctions in neurons

Deng, H.; Cheng, J.; Fetter, R. D.; Qin, G.; Zhang, J.; Liang, X.; Taylor, C.; Zhang, M.; Wu, X.; Shen, K.

10.1101/2025.06.18.660273 — cell biology — Posted on 2025-06-18

2162 FOXM1 Inhibition Promotes Polyploidization and Metabolic Maturation in Human iPSC-Derived Hepatocytes by Modulating the Wnt/β-Catenin Pathway

Telles-Silva, K. A.; Pacheco, L.; Komatsu, S.; Chianca, F.; Chagas, G.; Martins, G. C.; Gridina, M.; Panchenko, D.; Carvalho, V. M.; Caldini, E. G.; Fishman, V. S.; Arkin, M.; Goulart, E.; Zatz, M.

10.1101/2025.06.17.660221 — cell biology — Posted on 2025-06-18

2163 Long term trend and short-term dynamics of a willow grouse population

Willebrand, T.; Hornell-Willebrand, M.; Brittas, R.; Kleiven, E.

10.1101/2023.05.03.539219 — ecology — Posted on 2025-06-18

2164 Altered epithelial development of the lateral ventricle choroid plexus in Mllt11 mutants

Moore, S.; Stanton-Turcotte, D.; Witt, E. A.; Iulianella, A.

10.1101/2025.02.27.640680 — developmental biology — Posted on 2025-06-18

2165 Salicylic Acid Engages Central Metabolic Regulators SnRK1 and TOR to Govern Immunity by Differential Phosphorylation of NPR1

Chen, Y.; Withers, J.; Chen, T.; Karapetyan, S.; Draken, J.; Xiang, Y.; Droege-Laser, W.; Dong, X.

10.1101/2025.06.17.660129 — plant biology — Posted on 2025-06-18

2166 An ERF transcription factor StPTI5, a novel regulator of endophyte community maintenance in potato

Lukan, T.; Kraigher, B.; Pogacar, K.; Stare, K.; Grubar Kovacic, T.; Zagorscak, M.; Petek, M.; Stefanic, P.; Vozelj, A.; Levak, V.; Mahkovec Povalej, T.; Garcia, J. M.; Pozo, M. J.; Mandic-Mulec, I.; Gruden, K.

10.1101/2025.04.24.650297 — plant biology — Posted on 2025-06-18

2167 Wearable Assessment of Level and Uphill Running at Critical Intensity

Kirner, N. D. A.; Hoogkamer, W.

10.1101/2025.04.25.650654 — physiology — Posted on 2025-06-18

2168 Transparent transfer-free multilayer graphene microelectrodes enable high quality recordings in brain slices

Alvarez de Eulate, N.; Pavlou, C.; Leon Gonzalez, G.; Holzapfel, L.; Gao, Z.; Vollebregt, S.; Giagka, V.

10.1101/2025.06.13.657566 — bioengineering — Posted on 2025-06-18

2169 A computational model to study hemodynamics during atrial fibrillation

Plappert, F.; Oomen, P. J. A.; Jones, C. E.; Charitakis, E.; Karlsson, L. O.; Platonov, P. G.; Wallman, M.; Sandberg, F.

10.1101/2025.06.13.659399 — bioengineering — Posted on 2025-06-18

2170 Monitoring of vaccine targets and interventions using global genome data: vaccines.watch

David, S.; Abudahab, K.; Couto, N.; Daningrat, W. O. D.; Yeats, C.; Molloy, A.; Ashton, P. M.; Alikhan, N.-F.; Aanensen, D. M.; NIHR Global Health Research Unit on Genomics and enabling data for Surveillance of AMR,

10.1101/2025.06.13.659488 — genomics — Posted on 2025-06-18

2171 Flight trajectory modeling reveals species-specific obstacle avoidance policies in echolocating bats

Teshima, Y.; Genda, S.; Aoki, Y.; Fujisawa, M.; Hiryu, S.; Fujii, K.

10.1101/2025.06.13.659477 — ecology — Posted on 2025-06-18

2172 Mapping Haemagglutinin Residues Driving Antigenic Diversity in H5Nx Avian Influenza Viruses

Daines, R.; Sadeyen, J.-R.; Chang, P.; Iqbal, M.

10.1101/2025.06.18.660338 — immunology — Posted on 2025-06-18

2173 Enhancing salt tolerance in a hybrid poplar (Populus nigra x maximowiczii) through exogenous putrescine application: Growth, physiological, and biochemical responses

Kundu, S.; Weerasinghe, M.; Gagne, M.; Long, S.; Minocha, R.; Minocha, S.

10.1101/2025.06.04.657897 — plant biology — Posted on 2025-06-18

2174 An index-based system for early alerts of potential zoonotic disease outbreaks

Angelo, J.; Abdala, L.; Augusto, D. A.; Chame, M.; Krempser, E.

10.1101/2025.06.17.660271 — bioinformatics — Posted on 2025-06-18

2175 A Tunable Pulmonary Organoid Model Demonstrates Compositionally Driven Epithelial Plasticity and Immune Polarization

Edelstein, S. E.; Mizoguchi, S.; Gracia, M. T.; Wang, N.; Lee, V.; Kim, H.; Haynes, C.; Danelski, C.; Tsuchiya, T.; Sauler, M.; Raredon, M. S. B.

10.1101/2025.06.05.658120 — bioengineering — Posted on 2025-06-18

2176 Nucleotide Asymmetry and Flexible Linker Dynamics Modulate Drug Efflux Cycle of P-glycoprotein, a Computational Study

Han, S. B.; Warwicker, J.; Fan, H.; Prince, S. M.

10.1101/2025.06.15.659754 — biochemistry — Posted on 2025-06-18

2177 Proteomic study for the prediction of μCT imaging with iodine

Wesp, V.; Barf, L.-M.; Stark, H.

10.1101/2025.04.22.649994 — biochemistry — Posted on 2025-06-18

2178 In-depth analysis of the tear fluid glycoproteome reveals diverse lacritin glycosylation and spliceoforms

Chang, V.; Mahoney, K. E.; Lian, I.; Chen, R.; Chung, N.; Paaske Utheim, T.; Karlsson, N. G.; Malaker, S. A.

10.1101/2025.06.13.659589 — biochemistry — Posted on 2025-06-18

2179 Gluconeogenesis in Aqueous Microdroplets: Non-Enzymatic Generation of Glucose

Ko, J.; Kim, Y.; Lee, J.; Lee, J. K.

10.1101/2025.06.17.660170 — evolutionary biology — Posted on 2025-06-18

2180 The glycolipid transfer protein GLTP as a mediator of vesicular transport of ceramide

Nurmi, H.; Englund, L.; Henriksson, A.; Lönnfors, M.; Mattjus, P.

10.1101/2025.06.17.657375 — cell biology — Posted on 2025-06-18

2181 POMT-dependent O-mannosylation regulates integrin β1 maturation via N-glycan processing

Alam, S.; Noor, S. I.; Hoffmann, M.; Lommel, M.; Thiel, C.; Rapp, E.; Strahl, S.

10.1101/2025.06.18.660317 — cell biology — Posted on 2025-06-18

2182 Wnt induces FZD5/8 endocytosis and degradation and the involvement of RSPO-ZNRF3/RNF43 and DVL

Luo, D.; Zheng, J.; Lv, S.; Sheng, R.; Chen, M.; He, X.; Zhang, X.

10.1101/2024.10.18.619000 — cell biology — Posted on 2025-06-18

2183 The Effects of Intraspecies and Interspecies Competition on Genetic Device Construction and Performance

Thompson, S.; Williams, A. R.; Dill, V.; Marshall, D.; Sawyer, E.; Alexander, M.; Rahn-Lee, L.; Shih, J. D.

10.1101/2025.06.17.660092 — synthetic biology — Posted on 2025-06-18

2184 Nucleosome-mediated conformational switches in micro-eccDNAs

Harris, S.; Velasco Berrelleza, V. M.; Sandel, W.; Sutthibutpong, T.; Parikh, V.; Ashley, E.; Fire, A.; Levene, S. D.; Bishop, T. C.; Shoura, M.

10.1101/2025.06.14.659616 — biophysics — Posted on 2025-06-18

2185 Pathogen effector forms a hexameric phosphatase holoenzyme with host core enzyme to promote disease

Wang, J.; Li, H.; Sun, W.; Wang, J.; Fang, X.; Yang, X.; Liu, C.; Sheng, G.; Ma, W.; Wang, Y.

10.1101/2025.06.14.659724 — biophysics — Posted on 2025-06-18

2186 Lipid-Driven Alignment and Binding of p7 Dimers in Early Oligomer Assembly

Campbell, O.; Dahhan, D.; Monje, V.

10.1101/2025.06.13.659606 — biophysics — Posted on 2025-06-18

2187 Scaling k-Means for Multi-Million Frames: A Stratified NANI Approach for Large-Scale MD Simulations

Santos, J. B. W.; Chen, L.; Quintana, R. A. M.

10.1101/2025.06.15.659780 — biophysics — Posted on 2025-06-18

2188 Proximity-based super-resolution imaging enabled by DNA base-stacking interactions

Banerjee, A.; Yadav, S.; Vidwath, V. S.; Kalita, S.; Agasti, S.; Joshi, H.; Ganji, M.

10.1101/2025.06.14.659733 — biophysics — Posted on 2025-06-18

2189 RNA Selectively Modulates Activity of Virulent Amyloid PSMα3 and Host Defense LL-37 via Phase Separation and Aggregation Dynamics

Rayan, B.; Barnea, E.; Indig, R.; Pantoja, C. F.; Gayk, J.; Lupu-Haber, Y.; Upcher, A.; Argoetti, A.; Aunstrup Larsen, J.; Buell, A. K.; Zweckstetter, M.; Landau, M.

10.1101/2025.06.17.660072 — biophysics — Posted on 2025-06-18

2190 Sequence-based prediction of condensate composition reveals that specificity can emerge from multivalent interactions among disordered regions

Wessen, J.; De La Cruz, N.; Lyons, H.; Chan, H. S.; Sabari, B.

10.1101/2025.06.13.659429 — biophysics — Posted on 2025-06-18

2191 Lubricin's Mucin Domain Has Strong Polyproline Type-II Helical Character

Feng, B. N.; Mark, A. J.; Kim, F. S.; Naik, M. T.; Schimdt, T. A.; Elsaid, K.; Jay, G. D.; Rubenstein, B.

10.1101/2025.06.15.659778 — biophysics — Posted on 2025-06-18

2192 Motor-driven modulation of actin network mechanics across linear and nonlinear regimes

Nkusi, B. I.; Thomas, M.; Gurmessa, B. J.

10.1101/2025.06.15.659806 — biophysics — Posted on 2025-06-18

2193 Screening de novo designed protein binders in unpurified lysate using flow induced dispersion analysis

Pinheiro, F.; Nowak, J. S.; Zueva, E.; Pheasant, E. C.; Kjaersgaard Grene, I.; Lampinen, V.; Kjaergaard, M.

10.1101/2025.06.17.660127 — biophysics — Posted on 2025-06-18

2194 CellOntologyMapper: Consensus mapping of cell type annotation

Zeng, Z.; Wang, X.; Du, H.

10.1101/2025.06.10.658951 — bioinformatics — Posted on 2025-06-18

2195 Small molecule modulators of TOX protein re-invigorate T cell activity

Wu, B.; Chang, H. J.; Singh, P.; Hostetler, A.; Xiang, Y.; Guo, S.; Wang, F. Y.; Zhong, J. J.; Leifer, B. S.; Schiavoni, R. P.; Jiang, N.; Choudhary, A.; Westcott, P. M. K.; Koehler, A. N.

10.1101/2025.03.03.641115 — biochemistry — Posted on 2025-06-18

2196 Cultural and morphological divergence of Darwin's cactus finches (Geospiza scandens) across the Galapagos Islands

Kaluppa, M.; Garcia-Loor, J.; Yelimlies, A.; Akcay, C.; Kleindorfer, S.

10.1101/2025.06.18.660308 — animal behavior and cognition — Posted on 2025-06-18

2197 Possible exposure to unidentified coronaviruses in roe deer (Capreolus capreolus) populations suggested by SARS-CoV-2 serological investigation in France

Perez, G.; Lalande, L. D.; Legros, V.; Kodjo, A.; Verheyden, H.; Bourret, V.; Cebe, N.; Chaval, Y.; Revelli, P.; Pellerin, M.; Lemaitre, J.-F.; Peroz, C.; Rey, B.; Debias, F.; Garcia, R.; Bourgoin, G.; Gilot-Fromont, E.

10.1101/2025.02.19.639030 — immunology — Posted on 2025-06-18

2198 Conserved cell state dynamics reveal targetable resistance patterns in ovarian high-grade serous carcinoma

Pirttikoski, A.; Gall-Mas, L.; Senkowski, W.; Fontaneda-Arenas, D.; Marin Falco, M.; Erkan, E. P.; Hynninen, J.; Wennerberg, K.; Vaharautio, A.

10.1101/2025.06.13.659489 — cancer biology — Posted on 2025-06-18

2199 The Lipocone Superfamily: A Unifying Theme In Metabolism Of Lipids, Peptidoglycan And Exopolysaccharides, Inter-Organismal Conflicts And Immunity

Burroughs, A. M.; Nicastro, G. G.; Aravind, L.

10.1101/2025.01.14.632903 — bioinformatics — Posted on 2025-06-18

2200 Artificial Cells Evidence Apical Compressive Forces Building up During Neuroepithelial Organoid Early Development

Kanso, H.; Di Cio, S.; Rose, R. S.; Palacios, I. I.; Gautrot, J.

10.1101/2025.06.13.659497 — bioengineering — Posted on 2025-06-18

2201 On-skin, micro-objective enabled camera module for speckle contrast optical spectroscopy/tomography

Quiroga Soto, A. F.; Cortese, L.; Verma, M.; Dannberg, P.; Tachtsidis, I.; Danz, N.; Durduran, T.

10.1101/2025.06.12.659250 — bioengineering — Posted on 2025-06-18

2202 A genome-wide association study implicates the olfactory system in Drosophila diapause-associated lifespan extension and fecundity

Easwaran, S.; Montell, D.

10.1101/2024.03.10.584341 — genetics — Posted on 2025-06-18

2203 Shouldering the challenge of deciphering avian palate evolution

Benito, J.; Kuo, P.-C.; Torres, C. R.; Navalon, G.; Plateau, O.; Clark, A. D.; Steell, E. M.; Field, D. J.

10.1101/2025.06.10.658509 — evolutionary biology — Posted on 2025-06-18

2204 Thymic DC2 are heterogenous and include a novel population of transitional dendritic cells

Hogquist, K. A.; Voboril, M.; Sulczewski, F. B.; Martinez, R. J.; Ashby, K. M.; Valerio, M. M.; Idoyaga, J.

10.1101/2025.06.13.659520 — immunology — Posted on 2025-06-18

2205 Cellular composition of tissue-resident monocyte-lineage cells reveal functional heterogeneity during inflammatory arthritis

Wang, Y.; Dowlilng, S.; Maciuch, J.; Rodriguez, V.; Mayer, M.; Mian, K.; Therron, T.; Makinde, H. M.; Cuda, C.; Winter, D. R.; Perlman, H.

10.1101/2025.06.13.659432 — immunology — Posted on 2025-06-18

2206 A Humanized Mouse Model of Oral Squamous Cell Carcinoma for Investigating Resistance to Anti-PD1 Immunotherapy

Chakraborty, A. K.; Choudhury, C.; Raut, R. D.; Bais, M. V.

10.1101/2025.06.13.659630 — cancer biology — Posted on 2025-06-18

2207 Prediction of soil probiotics based on foundation model representation enhancement and stacked aggregation classifier

Kang, Q.; Sun, H.; Wang, Y.; Fang, X.; Li, Y.; Zhang, Y.; Wei, T.; Yin, P.

10.1101/2025.06.13.659431 — bioinformatics — Posted on 2025-06-18

2208 Multiresolution Clustering of Genomic Data

Turfah, A.; Wen, X.

10.1101/2025.06.13.659529 — bioinformatics — Posted on 2025-06-18

2209 Reversible Sandwich-Based Particle Nanoswitch for Continuous Protein Monitoring at Picomolar Concentrations with Automated Calibration

Michielsen, C. M. S.; Yan, J.; Lin, Y.-T.; Bergkamp, M. H.; Haenen, S. R. R.; Lubken, R. M.; Grawe, A.; Swietlikowska, A.; de Jong, A.; Prins, M. W. J.

10.1101/2025.06.13.659459 — bioengineering — Posted on 2025-06-18

2210 Machine Learning-Assisted Pathway Optimization in Large Combinatorial Design Spaces: a p-Coumaric Acid Case Study

Abeel, T.; van Lent, P.; Hoek, R. v. d.; Schmitz, J.; Paz, S. M.; Kooi, I.; Jonkers, M.; Zwartjens, P.

10.1101/2025.06.13.659482 — bioengineering — Posted on 2025-06-18

2211 Urban green infrastructure fails to mitigate exposure to mercury with increasing pollution levels: evidence from corvids

Ciach, M.; Binkowski, L. J.; Frohlich, A.; Kucharska, K.

10.1101/2025.06.13.659450 — ecology — Posted on 2025-06-18

2212 Cross-scale visualization of RNA dynamics in whole plants using an RNA-triggered reporting system

Bai, J.; Chen, Y.; Zhang, J.; Li, J.; Ren, H.; Pan, S.; Tao, Y.; Lei, M.; Dong, M.; Liu, S.; Yi, J.; Chen, F.; Fan, C.; Zhao, Y.

10.1101/2025.03.03.641157 — molecular biology — Posted on 2025-06-18

2213 Internal Resonance Dynamics in a Delayed van der Pol Oscillator Modeling Basal Ganglia Oscillations

Elfouly, M. A. A.; Amer, T. S.

10.1101/2025.06.16.660028 — neuroscience — Posted on 2025-06-18

2214 Population-specific brain charts reveal Chinese-Western differences in neurodevelopmental trajectories

Sun, L.; Qin, W.; Liang, X.; Wang, C.; Men, W.; Duan, Y.; Fan, X.-R.; Cai, Q.; Qiu, S.; Wang, M.; Gong, Q.; Tian, Y.; Liang, P.; Liu, Z.; Zhang, X.; Song, H.; Ye, Z.; Zhang, P.; Dong, Q.; Tao, S.; Zhu, W.; Zhang, J.; Xie, F.; Feng, J.; Zhang, J.; Liu, C.; Qian, Q.; Zhang, B.; Meng, M.; Hu, L.; Gao, J.-H.; Jiang, T.; Zhu, X.; Zhang, Y.; Liu, L.; Liu, H.; Liao, W.; Wang, D.; Wang, H.; Guo, T.; Dai, Z.; Lui, S.; Xu, K.; Li, L.; Xie, P.; Feng, C.; Cui, G.; Wu, J.; Yin, X.; Ding, G.; Xian, J.; Zhao, L.; Lu, J.; Liu, Z.; Han, Y.; Yuan, Z.; Zhang, X.; Si, T.; Zhou, F.; Bi, Y.; Wu, D.; Gao, F.; Wang,

10.1101/2025.06.17.659820 — neuroscience — Posted on 2025-06-18

2215 Identification of novel exosomal miRNAs and their role in diagnosis and prognosis of Triple Negative Breast Cancer

Das, B. C.; Choudhary, A.; Poojary, S.; Jain, P.; Chaturvedi, H.

10.1101/2025.06.13.659272 — cancer biology — Posted on 2025-06-18

2216 Oops: A Language for Formalizing Fallible Biological Protocols

Shang, M.; Klavins, E.; Bernstein, G.

10.1101/2025.06.17.660245 — bioinformatics — Posted on 2025-06-18

2217 An index-based system for early alerts of potential zoonotic disease outbreaks

Angelo, J.; Abdala, L.; Augusto, D. A.; Krempser, E.; Chame, M.

10.1101/2025.06.17.660271 — bioinformatics — Posted on 2025-06-18

2218 Immune pathways and perinatal environmental exposures contribute to epigenetic gestational age prediction and acceleration

Eapen, A. A.; Loveless, I. M.; Pan, M.; Liang, X.; Straughen, J.; Cassidy-Bushrow, A.; Sitarik, A. R.; Simmerman, N.; Thompson, E. E.; Kottyan, L.; Ober, C.; Johnson, C. C.; Zoratti, E.; Levin, A. M.

10.1101/2025.06.13.659090 — genomics — Posted on 2025-06-18

2219 A short conserved sequence in the HOT region of the C. elegans dlg-1 gene largely recapitulates its transcriptional behavior during embryogenesis

Tocchini, C.; Bassett, P.; Mango, S. E.

10.1101/2025.06.13.659077 — genetics — Posted on 2025-06-18

2220 An auxin-inducible degron system for trypanosomes

Carrington, M.; Klein, A.; McDowell, A.; Moura, D.; Reis, C. R. S.; de Freitas Nascimento, J.; Pontes de Lima, R.; de Melo Neto, O. P.

10.1101/2025.06.17.660065 — molecular biology — Posted on 2025-06-18

2221 High-resolution in situ structures of hantavirus glycoprotein tetramers

Guo, L.; McFadden, E.; Slough, M. M.; Stone, E. T.; Berrigan, J.; Mittler, E.; Hatzakis, K.; Hinkley, T.; Kain, H.; Ke, Z.; Warner, N. L.; Erasmus, J. H.; Chandran, K.; McLellan, J. S.

10.1101/2025.06.17.660152 — microbiology — Posted on 2025-06-18

2222 Nucleotide context models outperform protein language models for predicting antibody affinity maturation

Johnson, M. M.; Sung, K.; Haddox, H. K.; Vora, A. A.; Araki, T.; Victora, G. D.; Song, Y. S.; Fukuyama, J.; Matsen, F. A.

10.1101/2025.06.16.659977 — immunology — Posted on 2025-06-18

2223 JiSuJi, a virtual muscle for small animal simulations, accurately predicts force from naturalistic spike trains

Jiang, W.; Adam, I.; Gladman, N.; Sober, S. J.; Xue, Q.; Elemans, C. P.; Zheng, X.

10.1101/2025.06.16.659528 — neuroscience — Posted on 2025-06-18

2224 Larvaworld : A behavioral simulation and analysis platform for Drosophila larva

Sakagiannis, P. P.; Rapp, H.; Jovanic, T.; Nawrot, M. P.

10.1101/2025.06.15.659765 — neuroscience — Posted on 2025-06-18

2225 How musicality enhances top-down and bottom-up selective attention: Insights from precise separation of simultaneous neural responses

Manting, C. L.; Pantazis, D.; Gabrieli, J.; Lundqvist, D.

10.1101/2024.08.23.609277 — neuroscience — Posted on 2025-06-18

2226 PharmAverse: An Interactive Dashboard Using MedDRA Hierarchy

Omran, A.; Fuezi, B.; Amberg, A.; Ecker, G. F.

10.1101/2025.06.17.660110 — pharmacology and toxicology — Posted on 2025-06-18

2227 A guide to the in vitro reconstitution of Cdc42 GTPase activity and its regulation

Tschirpke, S.; van Opstal, F.; van der Valk, R.; Daalman, W. K.-G.; Laan, L.

10.1101/2023.04.24.538075 — biochemistry — Posted on 2025-06-18

2228 Prokrustean Graph: A substring index for rapid k-mer size analysis

Park, A.; Koslicki, D.

10.1101/2023.11.21.568151 — genomics — Posted on 2025-06-18

2229 A population genetic analysis of the nematode Strongyloides stercoralis in Asia shows that human infection is not a zoonosis from dogs.

Liu, Y.; Sarker, A. H. M. R.; Sripa, B.; Tangkawatta, S.; Khieu, V.; Nevin, W.; Paterson, S.; Viney, M.

10.1101/2024.11.29.625877 — genetics — Posted on 2025-06-18

2230 From phenotype to receptor: validating physiological clustering of Escherichia coli phages through comprehensive receptor analysis

Kaneko, T.; Osaka, T.; Inagaki, M.; Habe, K.; Okabe, T.; Tsuneda, S.

10.1101/2024.11.29.626071 — microbiology — Posted on 2025-06-18

2231 Quantitative Real-Time PCR Detection of Inactivated H5 Avian Influenza Virus in Raw Milk Samples by Miniaturized Instruments Designed for On-Site Testing

Hsiao, C.-C.; Lin, C.-C.; Chen, Y.-M.; Cheng, M.-C.; Davison, S.; Ma, J.; Dai, H.-L.

10.1101/2025.06.02.657307 — microbiology — Posted on 2025-06-18

2232 Real-cyber hybrid neural network for predicting neural circuits in mouse decision-making

Ueoka, Y.; Maeda, H.; Wang, S.; Funamizu, A.

10.1101/2024.10.15.618576 — neuroscience — Posted on 2025-06-18

2233 Regional heterogeneities of oligodendrocytes underlie biased Ranvier node spacing along single axons in sound localization circuit

Egawa, R.; Hiraga, K.; Matsui, R.; Watanabe, D.; Kuba, H.

10.1101/2024.11.20.624589 — neuroscience — Posted on 2025-06-18

2234 Population sparseness determines strength of Hebbian plasticity for maximal memory lifetime in associative networks

Auer, N.; Chen, L.; Stubenrauch, J.; Lindner, B.; Kempter, R.

10.1101/2025.06.16.659837 — neuroscience — Posted on 2025-06-18

2235 Coupling between membrane undulations and lipid curvature leads to transient local enrichment of cardiolipin in mitochondrial membranes

Lee, C. T.; Venkatraman, K.; Budin, I.; Rangamani, P.

10.1101/2025.01.17.633669 — biophysics — Posted on 2025-06-18

2236 MultiNMRFit: A software to fit 1D and pseudo-2D NMR spectra

Millard, P.; Le Gregam, L.; Dubiley, S.; Gabrielli, V.; Gosselin-Monplaisir, T.; Lippens, G.; Charlier, C.

10.1101/2024.12.19.629408 — bioinformatics — Posted on 2025-06-18

2237 An artificial nervous system for communication between wearable and implantable therapeutics

Ghanim, R.; Lee, Y. J.; Byun, G.; Jackson, J.; Ding, J. Z.; Feller, E.; Kim, E.; Aygun, D.; Kaushik, A.; Cig, A.; Park, J.; Healy, S.; Cunin, C. E.; Gumyusenge, A.; Yeo, W. H.; Abramson, A.

10.1101/2025.06.04.657863 — bioengineering — Posted on 2025-06-18

2238 Conformational Dynamics and Catalytic Backups in a Hyper-Thermostable Engineered Archaeal Protein Tyrosine Phosphatase

Yehorova, D.; Alansson, N.; Shen, R.; Denson, J. M.; Robinson, M.; Risso, V. A.; Molina, N. R.; Loria, J. P.; Gaucher, E.; Sanchez-Ruiz, J. M.; Hengge, A. C.; Johnson, S.; Kamerlin, S. C. L.

10.1101/2025.03.26.645524 — biochemistry — Posted on 2025-06-18

2239 Discovery of microsized RNA-derived RNAs and polypeptides in human cells

Huang, X.; Wu, H.; Zhong, W.; Li, W.; Liu, Z.; Yang, Z.; Zhao, M.; Xi, X.; Cao, B.; Pu, Y.; Kong, X.; Zhao, H.; Zhang, R.; Lai, K.; Lv, X.; Lv, Y.; Bao, J.; Wang, M.; Xiong, Y.; Liang, X.; Wu, X.; Wei, Z.; Xiong, Y.; Zhong, J.; Zhang, J.; Omenn, G. S.; Hu, Y.; Xu, J.; Zhang, G.; Chen, Y. E.; Chen, S.

10.1101/2023.04.24.538138 — biochemistry — Posted on 2025-06-18

2240 High-dose Vitamin C Blocks HOCl Production by Myeloperoxidase: A Potential Therapeutic Strategy

Peskin, A. V.; Magon, N. J.; Bozonet, S. M.

10.1101/2024.12.05.627077 — biochemistry — Posted on 2025-06-18

2241 Oligomerization-dependent and synergistic regulation of Cdc42 GTPase cycling by a GEF and a GAP

Tschirpke, S.; Daalman, W. K.-G.; van Opstal, F.; Laan, L.

10.1101/2023.06.26.546500 — biochemistry — Posted on 2025-06-18

2242 Deep Learning Improves Parameter Estimation in Reinforcement Learning Models

Xiong, H.-D.; Ji-An, L.; Mattar, M. G.; Wilson, R. C.

10.1101/2025.03.21.644663 — animal behavior and cognition — Posted on 2025-06-18

2243 Parental stress alters the fitness effects and genetic correlation of offspring performance traits and their gene expression pathways

Bogan, S. N.; Strader, M. E.; Hofmann, G. E.

10.1101/2024.10.07.617098 — evolutionary biology — Posted on 2025-06-18

2244 Temperature and pH universally govern protein diversity in hydrothermal spring communities, but they do so differently

Rivas-Santisteban, J.; Alcorta, J.; Diez, B.; Tamames, J.; Pedros-Alio, C.

10.1101/2025.06.12.659262 — evolutionary biology — Posted on 2025-06-18

2245 Cell Adhesion-Dependent Biphasic Axon Outgrowth Elucidated by Femtosecond Laser Impulse

Yamada, S.; Baba, K.; Inagaki, N.; Yoichiroh, H.

10.1101/2021.10.10.463848 — cell biology — Posted on 2025-06-18

2246 Overlapping yet Distinct Functions of VMP1 and TMEM41B in Modulating Hepatic Lipoprotein Secretion and Autophagy

Chen, A.; Nguyen, K.; Jiang, X.; Yu, X.; Xie, Y.; Liu, W.; Davidson, N.; Ding, W.-X.; Ni, H.-M.

10.1101/2025.04.07.647617 — cell biology — Posted on 2025-06-18

2247 Delta40p53 plays a distinct regulatory role in maintaining cellular homeostasis by controlling SGSH expression via miR-4651-5p

Pal, A.; Ghosh, P. K.; Ghosh, S.; Tripathi, S. K.; Patra, S.; Khan, D.; Maitra, A.; Das, S.

10.1101/2023.04.04.535506 — molecular biology — Posted on 2025-06-18

2248 Tandem sulfofucolytic-sulfolactate sulfolyase pathway for catabolism of the rare sulfosugar sulfofucose

Stewart, A.; Li, J.; Lee, M.; Lewis, J. M.; Herisse, M.; Hofferek, V.; McConville, M. J.; Pidot, S. J.; Scott, N. E.; Williams, S. J.

10.1101/2023.08.01.551581 — microbiology — Posted on 2025-06-18

2249 A first-in-kind MAPK13 inhibitor corrects stem cell reprogramming and muco-obstructive lung disease

Zhang, Y.; Wu, K.; Mao, D.; Iberg, C. A.; Yin-Declue, H.; Sun, K.; Wikfors, H. A.; Keeler, S. P.; Li, M.; Young, D.; Yantis, J.; Crouch, E. C.; Chartock, J. R.; Han, Z.; Broschat, K. O.; Byers, D. E.; Brody, S. L.; Romero, A. G.; Holtzman, M. J.

10.1101/2024.08.21.608990 — immunology — Posted on 2025-06-18

2250 Sub-second analysis of locomotor activity in Parkinsonian mice

Berezhnoi, D.; Chehade, H. D.; Simms, G.; Chen, L.; SIVANVAYAL NARASIMHAN, K. K.; Dravid, S.; Chu, H.-Y.

10.1101/2024.12.26.630411 — neuroscience — Posted on 2025-06-18

2251 Longitudinal Habituation and Novelty Detection neural responses from infancy to early childhood in The Gambia and UK

Blasi Ribera, A.; Blanco Maniega, B.; McCann, S.; Mbye, E.; Touray, E.; Rozhko, M.; Milosavljevic, B.; Katus, L.; Saidykhand, M.; Ceesay, M.; Fadera, T.; Ghillia, G.; Perapoch Amado, M.; Crespo-Llado, M. M.; Moore, S. E.; Elwell, C. E.; Lloyd-Fox, S.

10.1101/2025.05.23.655801 — neuroscience — Posted on 2025-06-18

2252 Unintended bias in the pursuit of collinearity solutions in fMRI analysis

Mumford, J. A.; Demidenko, M. I.; Bjork, J. M.; Chaarani, B.; Feczko, E. J.; Garavan, H. P.; Hagler, D. J.; Nelson, S. M.; Wager, T. D.; Poldrack, R. A.

10.1101/2025.01.14.633053 — neuroscience — Posted on 2025-06-18

2253 Partial Input Loss Differentially Modifies Neural Pathways

Lee, J. Y.; Kastner, D. B.; Harris, S. C.; Santina, L. D.; John, J. V.; Stone, N. S.; Dunn, F. A.

10.1101/2025.02.14.638366 — neuroscience — Posted on 2025-06-18

2254 Astrocytes modulate neuronal development by S100A6 signaling

Harkany, T.; Cinquina, V.; Calvigioni, D.; Tretiakov, E. O.; Piscitelli, F.; Keimpema, E.; Di Marzo, V.; Verkhratsky, A.

10.1101/2023.09.05.556314 — neuroscience — Posted on 2025-06-18

2255 Replay of episodic experience in human infants

Postzich, C. M.; Finnemann, J.; Skeide, M. A.

10.1101/2025.06.12.659246 — neuroscience — Posted on 2025-06-18

2256 Ketone body driven lipid remodeling supports thermogenic adaptation to fasting

Moazzami, Z.; Queathem, E. D.; Ma, J.; Chen, Q.; Arianti, R.; Aden, I.; Brown, A.; Abdulahi, Z.; Gu, C.; Chang, X.; Li, Y.; Yu, H.; Bartolomucci, A.; Panda, S.; Mashek, D. G.; Kristof, E.; Puchalska, P.; Chow, L. S.; Jia, Z.; Crawford, P. A.; Ruan, H.-B.

10.1101/2025.06.13.659540 — physiology — Posted on 2025-06-17

2257 β2AR Agonists Sustain Thermogenesis and Leanness via Sympathofacilitation

Cheung, S. W.; Sidarta-Oliveira, D.; Yao, L.; Zhu, Y.; Sarker, G.; Lundh, S.; Morgan, D. A.; Qu, J.; Wilcox, S.; Vyazovskiy, V.; Paterson, D. J.; Li, D.; Rahmouni, K.; Domingos, A.

10.1101/2025.06.13.659468 — physiology — Posted on 2025-06-17

2258 Parkin overexpression attenuates muscle atrophy and improves mitochondrial bioenergetics but fails to improve key histological features in a mouse model of Duchenne Muscular Dystrophy

Reynaud, O.; Ayoub, M.-B.; Leduc-Gaudet, J.-P.; Cefis, M.; Lussier, M.; Hussain, S. N.; Gouspillou, G.

10.1101/2025.06.13.659533 — physiology — Posted on 2025-06-17

2259 miRNA-Mediated Regulation of Gene Expression During Early Activation in Jurkat Cells

Mukherjee, P.; Leal-Calvo, T.; Ferguson, L.; Cate, J. H. D.

10.1101/2025.06.15.659805 — genomics — Posted on 2025-06-17

2260 A eukaryote without tRNA introns

Van Hoof, A.; Furuta, T.; Arur, S.

10.1101/2025.06.17.660180 — genomics — Posted on 2025-06-17

2261 Non-disruptive 3D profiling of combinations of epigenetic marks in single cells

Chen, Y.; Radda, J. S. D.; Alderman, M. H.; Jin, S.; Cheng, Y.; Zhang, Y.; Liu, M.; Xiao, A.; Wang, S.

10.1101/2025.06.13.659535 — genetics — Posted on 2025-06-17

2262 Broad epigenetic shifts in the aging Drosophila retina contribute to its altered rhythmic transcriptome.

McGovern, S. E.; Meng, G.; Marlin, M. N.; Pruitt, S. A.; Weake, V. M.

10.1101/2025.06.17.660160 — molecular biology — Posted on 2025-06-17

2263 Determinants of Improved CGRP Peptide Binding Kinetics Revealed by Enhanced Molecular Simulations

Kilinc, C.; Babin, K. M.; Pioszak, A. A.; Dickson, A.

10.1101/2025.06.13.659569 — molecular biology — Posted on 2025-06-17

2264 HIF-1α+ CD4 T cells coordinate a tissue resident immune cell network in the lung

de Lima, J.; Swarnalekha, N.; Bartoszek, E.; Litzler, L. C.; Depew, C. E.; Esposito, M.; Erber, M.; Kunzli, M.; Shenoy, A. T.; Goldrath, A. W.; Sun, J.; Schreiner, D.; King, C. G.

10.1101/2025.06.13.659476 — immunology — Posted on 2025-06-17

2265 AAV gene therapy for GBA-PD and Gaucher Disease

Ayloo, S.; Ryu, J.; Chou, S.-C.; Blatnik, L.; Wischhof, E.; Bu, J.; Guo, L.; Hossain, M.; Ghosh, D.; McCarty, W.; Bryne, A.; Chai, L.; Clarke, J.; Kayatekin, C.; Zhang, B.; Sardi, P.; Goulet, M.; Elmer, B.; Mueller, C.; Ramachandran, S.

10.1101/2025.06.17.660133 — neuroscience — Posted on 2025-06-17

2266 RNAGym: Large-scale Benchmarks for RNA Fitness and Structure Prediction

Arora, R.; Angelo, M.; Choe, C. A.; Shearer, C.; Kollasch, A.; Qu, F.; Weitzman, R.; Gazizov, A.; Gurev, S.; Xie, E.; Marks, D. S.; Notin, P.

10.1101/2025.06.16.660049 — synthetic biology — Posted on 2025-06-17

2267 Anti-activin treatment increases T cell infiltration in breast and pancreatic tumours and promotes survival in a SMAD4-null mouse pancreatic cancer model

McCluney, S.; Park, D.; Miller, D. S.; Mehic, M.; Bloxham, R. D.; De Vries, E.; Wang, X.; Boeing, S.; D'Antonio, L.; Wieteska, L.; Pyeatt, G.; Strohbuecker, S.; Chakravarty, P.; Maia De Oliveira, T.; Wilcockson, R.; Hyvonen, M.; Hunt, J.; Hill, C. S.

10.1101/2025.06.13.659133 — cancer biology — Posted on 2025-06-17

2268 MEK inhibition induces AXIN1 loss in colorectal cancer by mTOR associated suppression of protein synthesis

Venkatachalam, N.; Wang, L.; Muthukumarana, N.; Ihnatko, R.; Krijgsveld, J.; Skabkina, O.; Leipertz, A.; Chen, Y.; Betge, J.; Boonekamp, K.; Boutros, M.; Stoecklin, G.; Ebert, M.; Schott, J.; Zhan, T.

10.1101/2025.06.13.659446 — cancer biology — Posted on 2025-06-17

2269 Graph Attention Neural Networks Reveal TnsC Filament Assembly in a CRISPR-Associated Transposon

Pindi, C.; Ahsan, M.; Sinha, S.; Palermo, G.

10.1101/2025.06.17.659969 — biophysics — Posted on 2025-06-17

2270 SARS-CoV-2 ORF8 sequence conservation and mutational analysis -- insight into the influence of dataset size on identifying top mutations

Kandwal, S.; Cmelo, I.; Fayne, D.

10.1101/2025.06.16.659836 — bioinformatics — Posted on 2025-06-17

2271 Attomolar Detection of HIV-1 with Label-Free RCA-rCRISPR on Smartphone

Mohammad, N.; Steksova, A.; Tang, Y.; Huang, L.; Velayati, A.; Zhang, S.; Dey Poonam, A.; Jamalzadegan, S.; Breen, M.; Jiang, G.; Wei, Q.

10.1101/2025.06.15.659809 — bioengineering — Posted on 2025-06-17

2272 Genome editing of phylogenetically distinct bacteria using portable retron-mediated recombineering

Gonzalez-Delgado, A.; Bonillo-Lopez, L.; Johnson, M. S.; Knoedlseder, N.; Ko, C.-C.; Lekbach, Y.; Oh, J.-H.; Selvakumar, H.; Wold, M. C.; Yu, Z.; Aragon, V.; Gralnick, J. A.; Guell, M.; Hatfull, G.; Keitz, B. K.; Koskella, B.; Mutalik, V. K.; van Pijkeren, J. P.; Shipman, S.

10.1101/2025.06.16.660010 — bioengineering — Posted on 2025-06-17

2273 Redox reactivities of membrane-bound amyloid-β-Cu complexes and their targeting by metallothionein-3

Perez Medina, L.; Meloni, G.

10.1101/2025.06.13.659328 — biochemistry — Posted on 2025-06-17

2274 Is it time to retire {triangleup}?

Zubarev, R. A.

10.1101/2025.06.13.659563 — biochemistry — Posted on 2025-06-17

2275 Prime assembly with linear DNA donors enables large genomic insertions

Liu, B.; Petti, A.; Zhou, X.; Cheng, H.; Zhou, L.; Jiang, T.; Sontheimer, E. J.; Xue, W.

10.1101/2025.06.16.659978 — biochemistry — Posted on 2025-06-17

2276 Domain-Specific EPR Spectroscopy to Monitor Facilitated Dissociation of a DNA-Transcription Factor Complex

Epasto, L. M.; Khalil, M.; Sicoli, G.; Kurzbach, D.

10.1101/2025.06.13.659481 — biochemistry — Posted on 2025-06-17

2277 Proton transfer through a charged conduit in respiratory complex I - long range effects and conformational gating

Simsive, L.; Zdorevskyi, O.; Sharma, V.

10.1101/2025.06.13.659531 — biochemistry — Posted on 2025-06-17

2278 Super-giga and tiny orchid genomes illuminate evolution of Orchidaceae

Lan, S.; Liu, K.-W.; Li, Z.; Hsiao, Y.-Y.; Liu, Y.; Zhang, D.; Zhao, X.; Sun, W.-H.; Liu, D.-K.; Huang, M.-Z.; Zhou, C.-Y.; Zeng, M.; Wang, L.; Zheng, R.; Zhao, Z.; Gao, X.; Lai, J.-H.; Yeh, K.-L.; Zhang, L.-S.; Chen, J.; Ma, X.; Li, Y.; Chen, D.; Li, J.; Zhang, M.-M.; He, X.; Huang, Y.; Zhang, C.; Wu, X.; Chen, C.; Ma, L.; Zhai, J.; Ai, Y.; Li, M.-H.; Zhou, Y.; Zhou, Z.; Wu, S.; Zhao, K.; Guan, Y.; Tu, X.-D.; Zeng, D.; Ji, X.; Liu, N.; Zou, S.; Chen, Y.-Y.; Lin, S.-T.; Su, W.-Y.; Wang, Z.-W.; Luo, Y.-B.; Zhang, W.; Guo, Y.-Y.; Tian, Y.-Q.; Zou, L.-H.; Lv, X.; Zhuo, X.; Zhu, J.; Peng, D.-H.; Y

10.1101/2025.06.13.659439 — genomics — Posted on 2025-06-17

2279 Recombination Rates Are Governed by Sex-Specific Evolutionary Programs in House Mice

Wooldridge, L. K.; Pietraho, M.; DiSiena, P.; Littman, S. D.; Clauss, B. R.; Dumont, B. L.

10.1101/2025.06.16.659996 — evolutionary biology — Posted on 2025-06-17

2280 Evolutionary insights into provirus-encoded CRISPR-Cas systems in halophilic archaea

Naki, D.; Gophna, U.

10.1101/2025.06.17.660064 — evolutionary biology — Posted on 2025-06-17

2281 HPAI virus transmission is shaped by inter-specific social network structure

Dunning, J.; Gamza, A.; Firth, J.; Ashton-Butt, A.; Kao, R. R.; Brown, I.; Ward, A.

10.1101/2025.06.17.659947 — ecology — Posted on 2025-06-17

2282 Tissue-Specific Activation of Microhomology-Mediated End Joining with Age Reflects Dynamic Rewiring of DNA Repair in Rats

Rathore, D.

10.1101/2025.06.13.659285 — molecular biology — Posted on 2025-06-17

2283 UFMylation orchestrates chromatin engagement of core NHEJ components to promote DNA double-strand break repair

Wang, Z.; Foster, B. M.; da Costa, I. C.; Wu, Y.; Behera, D.; Conte, F.; Trotter, E. W.; Cabello-Lobato, M. J.; Choudhary, S.; Wiener, R.; Beli, P.; Smith, D. L.; Banks, W. H.; Bagley, S.; McKee, S.; Minnis, M.; Meyer, S.; Chaplin, A. K.; Doerner, W.; Mootz, H. D.; Hagan, I. M.; Galanty, Y.; Larrosa, I.; Cliff, M. J.; Schmidt, C. K.

10.1101/2025.06.16.659844 — molecular biology — Posted on 2025-06-17

2284 Detection of West Nile Virus via Retrospective Mosquito Arbovirus Surveillance in the United Kingdom

Bruce, R. C.; Abbot, A. J.; Jone, B. P.; Gardener, B. L.; Gonzalez, E.; Ionescu, A.-M.; Jagdev, M.; Jenkins, A.; Santos, M.; Seilern-Macpherson, K.; Hanmer, H. J.; Robinson, R. A.; Vaux, A. G. C.; Johnson, N.; Cunningham, A. A.; Lawson, B.; Medlock, J. M.; Folly, A. J.

10.1101/2025.06.17.659932 — molecular biology — Posted on 2025-06-17

2285 Magnimaribacterales marine bacteria genetically partition across the nearshore to open-ocean in the tropical Pacific Ocean

Ramfelt, O.; Tucker, S. J.; Freel, K. C.; Eren, A. M.; Rappe, M. S.

10.1101/2025.06.17.660167 — microbiology — Posted on 2025-06-17

2286 Bacteria deliver a microtubule-binding protein into mammalian cells to promote colonization

Costello, M. S.; Neumann, B. C.; Cuthbert, B. J.; Holubova, J.; Raimondi, M. W.; Garza-Sanchez, F.; Samad, A.; Bumba, L.; Torres, J. A.; Holznecht, N.; Mendoza, J.; Stanek, O.; Prombhul, S.; Weimbs, T.; Morrissey, M. A.; Acosta-Alvear, D.; Low, D. A.; Sebo, P.; Goulding, C. W.; Gonen, S.; Hayes, C. S.

10.1101/2025.06.17.660209 — microbiology — Posted on 2025-06-17

2287 Integrative Modelling of Innate Immune Response Dynamics during Virus Infection

Boddepalli, R.; Chhajer, H.; Roy, R.

10.1101/2025.06.17.660089 — microbiology — Posted on 2025-06-17

2288 Evidence for the acquisition of a proteorhodopsin-like rhodopsin by a chrysophyte-infecting giant virus

Byl, P.; Schvarcz, C. R.; Thomy, J.; Li, Q.; Williams, C. B.; LaButti, K.; Schulz, F.; Edwards, K. F.; Steward, G. F.

10.1101/2025.06.17.660233 — microbiology — Posted on 2025-06-17

2289 Hexavalent Chromium Inhibits Nitrate-Dependent Anaerobic Methane Oxidation While Enriching Denitrifiers: Insights into Microbial Interactions for Simultaneous Methane, Nitrate and Chromate Removal

Ma, Y.; Smith, G.; Haaijer-Vroomen, S. S. C. M.; Olde Olthof, S.; Welte, C. U.; Glodowska, M.

10.1101/2025.06.17.660095 — microbiology — Posted on 2025-06-17

2290 Epimutations driven by RNAi or heterochromatin evoke antifungal drug resistance in human fungal pathogens

Son, Y.-E.; Heitman, J.

10.1101/2025.06.17.660219 — microbiology — Posted on 2025-06-17

2291 Integrative Structure of Norovirus NS3 Suggests a Role in RNA Transport

Haas, M.; Mills, J. T.; Kelley, C.; Das, A.; Hof, H.; Niemel, C.; Donselaar, T.; Drulyte, I.; van Kuppeveld, F. J. M.; Dulin, D.; Snijder, J.; Herod, M. R.; Hurdiss, D. L.

10.1101/2025.06.17.659504 — microbiology — Posted on 2025-06-17

2292 D-amino acid substitution and cyclisation enhance the stability and antimicrobial activity of arginine-rich peptides

Mendes, B.; Castelletto, V.; Hamley, I. W.; Barrett, G.

10.1101/2025.06.17.660067 — microbiology — Posted on 2025-06-17

2293 Enhanced Resistance and Resilience of Anaerobic Digestion Microbiome after Single and Dual Short-Term Disturbances

Mohidin, A. F.; Ng, T. C. A.; Santillan, E.; Lu, Y.; Cokro, A.; Wuertz, S.

10.1101/2025.06.17.659861 — microbiology — Posted on 2025-06-17

2294 Extracellular Vesicle-Mediated Delivery of Genetic Material for Transformation and CRISPR/Cas9-based Gene Editing in Pneumocystis murina

Sayson, S. G.; Ashbaugh, A.; Bauer, L. C.; Smulian, A. G.

10.1101/2025.06.17.660080 — microbiology — Posted on 2025-06-17

2295 Identification of pseudotetraivprolide from Pseudomonas entomophila give novel insights into the biosynthesis of detoxin/rimosamide-like anti-antibiotics

Bode, E.; Buellesbach, J.; Bauer, K.; Shi, Y.-N.; Reiners, S.; Cui, Z.; Happel, P.; Shi, Y.-M.; Kazmaier, U.; Grininger, M.; Bode, H. B.

10.1101/2025.06.17.660182 — microbiology — Posted on 2025-06-17

2296 A generalized and efficient approach for complete mRNA design improves translation, stability and specificity

Riley, A. T.; Vlasity, M.; Huang, J. Z.; Becicka, W. M.; Wong, W. W.; Grinstaff, M. W.; Green, A. A.

10.1101/2025.06.17.659751 — synthetic biology — Posted on 2025-06-17

2297 Transcriptomic analysis of genotypes derived from Rosa wichurana unveils molecular mechanisms associated with quantitative resistance to Diplocarpon rosae

Lambelin, L.; Thouroude, T.; Jeauffre, J.; Chameau, J.; Vilfroy, C.; Boursier, C.; Aubourg, S.; Pelletier, S.; Lopez Arias, D. C.; Hibrand-Saint Oyant, L.; Soufflet-Freslon, V.; Foucher, F.; Paillard, S.

10.1101/2025.06.13.659350 — plant biology — Posted on 2025-06-17

2298 Open-science discovery of DNDI-6510, a compound that addresses genotoxic and metabolic liabilities of the COVID Moonshot SARS-CoV-2 Mpro lead inhibitor

Griffen, E. J.; Fearon, D.; McGovern, B. L.; Koekemoer, L.; Balcomb, B. H.; Szommer, T.; Fate, G.; Robinson, R. P.; Lefker, B. A.; Duberstein, S.; Lahav, N.; Braillard, S.; Vangeel, L.; Laporte, M.; Charvillon, F. B.; MacLeod, A. K.; Wells, A.; Garner, P.; Knight, R.; Rees, P.; Simon, A.; Jochmans, D.; Neyts, J.; Read, K. D.; Barr, H.; Robinson, M.; Lee, A. A.; London, N.; Chodera, J.; von Delft, F.; White, K. M.; Perry, B.; Sjo, P.; von Delft, A. R.

10.1101/2025.06.16.660018 — pharmacology and toxicology — Posted on 2025-06-17

2299 Repeated signatures of balancing selection in small and large populations of guppies (Poecilia reticulata)

Paris, J. R.; Whiting, J. R.; Obiol, J. F.; Hughes, K. A.; Fraser, B. A.

10.1101/2025.06.12.659363 — evolutionary biology — Posted on 2025-06-17

2300 Fc-Free Single Chain Antibody mRNA Therapy for Airway Infection of Multidrug-Resistant Pseudomonas Aeruginosa

Kinoshita, M.; Kawaguchi, K.; Le, N. B.; Kainuma, A.; Sawa, T.; Uchida, S.

10.1101/2025.06.12.659416 — immunology — Posted on 2025-06-17

2301 Preclinical evaluation of CHDI-009R for quantification of mutant huntingtin aggregates

Zajicek, F.; Everix, L.; Van Eetveldt, A.; Verhaeghe, J.; De Lombaerde, S.; Miranda, A.; Akkermans, J.; Dominguez, C.; Khetarpal, V.; Bard, J.; Liu, L.; Staelens, S.; Bertoglio, D.

10.1101/2025.06.17.660088 — neuroscience — Posted on 2025-06-17

2302 High throughput machine learning pipeline to characterize larval zebrafish motor behavior

Hageter, J.; Efromson, J.; Alban, B.; DelGaudio, A.; Saliu, V.; Wassef, M.; Harfouche, M.; Horstick, E. J.

10.1101/2025.06.17.660164 — neuroscience — Posted on 2025-06-17

2303 Noradrenaline and microglia maintain plasticity-rigidity balance to safeguard rapid emotional learning in the prefrontal cortex

Tajiri, M.; Omi, H.; Inoue, A.; Etani, H.; Sawada, T.; Iino, Y.; Yagishita, S.

10.1101/2025.06.16.659241 — neuroscience — Posted on 2025-06-17

2304 Alpha rhythm subharmonics underlie responsiveness to theta burst stimulation via calcium metaplasticity

Kadak, K.; Momi, D.; Wang, Z.; Bastiaens, S. P.; Oveisi, M. P.; Morshedzadeh, T.; Ismail, M.; Fousek, J.; Griffiths, J. D.

10.1101/2025.06.17.660153 — neuroscience — Posted on 2025-06-17

2305 Emergence of multifrequency activity in a laminar neural mass model

de Palma Aristides, R.; Clusella, P.; Sanchez-Todo, R.; Ruffini, G.; Garcia-Ojalvo, J.

10.1101/2025.06.16.659878 — neuroscience — Posted on 2025-06-17

2306 Cell cycle criticality as a mechanism for robust cell population control

Simons, B. D.; Karin, O.

10.1101/2025.06.12.659375 — systems biology — Posted on 2025-06-17

2307 Improving Recombinant Antibody Production Using FcBAR: An In Situ Approach to Detect and Amplify Protein-Protein Interactions

Wu, M. Y. M.; Rocamora, F.; Samoudi, M.; Robinson, C.; Kuo, C.-C.; Pristovsek, N.; Grav, L. M.; Kildegaard, H. F.; Lee, G. M.; Campos, A. R.; Lewis, N. E.

10.1101/2025.06.12.659199 — systems biology — Posted on 2025-06-17

2308 Foot placement coordination is impaired in people with Parkinson's Disease

Lang, C.; Hausdorff, J. M.; Bruijn, S. M.; Brodie, M. A.; Okubo, Y.; Maetzler, W.; van Leeuwen, A. M.; Singh, N. B.; van Dieen, J. H.; Ravi, D. K.

10.1101/2025.06.11.659042 — pathology — Posted on 2025-06-17

2309 Methodological study of fibroblasts MEF 3T3 heterogeneity cultured on hydrogel substrates with different surface functionalization

Wawrzyk, D.; Goncerz, P.; Rajfur, Z.

10.1101/2025.06.12.659070 — biophysics — Posted on 2025-06-17

2310 Uncertainty-aware quantitative analysis of high-throughput live cell migration data

Kitanovski, S.; Conroy, S.; Sonneck, J.; Dorsch, M.; Urban, S.; Chen, J.; Grüner, B.; Hoffmann, D.

10.1101/2025.06.12.659342 — bioinformatics — Posted on 2025-06-17

2311 Genetic Expectations in Inheritance: A Probabilistic Algebraic Framework

Bhat, P. N.; Pal, D.

10.1101/2025.06.12.659255 — genetics — Posted on 2025-06-17

2312 Impact of G-tract RNAs and the DHX36 helicase on stress granule composition and formation

Cheng, L.; Ripin, N.; Cech, T.; Parker, R.

10.1101/2025.06.16.659950 — cell biology — Posted on 2025-06-17

2313 Anatomical description of the jaw muscles and theoretical bite force assessment in South-American opossums using manual and virtual dissection methods.

Melekian, A.; Decuypere, V.; Herrel, A.; Clarac, F.; Ladeveze, S.

10.1101/2025.06.12.659107 — zoology — Posted on 2025-06-17

2314 Discovery of iridoid cyclase completes the iridoid pathway in asterids

Colinas, M.; Tymen, C.; Wood, J. C.; David, A.; Wurlitzer, J.; Morweiser, C.; Gase, K.; Alam, R. M.; Titchiner, G. R.; Hamilton, J. P.; Heinicke, S.; Dirks, R. P.; Lopes, A. A.; Caputi, L.; Buell, C. R.; O'Connor, S. E.

10.1101/2025.06.12.659277 — plant biology — Posted on 2025-06-17

2315 Ablation of Prdm16 and beige fat causes vascular remodeling and elevated blood pressure

Koenen, M.; Becher, T.; Pagano, G.; Del Gaudio, I.; Barrero, J. A.; Montezano, A. C.; Ortiz, J. R.; Lin, Z.; Gomez-Banoy, N.; Amblard, R.; Kars, M. E.; Rubinelli, L.; Halix, S. J.; Cao, Z. H.; Zeng, X.; Butler, S. D.; Itan, Y.; Touyz, R. M.; Di Lorenzo, A.; Cohen, P.

10.1101/2025.06.12.658904 — physiology — Posted on 2025-06-17

2316 Preparation of Scutellariae Radix and Corn-Soy Peptides Complex and Its Hepatoprotective Mechanisms

Ye, J.; Tan, J.; Lin, Y.; Guo, M.; Duan, H.; Zhang, F.; Yang, X.

10.1101/2025.06.12.659390 — pharmacology and toxicology — Posted on 2025-06-17

2317 Amyloid Folding: an Origami-Based Approach

Lima, L. M. T.

10.1101/2025.06.12.659339 — biophysics — Posted on 2025-06-17

2318 Inference of multi-enhancer interactions in T lymphocytes using Hi-Cociety

Yoon, S.; Vahedi, G.

10.1101/2025.06.12.659372 — bioinformatics — Posted on 2025-06-17

2319 Microstate in rats EEG: a proof of concept study

Piorecka, V.; Vejmola, C.; Peskova, P.; Piorecky, M.; Jiricek, S.; Koudelka, V.; Griskova-Bulanova, I.; Palenicek, T.

10.1101/2025.06.17.660121 — animal behavior and cognition — Posted on 2025-06-17

2320 CrebA regulation of secretory capacity: Genome-wide transcription profiling coupled with in vivo DNA binding studies

Andrew, D. J.; Jackson, D. M.; Peng, D.; Shinde, S.; Holenarasipura, A.; Cahan, P.

10.1101/2025.06.12.659381 — genomics — Posted on 2025-06-17

2321 Disentangling the role of chromosome inversions in the structure of flat oyster (Ostrea edulis): origin, adaptation and phylogeography

Sambade, I. M.; Hlordzi, V.; Blanco, A.; Hermida, M.; Vera, M.; Culloty, S.; Bean, T.; Lynch, S.; Martinez, P.

10.1101/2025.06.12.659260 — genomics — Posted on 2025-06-17

2322 Seasonal influenza viruses show distinct adaptive dynamics during growth in chicken eggs

Kistler, K.; Bedford, T.

10.1101/2025.06.12.659400 — evolutionary biology — Posted on 2025-06-17

2323 Temperature and pH universally govern protein diversity in hydrothermal spring communities, but they do so differently

Rivas-Santisteban, J.; Alcorta, J.; Diez, B.; Tamames, J.; Pedros-Alio, C.

10.1101/2025.06.12.659262 — evolutionary biology — Posted on 2025-06-17

2324 Geno-pheno characterization of crop rhizospheres: An integrated Raman spectroscopy and microbiome approach in conventional and organic agriculture

Son, Y.; He, P.; Baldwin, M.; Li, G.; Wang, Z.; Gu, A.; Kao-Kniffin, J.

10.1101/2025.06.10.658954 — ecology — Posted on 2025-06-17

2325 Beyond Motility: A Multiparametric Fitness Assay Framework to Evaluate Anthelmintics in Nippostrongylus brasiliensis

Anesko, K.; Midou, S.; Ruggiero-Ruff, R.; He, Y.; Jennett, J.; Nair, M. G.; Dillman, A.

10.1101/2025.06.12.659374 — molecular biology — Posted on 2025-06-17

2326 Integrated Multi-omic Profiling Reveals Early Regulatory Events in Dexamethasone Muscle Atrophy

Nakagawa, S.; Sommer, T.; Jarosch, E.; Mertins, P.; Popp, O.; Fielitz, J.; Misios, A.

10.1101/2025.06.12.659253 — molecular biology — Posted on 2025-06-17

2327 Targeted Inhibition of Translation Initiation via 2'O-Methylation of Start Codons

Patrasso, E. A.; Serio, H.; Suh, A.; Mou, S.; Vasquez, K.; Wu, S.; Yi, Y.; Arango, D.

10.1101/2025.06.14.659565 — molecular biology — Posted on 2025-06-17

2328 Tissue-resident neutrophils serve homeostatic and immunological functions in embryos

Hofmann, J.; Lintukorpi, L.; Lokka, E.; Ojasalo, V.; Cisneros Montalvo, S.; Kaukonen, D.; Ma, L.; Kotaja, N.; Gerke, H.; Salmi, M.; Rantakari, P.

10.1101/2025.06.12.659311 — immunology — Posted on 2025-06-17

2329 IFNγ-induced memory in human macrophages is not sustained by epigenetic changes but the durability of the cytokine itself

Gorin, A.; Harriott, N.; Koduvayur, V.; Cheng, Q.; Hoffmann, A.

10.1101/2025.06.12.659073 — immunology — Posted on 2025-06-17

2330 Rapid acquisition of HIV-1 neutralization breadth in a rhesus V2 apex germline antibody mouse model after a single bolus immunization

Ghosh, A. R.; Habib, R.; Mishra, N.; Roark, R. S.; Akauliya, M.; Albowaidey, A. A.; Allen, J. D.; Amereh, K.; Avillion, G.; Bottermann, M.; Liang, B.; Chaudhary, N.; Callaghan, S.; Dye, J.; Li, X.; Ellis-Pugh, J. R.; Chowdhury, R. R.; James, N. E.; Liu, X.; Maiorino, L.; Villavicencio, P. M.; Nedellec, R.; Oberoi, P.; Sowers, K. J.; Park, Y.; Prum, T.; Rodriguez, L.; Ssozi, M.; Torres, J.; Walsh, A. A.; Warner, J. E.; Weldon, S. R.; Xu, L.; Wiehe, K.; Crispin, M.; Ward, A. B.; Nair, U.; Hahn, B. H.; Burton, D. R.; Shapiro, L.; Kwong, P. D.; Irvine, D. J.; Andrabi, R.; Shaw, G. M.; Batista, F.

10.1101/2025.06.12.659380 — immunology — Posted on 2025-06-17

2331 Multitargeted Reduction of Inflammation and Atherosclerosis in Tet2-deficient CHIP via XPO1 Inhibition and Atf3 restoration

Prutsch, N.; Vromman, A.; Leeper, B.; Chen, M.; Keating, J. H.; He, S.; Berezovskaya, A.; Ren, S.; Gomes, M. J.; Folco, E. J.; Rauch, P. J.; Gokhale, P. C.; Zimmerman, M. W.; Neuberg, D. S.; Abraham, B. J.; Libby, P.; Look, A. T.

10.1101/2025.06.12.658927 — immunology — Posted on 2025-06-17

2332 The neuroendocrine peptide catestatin promotes clearance of cutaneous Staphylococcus aureus through mast cell Mrgpr activation

Guth, C.; Dychtenberg, H.; Rudolph, E.; Pozniak, A.; Gill, S.; Pundir, P.

10.1101/2025.06.12.659211 — immunology — Posted on 2025-06-17

2333 Spatially-distinct programming of macrophage diversity within the granulomas of Mycobacterium tuberculosis infected nonhuman primates

Pisu, D.; Sunny, P. S.; Nelson, M. L.; Juneco, B. F.; Venugopalan, R.; Rodgers, M.; Borish, H. J.; Maiello, P.; Scanga, C. A.; Lin, P. L.; Flynn, J. L.; Russell, D. G.; Mattila, J.

10.1101/2025.06.12.659348 — immunology — Posted on 2025-06-17

2334 A confound-free method to manipulate pupil size in psychological experiments

Snell, J.; Wagner, L.; Vilotijevic, A.

10.1101/2025.06.17.660124 — neuroscience — Posted on 2025-06-17

2335 Minocycline treatment affects astrocyte - microglia - neuron interaction and functional compensation of motor deficits in rat model of combined fluorocitrate and 6-OHDA lesion and early Parkinson's disease

Kuter, K. Z.; Chwastek, A. M.; Paleczna, M.; Kadluczka, J.; Kosmowska, B.; Leonovich, I.; Maciasz, W.; Lenda, T.; Kula, J.

10.1101/2025.06.16.659904 — neuroscience — Posted on 2025-06-17

2336 Behavioural, biochemical and functional phenotyping of chronic exposure to chlordecone in mice

VULIN, J. J.; Chauveau, F. F.; Dure, C. C.; Humo, M. M.; Valdebenito, M. M.; Aufauvre, C. C.; Vidal, L. L.; Verchere, J. J.; Decesar, A. A.; Gaillard, D. D.; Lakdhar, L. L.; BARON, T.; LAVISON-BOMPARD, G. G.; VIDAL, B.

10.1101/2025.06.16.659846 — neuroscience — Posted on 2025-06-17

2337 Complement C3aR deletion does not attenuate neurodegeneration in a tauopathy model or alter acute inflammation-induced gene expression changes in the brain

Wang, Y.; Pandey, S.; Weber, M.; Choy, M. K.; Wu, T.; Chernov-Rogan, T.; Ngu, H.; Foreman, O.; Xie, L.; Hanson, J. E.

10.1101/2025.06.16.660026 — neuroscience — Posted on 2025-06-17

2338 HIPPOCAMPAL THETA OSCILLATIONS DURING CONTROLLED SPEED RUNS ON A TREADMILL

Furtunato, A. M. B.; Marques da Silva, D.; Tort, A. B.; Lobao-Soares, B.; Belchior, H.

10.1101/2025.06.17.660140 — neuroscience — Posted on 2025-06-17

2339 Brain Representations of Natural Sound Statistics

Mohammadi, Y.; Billig, A. J.; Berger, J. I.; Griffiths, T.

10.1101/2025.06.17.660096 — neuroscience — Posted on 2025-06-17

2340 Robust functional ultrasound imaging in the awake and behaving brain: a systematic framework for motion artifact removal

Le Meur-Diebolt, S.; Pereira, F. C.; Mariani, J.-C.; Kliewer, A.; Farinha-Ferreira, M.; Bertolo, A.; Osmanski, B.-F.; Lenkei, Z.; Deffieux, T.

10.1101/2025.06.16.659882 — neuroscience — Posted on 2025-06-17

2341 Alpha-synuclein overexpression without vocalization deficits in a mouse model of parkinsonism.

Rodgers, B.; Schaser, A. J.

10.1101/2025.06.17.660161 — neuroscience — Posted on 2025-06-17

2342 SNCA-targeted epigenome therapy for Parkinsons disease alleviates pathological and behavioral perturbations in a mouse model

O'Donovan, B.; Rittiner, J.; Upadhya, S.; Hodgson, D.; Kantor, B.; Chiba-Falek, O.

10.1101/2025.06.16.659948 — neuroscience — Posted on 2025-06-17

2343 Tamarixia citricola Hansson and Guerrieri sp. nov. (Hymenoptera: Eulophidae): a new parasitoid of Diaphorina citri Kuwayamava (Hemiptera: Psyllidae) found during a classical biological control program in Cyprus

10.1101/2025.06.16.660002 — zoology — Posted on 2025-06-17

2344 Impact of tusk anomalies on the long-term foraging ecology of narwhals

Louis, M.; Rey-Iglesia, A.; Routledge, J.; de Jager, D.; Skovrind, M.; Heide-Jorgensen, M. P.; Kaiser, T. M.; Kovacs, K. M.; Lydersen, C.; Rosing-Asvid, A.; Szpak, P.; Lorenzen, E.

10.1101/2025.06.17.660143 — zoology — Posted on 2025-06-17

2345 Modeling cellular influence delineates functionally relevant cellular neighborhoods in primary and metastatic pancreatic ductal adenocarcinoma.

Cho, Y.; Lee, J. W.; Shin, S. M.; Hernandez, A. G.; Yuan, X.; Schneider, J.; Hooper, J. E.; Wood, L. D.; Jaffee, E. M.; Deshpande, A.; Ho, W. J.

10.1101/2025.06.12.659314 — systems biology — Posted on 2025-06-17

2346 Surface Plasmon Resonance (SPR)-Based Workflow for High-Throughput Discovery of CD28-Targeted Small Molecules

Calvo-Barreiro, L.; Nada, H.; Upadhyay, S.; Gabr, M.

10.1101/2025.06.12.659248 — pharmacology and toxicology — Posted on 2025-06-17

2347 Loss of HNF1b drives pancreatic Intraductal Papillary Mucinous Neoplasms (IPMN) initiation

LORENZO, D.; AGUILERA MUNOZ, L.; MARSTRAND-DAUCE, L.; CHASSAC, A.; NICOLE, P.; MENG, L.; HEIDET, L.; KNEBELMANN, B.; PIGNOLET, C.; DOBLAS, S.; COUVINEAU, A.; ESPOSITO, I.; REBOURS, V.; NICOLLE, R.; CROS, J.; COUVELARD, A.; HAUMAITRE, C.

10.1101/2025.06.12.659269 — pathology — Posted on 2025-06-17

2348 Distinct Response Patterns to PHB Modulators in B Cell Lymphoma Models

Schultheiss, C.; Kadel, M.; Desaubry, L.; Binder, M.

10.1101/2025.06.12.659346 — cancer biology — Posted on 2025-06-17

2349 Genetic barcoding uncovers the clonal makeup of solid and liquid biopsies

Merino, D.; Serrano, A.; Weber, T.; Berthelet, J.; Ftouni, S.; El-Saafin, F.; Wimmer, V.; Rogers, K. L.; Lim, E.; CHARAFFE-JAUFFRET, E.; Ginestier, C.; Williams, D.; Hollande, F.; Yeo, B.; Dawson, S.-J.; Naik, S.

10.1101/2025.06.12.659267 — cancer biology — Posted on 2025-06-17

2350 Cryo-EM Structure of the Erlin1/2 Complex Reveals a Dynamic Scaffold for Membrane Protein Sequestration and Microdomain Assembly

Yan, L.; Xu, Z.; Yao, Y.; Wang, X.; Wang, Y.; Ma, C.; Li, N.; Chen, X.; Gao, N.

10.1101/2025.06.14.659634 — biophysics — Posted on 2025-06-17

2351 Bayesian Nonparametrics for FRET using Realistic Integrative Detectors

Saurabh, A.; Wisna, G. B. M.; Schweiger, M. C.; Hariadi, R. F.; Presse, S.

10.1101/2025.06.12.659382 — biophysics — Posted on 2025-06-17

2352 Inferring Spatially Varying Bending Stiffness of Biopolymers with Deep-Learning Approach

Hong, C.; Lim, C.; Oh, J.; Lee, J.-B.; Jeong, E. E.; Yoo, J.-Y.; Kim, W. K.; Jeon, J.-H.

10.1101/2025.06.12.659266 — biophysics — Posted on 2025-06-17

2353 The soluble HIV-1 Vpu protein interacts with calmodulin in a Ca2+-dependent manner

Ishola, O.; Islam, M. M.; Hadadianpour, E.; Borbat, P. P.; Georgieva, E. R.

10.1101/2025.06.12.658902 — biophysics — Posted on 2025-06-17

2354 SurfacOmics: an R shiny application integrating variable Feature Selection for gene biomarker discovery using Elastic-Net Regularization

Tripathi, S.; Kajla, P.; Abbasi, B. A.; Kota, K. P.; Bailey, A.; Varma, B.

10.1101/2025.06.12.659259 — bioinformatics — Posted on 2025-06-17

2355 Biological Function Assignment Across Taxonomic Levels in Mass-Spectrometry-Based Metaproteomics via a Modified Expectation Maximization Algorithm

Alves, G.; Ogurtsov, A. Y.; Yu, Y.-K.

10.1101/2025.06.12.659309 — bioinformatics — Posted on 2025-06-17

2356 Genome-wide Pervasiveness and Localized Variation of k-mer-based Genomic Signatures in Eukaryotes

Sadjadi, N.; de Souza, C. P. E.; Randhawa, G. S.; Hill, K. A.; Kari, L.

10.1101/2025.06.12.659337 — bioinformatics — Posted on 2025-06-17

2357 Efficient Cell Factory Design by Combining Meta-Heuristic Algorithm with Enzyme Constrained Metabolic Models

Liao, W.; Gao, G.; Fan, X.; Wang, H.; He, S.; Xiang, G.; Yan, X.; Lu, H.

10.1101/2025.06.12.659423 — bioinformatics — Posted on 2025-06-17

2358 VISIBLE: An imaging-driven system for sampling, biofabrication, and manipulation of complex biological models

Joshi, S.; Moreno-Gonzalez, C.; Suklai, P.; Carraro, E.; Ratcliffe, C. D. H.; Boezio, G. L. M.; Konstantinou, G.; Hagemann, C.; Kavanagh, T.; Ameer-Beg, S.; Imbert, A.; Sahai, E.; Tedesco, F. S.; Serio, A.

10.1101/2025.06.12.659321 — bioengineering — Posted on 2025-06-17

2359 Pattern and Precision: DNA-Based Mapping of Spatial Rules for T Cell Activation

Li, S.; Paloja, K.; Bastings, M. M. C.

10.1101/2025.06.12.659249 — bioengineering — Posted on 2025-06-17

2360 Understanding the mismatch between in-vivo and in-silico rhinomanometry

Quadrio, M.; Atzori, M.; Dini Ciacci, G.

10.1101/2025.06.12.659340 — bioengineering — Posted on 2025-06-17

2361 Hybrid Scaffolds Decouple Biochemical & Biophysical Regulation of Cell Phenotype

Song, X.; Mitchell, S. C.; Smart, A. N.; Hardiman, W.; Bax, D. V.; Staley, C. E.; Probert, C.; Collier, P.; Meakin, M.; Ritchie, A. A.; Mendonca, T.; Wright, A. J.; James, V.; Grabowska, A. M.; Merry, C. L.; Best, S. M.; Cameron, R. E.; Ashworth, J. C.

10.1101/2025.06.12.659085 — bioengineering — Posted on 2025-06-17

2362 The Filterprep: A Simple and Efficient Approach for High-Yield, High-Purity Plasmid DNA Purification

Cheng, Y.-H.; Wu, Y.-J.; Shih, Y.-C.; Lin, Y.-Q.; Chang, Y.-W.; Wu, Y.-H.; Hu, E.-W.; Ku, R.-H.; Wu, C.-M.; Wu, S.-C.; Yeh, T.-Y.; Chang, C.-T.

10.1101/2025.06.12.659418 — biochemistry — Posted on 2025-06-17

2363 Biosonar Responsivity Sets the Stage for the Terminal Buzz

Umadi, R.; Firzlaff, U.

10.1101/2025.06.16.659925 — animal behavior and cognition — Posted on 2025-06-17

2364 How cBAF and PBAF regulate the nucleosomal and subnucleosomal landscape of promoters, enhancers and REST repressor binding sites

GERARD, M.; Soleil, M.; Drouineau, E.; Nocente, M. C.; Karamitsos, A. M.; Moroziuk, Y. K.; Picaud, H.; Dulary, C.; Chantalat, S.

10.1101/2025.06.12.659349 — genomics — Posted on 2025-06-17

2365 High-throughput genetic mapping discovers novel zinc toxicity response loci in Drosophila melanogaster

Hanson, K. M.; Long, A. D.; Macdonald, S. J.

10.1101/2025.06.12.659401 — genetics — Posted on 2025-06-17

2366 Copper-Induced Stress and Recovery Impacts on Organismal Phenotypes and the Underlying Proteomic Signatures in Botryllus schlosseri

Lepretre, M.; Kültz, D.

10.1101/2025.06.12.659394 — ecology — Posted on 2025-06-17

2367 Local Adaptation and Transcriptomic Plasticity of the Copepod Acartia tonsa Under Low Salinity Stress

Hahn, A.; Nascimento Schulze, J. C.; Avgerinou, G.; Bayer, T.; Brennan, R. S.

10.1101/2025.06.12.659303 — molecular biology — Posted on 2025-06-17

2368 Inhibition of De Novo Autoantibody Production Attenuates Chronic Antibody-Mediated Rejection of Kidney Allografts Despite Maintenance of High Donor-Specific Antibody Titers

Mitsui, Y.; Keslar, K. S.; Nicosia, M.; Kish, D. D.; Dvorina, N.; Zhu, C.; Olman, M.; Southern, B. D.; Baldwin, W. M.; Fairchild, R. L.

10.1101/2025.06.11.659154 — immunology — Posted on 2025-06-17

2369 Succinate enhances mitochondrial metabolism and phagocytosis in human airspace monocytes

Slattery, K.; Newing, A.; McGrath, J.; Sanfeliu, A.; O Gallchobhair, O.; Faherty, L.; McNally, E.; O Connell, F.; Nadarajan, P.; Mitchell, P.; Donnelly, S.; Cloonan, S. M.; Keane, J.; Gleeson, L.

10.1101/2025.06.12.659271 — immunology — Posted on 2025-06-17

2370 The early human interferon gamma response to Toxoplasma gondii is driven by Vγ9Vδ2 T-cell sensing of host phosphoantigens and subsequent NK-cell activation

Rodriguez, F.; Saeij, J. P. J.

10.1101/2025.06.12.659293 — immunology — Posted on 2025-06-17

2371 NDR2 Kinase Regulate Microglial Metabolic Adaptation and Inflammatory Response: Critical Role in Glucose-Dependent Functional Plasticity

Fazendeiro, B.; Machado, I.; Rolo, A.; Rodrigues-Santos, P.; Ambrosio, A. F.; Santos, P. F.; Leger, H. M.

10.1101/2025.06.12.659313 — immunology — Posted on 2025-06-17

2372 Omega-3 Fatty Acid Synergy with Glucocorticoid in Lupus Macrophages: Targeting Pathogenic Pathways to Reduce Steroid Dependence

Heine, L. K.; Nault, R.; Jackson, J.; Anderson, A. N.; Harkema, J. R.; Olive, A. J.; Pestka, J. J.; McDonald, O. F.

10.1101/2025.06.12.658906 — immunology — Posted on 2025-06-17

2373 Meteorin resolves nociceptive hypersensitivity by reducing connexin-mediated coupling in satellite glial cells

Pallesen, L. T.; Petersen, A.-K.; Sankaranarayanan, I.; Feldman-Goriachnik, R.; Ahlgreen, O. A.; Pinheiro, A. M.; Baake, J.; Hansen, M. W.; Richner, M.; Ellegaard, L. D.; Rossi, R.; Petersen, K. A.; Fjord-Larsen, L.; Olsen, J. V.; Munro, G.; Hanani, M.; Price, T. J.; Vaegter, C. B.

10.1101/2025.06.16.659847 — neuroscience — Posted on 2025-06-17

2374 Global hypoperfusion leads to a mismatch in oxygen delivery and consumption in the cerebral watershed area

Li, B.; Cao, H.; Takase, H.; Allu, S. R.; Wu, Y.; Fu, B.; Vinogradov, S. A.; Arai, K.; Lo, E. H.; Ayata, C.; Sakadzic, S.

10.1101/2025.06.16.659854 — neuroscience — Posted on 2025-06-17

2375 Dorsal Striatum Parvalbumin interneurons translatome unveiled

Naon, C.; Castell, L.; Thirard, S.; Moreno, M.; Rialle, S.; Goetz, E.; Casals, E.; Rogliardo, A.; Gut, M.; Esteve-Codina, A.; Quintana, A.; Bertaso, F.; Valjent, E.; Cutando, L.

10.1101/2025.06.16.659856 — neuroscience — Posted on 2025-06-17

2376 Image-Based Meta- and Mega-Analysis (IBMMA): A Unified Framework for Large-Scale, Multi-Site, Neuroimaging Data Analysis

Steele, N.; Morey, R.; Hussain, A.; Russell, C.; Suarez-Jimenez, B.; Pozzi, E.; Jameei, H.; Schmaal, L.; Veer, I.; Waller, L.; Jahanshad, N.; Thomopoulos, S.; Salminen, L.; Olff, M.; Frijling, J.; Veltman, D.; Koch, S.; Nawijn, L.; van Zuiden, M.; Wang, L.; Zhu, Y.; Li, G.; Stein, D.; Ipser, J.; Neria, Y.; Zhu, X.; Ravid, O.; Zilcha-Mano, S.; Lazarov, A.; Huggins, A.; Stevens, J.; Ressler, K.; Jovanovic, T.; van Rooij, S.; Fani, N.; Mueller, S.; Hudson, A.; Daniels, J.; Sierk, A.; Manthey, A.; Walter, H.; van der Wee, N.; van der Werff, S.; Vermeiren, R.; Schmahl, C.; Herzog, J.; Rektor, I.; i

10.1101/2025.06.16.657725 — neuroscience — Posted on 2025-06-17

2377 Hemispheric Dissociation Revealed by Attentional Isolation and tRNS

Tosi, M.; Ellena, G.; Conto, F.; Edwards, G.; Battelli, L.

10.1101/2025.06.17.660112 — neuroscience — Posted on 2025-06-17

2378 Human Neural Synergy when combining Stevia with a Flavor Modifer and the Neural effects of Sucrose vs Stevia

Ko, H.-K.; Shi, J.; Eidenberger, T.; Shi, W.; McCabe, C.

10.1101/2025.06.17.657228 — neuroscience — Posted on 2025-06-17

2379 Metabolic resilience rules sex-specific pain recovery during hormonal aging: a multi-omics analysis of neuropathy in mice.

Marinelli, S.; Rossi, C.; Pieroni, L.; Giacovazzo, G.; Vacca, V.; De Angelis, F.; Cicalini, I.; Mastrorilli, V.; Parisi, C.; Yurtseve, Z. N.; Ciavardelli, D.; Coccurello, R.

10.1101/2025.06.17.659987 — neuroscience — Posted on 2025-06-17

2380 The Human LRRK2-R1441G Mutation Drives Age-Dependent Oxidative Stress and Mitochondrial Dysfunction in Dopaminergic Neurons

Chen, Y.; Zhi, L.; Cui, S.; Wang, H.; Zeng, C.; Zhang, H.

10.1101/2025.06.16.660029 — neuroscience — Posted on 2025-06-17

2381 ttc39bl, one of the two duplicated paralogs of the tetratricopeptide repeat domain 39B gene, is essential for carotenoid coloration in medaka (Oryzias latipes) and is the gene responsible for the r locus.

Kimura, T.; Inoue, I.

10.1101/2025.06.15.659736 — zoology — Posted on 2025-06-17

2382 Deep Learning-enabled Sperm Morphology Analysis of Bovine Sperm for label-free Imaging Flow Cytometry

Umirbaeva, A.; Kurenkov, A.; Seisenov, B.; Zhumanov, K.; Tajiyev, K.; Mustafin, M.; Vorobjev, I. A.; Barteneva, N. S.

10.1101/2025.06.12.659335 — systems biology — Posted on 2025-06-17

2383 Systems-level Consequences of Low RAF Abundance for EGFR-ERK Signaling

Lee, S. H.; Myers, P. J.; Brown, K. S.; Loew, L. M.; Sorkin, A.; Lazzara, M. J.

10.1101/2025.06.12.659034 — systems biology — Posted on 2025-06-17

2384 Non-Thermal Plasma Activated Water is an Effective Nitrogen Fertilizer Alternative for Arabidopsis thaliana

Kizer, J. J.; Robinson, C. D.; Lucas, T.; Shannon, S.; Hernandez, R.; Stapelmann, K.; Rojas-Pierce, M.

10.1101/2025.06.12.659237 — plant biology — Posted on 2025-06-17

2385 A bioenergetic basis for multiorgan dysfunction in sepsis

Jentho, E.; Ademolue, T. W.; Peters-Sengers, H.; Butler, J. M.; Xu, L.-L.; Trikha Rastogi, S.; Kitoko, J.; Pagnotta, S.; Drotleff, B.; Faisca, P.; Polishchuk, V.; Mesquita, M.; Horn, P.; Metzing, U. B.; Cardoso, S.; Mithieux, G.; Bauer, M.; Chouchane, O.; Weis, S.; Panagiotou, G.; von Loeffelholz, C.; van der Poll, T.; Soares, M.

10.1101/2025.06.12.659280 — pathology — Posted on 2025-06-17

2386 Deciphering DEL Pocket Patterns Through Contrastive Learning

Zhang, W.; Wang, Y.; Zhan, R.; Qian, R.; Hu, Q.; Huang, J.

10.1101/2025.06.12.659183 — biophysics — Posted on 2025-06-17

2387 DiffusionST: A deep generative diffusion model-based framework for enhancing spatial transcriptomics data quality and identifying spatial domains

Cui, Y.; Wang, R.; Wei, L.

10.1101/2025.06.12.659243 — bioinformatics — Posted on 2025-06-17

2388 Nanopore Sequencing Unveils Somatic Structural Variations as Biomarkers in Laryngeal squamous cell carcinoma Genomes

Liu, X.; Xia, L.; Qiao, Y.; Li, Y.; Huang, Y.; Yue, B.; Liang, X.; Yang, X.; Zhang, H.; Zhang, J.; Chen, X.; Xie, D.; Liu, J.

10.1101/2025.06.12.659252 — bioinformatics — Posted on 2025-06-17

2389 On-skin, micro-lens enabled camera module for speckle contrast optical spectroscopy/tomography

Quiroga Soto, A. F.; Cortese, L.; Verma, M.; Dannberg, P.; Tachtsidis, I.; Danz, N.; Durduran, T.

10.1101/2025.06.12.659250 — bioengineering — Posted on 2025-06-17

2390 Every Piece of the Puzzle Matters: A Novel Zinc-Binding Site in the Luminal Domain of STIM1 Drives Clustering

Alary, B.; Baksheeva, V. E.; Beaumier, S.; Ferracci, G.; Villard, C.; Golovin, A. V.; Courrier, S.; Devred, F.; Bartoli, M.; Tsvetkov, P. O.

10.1101/2025.06.12.659323 — biochemistry — Posted on 2025-06-17

2391 Predisposed and learned preferences for multipoint visual statistics in visually naïve newly hatched chicks

Zanon, M.; Lemaire, B. S.; Piasini, E.; Caramellino, R.; Nallet, C.; Balasubramanian, V.; Gervain, J.; Zoccolan, D.; Vallortigara, G.

10.1101/2025.06.16.659971 — animal behavior and cognition — Posted on 2025-06-17

2392 Behavioral algorithms of ontogenetic switching in larval and juvenile zebrafish phototaxis

Capelle, M. Q.; Slangewal, K.; Bahl, A.

10.1101/2025.06.13.659371 — animal behavior and cognition — Posted on 2025-06-17

2393 Comparative genomics reveals multipartite genomes undergoing loss in the fungal endosymbiotic genus Mycetohabitans

Abbot, B.; Field, S.; Carneal, L.; White, R. A.; Buchan, A.; West, C.; Lee, L.; Carter, M. E.

10.1101/2025.06.12.659383 — genomics — Posted on 2025-06-17

2394 Major transitions in early coral development: novel insights enabled by visualisation of a comprehensive transcriptomic dataset for Acropora millepora

Brunner, R.; Grinblat, M.; Moya, A.; Hayward, D. C.; Lapeyre, B.; Ball, E. E.; Cooke, I. R.; Miller, D. J.

10.1101/2025.06.16.660037 — developmental biology — Posted on 2025-06-17

2395 Neurons maintain sequential order during radial migration by DSCAM-facilitated antagonism of N-Cadherin

Yang, T.; Hergenreder, T.; Veling, M. W.; Wang, Y.; Fuerst, P. G.; Giger, R. J.; Zhao, X.-F.

10.1101/2025.06.16.659927 — developmental biology — Posted on 2025-06-17

2396 DUE-B Is Dispensable for Early Development and Genome Duplication in Vertebrates.

Sansam, C. G.; Masser, E. A.; Goins, D.; Sansam, C. L.

10.1101/2025.06.17.658125 — developmental biology — Posted on 2025-06-17

2397 Single oocyte full-length isoform sequencing unveils the impact of transposable elements on RNA diversity and stability during oocyte maturation

Wang, Y.; Wang, W.; Liu, Y.; He, Y.; Song, H.; Yang, M.; Wang, N.; Wang, X.; Ding, L.; Kuo, Y.; Xiu, Y.; Du, Z.; Chen, L.; Lian, Y.; Liu, Q.; Yan, L.; Qiao, J.; Yuan, P.

10.1101/2025.06.17.659919 — developmental biology — Posted on 2025-06-17

2398 The Chromatin Remodeler Protein CHD4 Cooperates With NKX2.2 to Regulate Pancreatic Beta Cell Integrity

Sarbaugh, D. K.; Oliveira, T. G.; Guney, M. A.; Hoelscher, V. M.; Hill, C. J.; Michel, C. R.; Wells, K. L.; Benninger, R. K.; Sussel, L.

10.1101/2025.06.16.659956 — developmental biology — Posted on 2025-06-17

2399 Optical tissue clearing and 3D imaging of intact primate testicular tissue: a novel technology development

Kibui, P. W.; Weischer, S.; von Ostau, N.; Hess, J.; Kirschnick, N.; Zobel, T.; Schlatt, S.

10.1101/2025.06.15.659801 — developmental biology — Posted on 2025-06-17

2400 YAP1 and QSER1 are Key Modulators of Embryonic Signaling Pathways in the Mammalian Epiblast

Abraham, E.; Roule, T.; Douglas, A.; Megill, E.; Pericak, O. M.; Howe, J. E.; Choya-Foces, C.; Garbincius, J. F.; Cohen, H. M.; Roig, P.; Zubillaga, M.; Andrake, M. D.; Kim, S.; Elrod, J. W.; Akizu, N.; Estaras, C.

10.1101/2025.06.16.659935 — developmental biology — Posted on 2025-06-17

2401 Distinct topologically associated domains underlie the regulatory logic in lymphatic endothelial cells contributing to proper cell differentiation

Panara, V.; Arnold, H.; Gloger, M.; Skoczylas, R.; Vidal Gutierrez, V.; Johansson, A.; Smialowska, A.; Koltowska, K.

10.1101/2025.06.16.659849 — developmental biology — Posted on 2025-06-17

2402 Transient recurrent dynamics shape representations in mice

Schutzeichel, L.; Bauer, J.; Bouss, P.; Musall, S.; Dahmen, D.; Helias, M.

10.1101/2025.06.17.659440 — neuroscience — Posted on 2025-06-17

2403 Lysergic Acid Diethylamide extends lifespan in Caenorhabditis elegans

Carrilho, B. d. S.; Silva, A. D.; Sant Anna, A. M. K.; Ventura, M. A. V. d. C.; Moll, F. T.; Aguilaniu, H.; Domith, I.; Rehen, S. K.

10.1101/2025.06.16.659936 — neuroscience — Posted on 2025-06-17

2404 Whole-body central processing of lateral line inputs encodes flow direction relative to the center-of-mass

Lunsford, E. T.; Carbo-Tano, M.; Wyart, C.

10.1101/2025.06.16.659910 — neuroscience — Posted on 2025-06-17

2405 Innervation and cargo-specific axonal transport impairments in FUS-ALS mice with gain and loss of function

Simkin, R. L.; Tosolini, A. P.; Mikheenko, A.; Ule, A. M.; Kalmar, B.; Ahmed, M.; Lang, Q.; Lirot, F.; McLaughlin, M. F.; Price, G.; Villarroel-Campos, D.; Greensmith, L.; Sleigh, J. N.; Cunningham, T. J.; Schiavo, G.; Fisher, E. M.; Fratta, P.; Birsa, N.

10.1101/2025.06.16.659513 — neuroscience — Posted on 2025-06-17

2406 The precision of attention controls attraction of population receptive fields

Sheikh Abdirashid, S.; Knapen, T.; Dumoulin, S. O.

10.1101/2025.06.16.659874 — neuroscience — Posted on 2025-06-17

2407 Developing a Sensory Representation of an Artificial Body Part

Dowdall, L.; Molina-Sanchez, M.; Dominijanni, G.; da Silva, E.; Pavalkyte, V.; Jugovic, E.; Bianchi, M.; Iida, F.; Clode, D.; Makin, T. R.

10.1101/2025.06.16.658246 — neuroscience — Posted on 2025-06-17

2408 The contribution of vestibular and proprioceptive signals to trunk stabilization varies between postural tasks and between walking speeds.

Li, Y. C.; Bruijn, S. M.; Lemaire, K. K.; Brumagne, S.; van Dieen, J. H.

10.1101/2025.06.17.657409 — neuroscience — Posted on 2025-06-17

2409 Differential reliance on sensory reinstatement and internally transformed representation during vivid retrieval of visual and auditory episodes

Zhang, L.; Alain, C.; Buchsbaum, B.

10.1101/2025.06.16.659408 — neuroscience — Posted on 2025-06-17

2410 Alcohol consumption drives sex- and region- specific disruption of somatostatin signaling in mice

Brockway, D. A.; Griffith, K.; Kacala, A.; Bellfy, L.; Seemiller, L.; Ullrich, M.; Ricotta, J.; Hossain, M. S.; Kwapis, J. L.; Drew, P. J.; Crowley, N. A.

10.1101/2025.06.16.659907 — neuroscience — Posted on 2025-06-17

2411 Assessing the degree of cortical dislamination through electrical pattern analysis

Aquiles, A.; Pinedo-Vargas, L.; Luna-Munguia, H.; Pena-Ortega, F.; Concha, L.; Rossi-Pool, R.

10.1101/2025.06.16.659942 — neuroscience — Posted on 2025-06-17

2412 Column-Like Subnetwork Reconstruction in Motor Cortex from Graph-Based 3D High-Density Two-Photon Calcium Imaging

Aymard, P.; Boffi, J. C.; Asari, H.; Prevedel, R.; Holcman, D.

10.1101/2025.06.17.660119 — neuroscience — Posted on 2025-06-17

2413 Agouti integrates environmental information to regulate natural variation in paternal behavior

Rogers, F. D.; Mereby, S. A.; Kasper, A. M.; Kim, S.; Mallarino, R.; Pena, C. J.

10.1101/2025.06.17.658598 — neuroscience — Posted on 2025-06-17

2414 Rapid identification of Biomphalaria spp. and diagnosis of Schistosoma mansoni infestation using MALDI-TOF mass spectrometry

Sy, D.; Almeras, L.; Diarra, A. Z.; Doucoure, S.; Sarr, Y. M.; L'Ollivier, C.; Gaye, P. M.; Ndiaye, P. I.; Senghor, B.; Sow, D.; Sokhna, C.; Ranque, S.

10.1101/2025.06.16.659835 — zoology — Posted on 2025-06-17

2415 Pupil-linked arousal does not differ between white, pink and brown noises

Erfanian, M.; Chait, M.; Kang, J.

10.1101/2025.06.11.659177 — physiology — Posted on 2025-06-17

2416 Ethanolic leaf extract of Cleome spinosa induces apoptosis in Ehrlich ascites carcinoma cells through upregulation of p53 and down-regulation of Bcl-xL in vitro and in vivo

Sharma, P.; Ray, S.; Bindu, S.; Mazumder, T.; Sen, A.; Dasgupta, S. C.; Kishore, U.; Yasmin, H.

10.1101/2025.06.11.658929 — cancer biology — Posted on 2025-06-17

2417 KRAS withdrawal in Cholangiocarcinoma leads to immune infiltration and tumor regression

Qiao, Y.; Yee, M.; Parikh, C. N.; Cao, Y.; Shih, Y.-H.; Ma, B.; Wu, J. Q.; Ruscetti, M.; Liang, S.-Q.; Xue, W.

10.1101/2025.06.11.659210 — cancer biology — Posted on 2025-06-17

2418 The bacterial ESCRT-III PspA rods thin lipid tubules and increase membrane curvature through helix α0 interactions

Hudina, E.; Schott-Verdugo, S.; Junglas, B.; Kutzner, M.; Ritter, I.; Hellmann, N.; Schneider, D.; Gohlke, H.; Sachse, C.

10.1101/2025.06.13.659447 — biophysics — Posted on 2025-06-17

2419 Deepening imaging-based spatial proteomics at high spatial resolution through controlled tissue resizing and in-situ bottom-up mass spectrometry

Deng, K.; Zhan, L.; Yi, L.; Zhang, J.; Tang, M.; Chang, T.; Ji, G.; Shao, X.; Xu, X.; Wei, X.; Zhang, T.; Yao, J.; Wang, J.; Wang, G.; Huang, Y.

10.1101/2025.06.12.659329 — biophysics — Posted on 2025-06-17

2420 A modular, immunopeptidogenomic (iPepGen) analysis pipeline for discovery, verification, and prioritization of cancer peptide neoantigen candidates

Mehta, S.; Wagner, R.; Do, K. T.; Johnson, J. E.; Yu, F.; Jubenville, T.; Richards, K.; Coleman, S.; Popescu, F. E.; Nesvizhskii, A. I.; Largaespada, D. A.; Jagtap, P. D.; Griffin, T. J.

10.1101/2025.04.07.647596 — bioinformatics — Posted on 2025-06-17

2421 RocketSHP: Ultra-fast Proteome-scale Prediction of Protein Dynamics

Sledzieski, S.; Hanson, S. M.

10.1101/2025.06.12.659353 — bioinformatics — Posted on 2025-06-17

2422 A statistical framework for inferring genetic requirements from embryo-scale single-cell sequencing experiments

Duran, M.; Barkan, E. R.; Tresenrider, A.; Lee, H.; Friedman, R. Z.; Lammers, N.; Colon, M.; Franks, J.; Ewing, B.; Kimelman, D.; Trapnell, C.

10.1101/2025.04.03.646654 — bioinformatics — Posted on 2025-06-17

2423 Sono-uncaging for Spatiotemporal Control of Chemical Reactivity

Schrunk, E.; Lee, S.; Dutka, P.; Wu, D.; Shapiro, M. G.

10.1101/2025.06.11.659141 — bioengineering — Posted on 2025-06-17

2424 Yellowhammer (Emberiza citrinella) males sing using individual isochronous rhythms and maximise rhythmic dissimilarity with neighbours

Osiecka, A. N.; Oliva, M. Q.; Kouril, J.; Petruskova, T.; Burchardt, L. S.

10.1101/2025.06.17.660106 — animal behavior and cognition — Posted on 2025-06-17

2425 Study of changes in brain dynamics during sleep cycles in dogs under effect of trazodone

Catanzariti, M.; Mondino, A.; Torterolo, P.; Aimar, H.; Olby, N.; Mateos, D. M.

10.1101/2025.06.16.659841 — animal behavior and cognition — Posted on 2025-06-17

2426 Autopolyploidy exacerbates dominance masking under negative frequency-dependent selection: evidence from sporophytic self-incompatibility in Arabidopsis arenosa and A. lyrata

Vekemans, X.; Kolesnikova, U.; Vlcek, J.; Genete, M.; Dufour, A.; Welti, R.; Poux, C.; Castric, V.; Kolar, F.; Novikova, P. Y.

10.1101/2025.06.11.659117 — evolutionary biology — Posted on 2025-06-17

2427 The uncertainty partitioning of the terrestrial C cycling over CONUS NEON sites using model-data fusion

Zhang, D.; Qianyu, L.; Helgeson, A.; Serbin, S. P.; Dietze, M. C.

10.1101/2025.06.11.659109 — ecology — Posted on 2025-06-17

2428 Phylogenetic diversity and species diversity are decoupled under experimental warming and cooling in Rocky Mountain plant communities

Veldhuisen, L. N.; Seltzer, L.; Navarro, J.; Enquist, B. J.; Dlugosch, K. M.

10.1101/2025.06.11.659139 — ecology — Posted on 2025-06-17

2429 CRISPR with Transcriptional Readout reveals influenza transcriptionis modulated by NELF and can precipitate an interferon response

Vicary, A. C.; Jordan, S. N. Z.; Mendes, M.; Swaminath, S.; Castro, L. K.; Porter, J. S.; Vo, K. D.; Russell, A. B.

10.1101/2024.11.14.623683 — molecular biology — Posted on 2025-06-17

2430 Processing and release of the maize phytocytokine Zip1

Koenig, M.; Sorger, Z.; Mantz, M.; Perrar, A.; Huesgen, P. F.; Stael, S.; Villamil, J. C. M.; Doehlemann, G.

10.1101/2025.06.11.659102 — plant biology — Posted on 2025-06-17

2431 Domain gain or loss in fungal chitinases drives ecological specialization toward antagonism or immune suppression

Eichfeld, R.; Endeshaw, A. B.; Hellmann, M. J.; Moerschbacher, B. M.; Zuccaro, A.

10.1101/2025.06.16.659886 — plant biology — Posted on 2025-06-17

2432 Developing inhibitors of the guanosine triphosphate hydrolysis accelerating activity of Regulator of G protein Signaling-14

Agogo-Mawuli, P. S.; Sadiya, I.; Bosch, D. E.; Emmitte, K. A.; Colon-Perez, L.; Kosloff, M.; Siderovski, D. P.

10.1101/2025.06.11.659181 — pharmacology and toxicology — Posted on 2025-06-17

2433 Plasminogen activator inhibitors orchestrate the immunosuppressive tumor microenvironment in pancreatic cancer

Falcomata, C.; Nielsen, S. R.; Schaefer, M. M.; Singh, B.; Tepper, A.; Chhamalwan, D.; Potak, H. T.; Dhainaut, M.; Mollaoglu, G.; Park, M. D.; Merad, M.; Baccarini, A.; Brown, B. D.

10.1101/2025.06.11.659098 — cancer biology — Posted on 2025-06-17

2434 OnCorr: A pan-cancer mRNA-protein correlation tool for precision oncology

Nawaz, U.; Deng, N.; Livson, O.; Mayoh, C.; Lau, L. M.; Reddel, R. R.; Padhye, B.; Poulos, R. C.

10.1101/2025.06.12.659426 — cancer biology — Posted on 2025-06-17

2435 LINE-1 ORF1p is a shared and immunogenic antigen in cancer

McKerrow, W.; Snyder, M.; Chu, C.; Qadir, D.; Keilhack, H.; Diao, L.

10.1101/2025.06.11.659092 — cancer biology — Posted on 2025-06-17

2436 Surface-Tethering Enhances Precision in Measuring Diffusion Within 3D Protein Condensates

Sumrall, E. R.; Gao, G.; Stakenas, S.; Walter, N. G.

10.1101/2025.06.11.659185 — biophysics — Posted on 2025-06-17

2437 Deciphering population-level response under spatial drug heterogeneity on microhabitat structures

Hu, Z.; Wood, K. B.

10.1101/2025.02.13.638200 — biophysics — Posted on 2025-06-17

2438 A large-scale foundation model for bulk transcriptomes

kang, b.; Fan, R.; Yi, M.; Cui, C.; Cui, Q.

10.1101/2025.06.11.659222 — bioinformatics — Posted on 2025-06-17

2439 Can Random Walking on a Hi-C Contact Matrix Lead to Data Quality Improvement? An Assessment

Lin, S.; Liu, Y.

10.1101/2025.06.11.659235 — bioinformatics — Posted on 2025-06-17

2440 Exact Expectation of Complete Spatial Randomness for Nearest Neighbor G(r): A Scalable Alternative to Permutations

Soupir, A. C.; Manley, B. J.; Peres, L. C.; Fridley, B. L.; Wrobel, J.

10.1101/2025.06.11.659088 — bioinformatics — Posted on 2025-06-17

2441 High-Capacity transcranial Direct Current Stimulation (HC-tDCS)

Donnery, K.; FallahRad, M.; Khadka, N.; Saw, M.; Babaev, B.; Osorio, S.; Koochesfahani, M. B.; Bhuiyan, R.; Elwassif, J. M.; Bikson, M.

10.1101/2025.06.11.659142 — bioengineering — Posted on 2025-06-17

2442 Seahorse Metabolic Analysis for Human and Mouse Cardiac Organotypic Slices

Trampel, K. A.; Li, B.; Melisova, A.; Madrid, M. K.; George, S. A.; Efimov, I. R.

10.1101/2025.06.11.659150 — bioengineering — Posted on 2025-06-17

2443 Spatio-temporal chromosomal arrangements by late-replicating heterochromatin

Polisetty, S. D.; Dutta, S.; Vadnala, R. N.; Padinhateeri, R.; Notani, D.; Sanyal, K.

10.1101/2025.06.12.659004 — genomics — Posted on 2025-06-17

2444 Genomes of the Golden Horde Elites and their Implications for the Rulers of the Mongol Empire

Askapuli, A.; Kanzawa-Kiriyama, H.; Kakuda, T.; Kassenali, A.; Yessen, S.; Schamiloglu, U.; Schrodi, S. J.; Hawks, J.; Saitou, N.

10.1101/2025.06.11.659160 — genomics — Posted on 2025-06-17

2445 Gene duplication, translocation and molecular evolution of Dmrt1 and related sex-determining genes in anurans

Shinde, S. S.; Veltsos, P.; Ma, W.-J.

10.1101/2025.06.11.659201 — evolutionary biology — Posted on 2025-06-17

2446 Operative temperatures of Eastern Garter Snakes (Thamnophis sirtalis sirtalis) reveal a Goldilocks effect for habitat use

Kumbhani, H. A.; Abney, C. R.; Giacometti, D.; Tattersall, G. J.

10.1101/2025.06.11.659115 — ecology — Posted on 2025-06-17

2447 Terrigenous inputs link nutrient dynamics to microbial communities in a tropical lagoon

John, C.; Silbiger, N. J.; Adam, T. C.; Barnas, D. M.; Bistolas, K. S.; Carpenter, R. C.; Castaneda, N.; Donahue, M. J.; Donovan, M. K.; Enright, L. N.; Epstein, H. E.; Gallagher, J. P.; Jorissen, H.; Kerlin, J. R.; Leidholt, S. L.; McLachlan, R. H.; Molina, N.; Mullenmeister, C. A.; Neumann, K.; Renzi, J. J.; Silva, D. P.; Speare, K. E.; Swift, S.; Vompe, A. D.; Kelly, L. W.; Zeff, M.; Nelson, C. E.; Thurber, R. V.; Burkepile, D. E.

10.1101/2025.06.11.659169 — ecology — Posted on 2025-06-17

2448 Maternal exercise rescues fetal akinesia-impaired joint and bone development

Panebianco, C. J.; Huang, Y.; Khatib, N.; Gottlieb, D. C.; Essaidi, M.; Ahmed, S.; Dyment, N.; Simmons, R. A.; Boerckel, J. D.; Nowlan, N.

10.1101/2025.06.17.660083 — developmental biology — Posted on 2025-06-17

2449 Panel Perils: How Size, Fluorochrome Choices, and Unmixing Algorithms Shape Your Analysis Adventure!

Bhowmick, D.; Bushnell, T.

10.1101/2025.06.11.659156 — cell biology — Posted on 2025-06-17

2450 The lysosomal carrier SLC29A3 supports anti-bacterial signaling and promotes autophagy by activating TRPML1 in mouse dendritic cells

Netting, D. J.; Lopez-Haber, C.; Hutchins, Z.; Martina, J. A.; Puertollano, R.; Mantegazza, A. R.

10.1101/2025.06.11.659112 — cell biology — Posted on 2025-06-17

2451 The BUB1 and BUBR1 paralogs scaffold the kinetochore fibrous corona

Cmentowski, V.; Musacchio, A.

10.1101/2025.06.17.660062 — cell biology — Posted on 2025-06-17

2452 Tertiary and quaternary structure remodeling by occupancy of the substrate binding pocket in a large glutamate dehydrogenase

Lazaro, M.; Chamorro, N.; Lopez-Alonso, J. P.; Charro, D.; Rasia, R. M.; Jimenez-Oses, G.; Valle, M.; Lisa, M.-N.

10.1101/2024.12.26.630402 — molecular biology — Posted on 2025-06-17

2453 Selective inhibition of MR1-restricted T cell activation by a novel MR1-targeting nanobody

Bates, T. A.; Kulicke, C. A.; Gurmessa, S.; Kim, S.-J.; Suresh, S.; Weinstein, J. R.; Hinchliff, A.; Burke, J. E.; Lewinsohn, D.; Tafesse, F. G.

10.1101/2025.06.11.659204 — immunology — Posted on 2025-06-17

2454 Prevalence of Heartwater in Guadeloupe (2024): Stable endemicity and Evidence of Spread to Les Saintes

Dufleit, V.; Guerrini, L.; Dhune, M.; Viry, L.; Belfort, A.; Jacquet-Cretides, L.; Deddy, J.; Cozier, J.; Naves, M.; Arthein, L.; Sammut, T.; Pezeron, M.; Rodrigues, V.; MEYER, D. F.; Etter, E.

10.1101/2025.06.11.659135 — immunology — Posted on 2025-06-17

2455 Murine peritoneal macrophages undergo female-specific remodeling with aging

10.1101/2025.06.11.659200 — immunology — Posted on 2025-06-17

2456 VAMP7-dependent mitochondria-lysosome contacts regulate glial mitochondrial dynamics and dopaminergic neuron survival

Wang, H.; Wang, M.; Tsai, Y.-T.; Cheng, Y.-H.; Lin, Y.-T.; Lin, C.-C.; Lee, Y.-H.; Wang, L.; Yi, S.; Zhang, S.; Pan, Y.; Ho, M. S.

10.1101/2021.08.16.456582 — neuroscience — Posted on 2025-06-17

2457 Evolutionary Convergence of the Arcuate Fasciculus in Marmosets and Humans

Wang, Y.; Cheng, L.; Li, D.; Lu, Y.; Hopkins, W.; Sherwood, C.; Xu, T.; Liu, C.; Paxinos, G.; Jiang, T.; Chu, C.; Fan, L.

10.1101/2025.04.21.649746 — neuroscience — Posted on 2025-06-17

2458 Multidimensional feature tuning in category-selective areas of human visual cortex

van Dyck, L. E.; Hebart, M. N.; Dobs, K.

10.1101/2025.06.17.659578 — neuroscience — Posted on 2025-06-17

2459 Iso-orientation bias of layer 2/3 connections: the unifying mechanism of spontaneous, visually and optogenetically driven V1 dynamics

Rozsa, T.; Cagnol, R.; Antolik, J.

10.1101/2024.11.19.624284 — neuroscience — Posted on 2025-06-17

2460 A Distribution-aware Semi-Supervised Pipeline for Cost-effective Neuron Segmentation in Volume Electron Microscopy

Zhang, Y.; Zhai, H.; Guo, J.; Liu, J.; Xie, Q.; Han, H.

10.1101/2024.05.26.595303 — neuroscience — Posted on 2025-06-17

2461 Second Language Proficiency Modulates Hierarchical Alignment between Brain Activity and Large Language Models

Kubo, R.; Nishimoto, S.; Nakai, T.

10.1101/2025.06.17.660057 — neuroscience — Posted on 2025-06-17

2462 Verification and reproducible curation of the BioModels repository

Smith, L. P.; Malik-Sherif, R. S.; Nguyen, T. V. N.; Hermjakob, H.; Karr, J.; Shaikh, B.; Drescher, L.; Moraru, I. I.; Schaff, J.; Agmon, E.; Patrie, A.; Blinov, M. L.; Hellerstein, J.; May, E.; Nickerson, D.; Gennari, J.; Sauro, H.

10.1101/2025.01.16.633337 — systems biology — Posted on 2025-06-17

2463 Klotho deficiency promotes skeletal muscle weakness and is associated with impaired motor unit connectivity

Bean, L. A.; Thomas, C.; Villa, J. F.; Fitt, A. J.; Javier, A. J.; Agrawal, A.; Whitney, H.; Dos Santos, G. N.; White, K. E.; Huot, J. R.; Welc, S. S.

10.1101/2025.06.11.659129 — physiology — Posted on 2025-06-17

2464 Interplay between BET Proteins and the Pre-Replication Complex Unveils Therapeutic Vulnerabilities in Cancer

Doberstein, K.; Messner, V.; Berlit, S.; Tuschy, B.; Suetterlin, M.; Marme, F.

10.1101/2025.03.27.645172 — cancer biology — Posted on 2025-06-17

2465 Modeling the role of urokinase plasminogen activator, uPA, and circulating Cancer-Associated Fibroblasts (cCAFS) in breast cancer cell extravasation

Spartz, A.; Schmidt, S.; Mohamed, F.; Troness, B.; El-Ashry, D.; Lange, C.

10.1101/2025.06.11.659108 — cancer biology — Posted on 2025-06-17

2466 Sulindac modulates the response of triple negative breast cancer to anti-PD-L1 immunotherapy

Yi, B.; Ma, R.; Zhang, X.; Li, L.; Riker, A. I.; Xi, Y.

10.1101/2025.06.11.659159 — cancer biology — Posted on 2025-06-17

2467 Longitudinal Awake Imaging of Deep Mouse Brain Microvasculature with Super-resolution Ultrasound Localization Microscopy

Wang, Y.; Lowerison, M. R.; Huang, Z.; You, Q.; Lin, B.-Z.; Llano, D. A.; Song, P.

10.1101/2023.09.01.555789 — biophysics — Posted on 2025-06-17

2468 Role of Dynamical Instability in QT Interval Variability and Early Afterdepolarization Propensity

Sato, D.; Hegyi, B.; Ripplinger, C. M.; Bers, D. M.

10.1101/2025.06.11.659221 — biophysics — Posted on 2025-06-17

2469 APALORD: An R-based tool for differential alternative polyadenylation analysis of long-read RNA-seq data

Zhang, Z.; Glatt-Deeley, H.; Zou, L.; Song, D.; Miura, P.

10.1101/2025.06.11.658931 — bioinformatics — Posted on 2025-06-17

2470 Towards a comprehensive view of the pocketome universe - biological implications and algorithmic challenges.

Zillmer, H.; Walther, D.

10.1101/2025.02.04.636483 — bioinformatics — Posted on 2025-06-17

2471 Logistic regression for estimating functional effects with spatial transcriptomics

Oviedo, H. V.; Barkasi, M.; Pham, C. N.; Neophytou, D.

10.1101/2025.06.11.659209 — bioinformatics — Posted on 2025-06-17

2472 Prolonged cell encapsulation and rapid filamented light biofabrication of muscle constructs in microgravity

Winkelbauer, M.; Janiak, J.; Windisch, J.; Liu, H.; Bulatova, M.; Witzleben, M. W.; Oliveira, H.; Dani, S.; Richter, R. F.; L'Heureux, N.; Bar-Nur, O.; Gelinsky, M.; Zenobi, M.; Chansoria, P.

10.1101/2025.06.11.659059 — bioengineering — Posted on 2025-06-17

2473 Opportunistic diver-assisted eDNA sampling unpicks fine-scale ecological and conservation signals in tropical reef fishes

Maiello, G.; Rubio, V. B.; Allen, L.; Neave, E.; Bonne, R.; Theresine, P.; Mariani, S.

10.1101/2025.06.11.659134 — ecology — Posted on 2025-06-17

2474 Trait and Growth Responses to Sequential Environmental Change linked to Sensitivity in Synechococcus populations

Sikder, A.; Kremer, C. T.; Laender, F. D.

10.1101/2025.06.11.659080 — ecology — Posted on 2025-06-17

2475 The contribution of native protein complexes to targeted protein degradation

Glennie, L.; Curnutt, N.; Cartwright, T.; Dunbar, K. J.; Chatelier, B. L.; Wood, N.; Macartney, T. J.; Woo, C. M.; Sapkota, G. P.

10.1101/2025.06.17.660125 — cell biology — Posted on 2025-06-17

2476 Endothelial Cells retain inflammatory memory through chromatin remodeling

Gonsales Spindola, D.; Clark, S.; Bahr, A.; Pin de Jesus, G.; Martino, N.; Lowery, A. M.; Lyu, S.; Seeman, A.; Martino, G.; Albeche Duarte, G.; Crosbourne, E.; Vincent, P.; MacNamara, K. C.; Adam, A. P.; Bossardi Ramos, R.

10.1101/2025.06.12.659136 — cell biology — Posted on 2025-06-17

2477 Mapping the soil microbiome functions shaping wetland methane emissions

Borton, M. A.; Oliverio, A. M.; Narrowe, A. B.; Villa, J. A.; Rinke, C.; Hoyt, D. W.; Liu, P.; McGivern, B. B.; Bechtold, E. K.; Ellenbogen, J. B.; Daly, R. A.; Smith, G. J.; Angle, J. C.; Flynn, R. M.; Freiburger, A. P.; Louie, K. B.; Stemple, B.; Northen, T.; Henry, C.; Miller, C.; Morin, T. H.; Bohrer, G.; Wrighton, K. C.

10.1101/2024.02.06.579222 — microbiology — Posted on 2025-06-17

2478 DEVELOPMENT OF A POTENT MONOCLONAL ANTIBODY FOR TREATMENT OF HUMAN METAPNEUMOVIRUS INFECTIONS

Harris, E. D.; McGovern, M.; Pernikoff, S.; Ikeda, R.; Kipnis, L.; Hannon, W.; Sobolik, E. B.; Gray, M.; Greninger, A. L.; He, S.; Chin, C.-N.; Fu, T.-M.; Pancera, M.; Boonyaratanakornkit, J.

10.1101/2025.06.09.657676 — immunology — Posted on 2025-06-17

2479 A dynamic spatiotemporal normalization model for continuous vision

Chapman, A.; Denison, R. N.

10.1101/2025.03.06.641906 — neuroscience — Posted on 2025-06-17

2480 Contrasting patterns of local adaptation and climate resilience across forest management regimes in Norway spruce (Picea abies): implications for reforestation practices under climate change

Eklöf, H.; Bernhardsson, C.; Ingvarsson, P. K.

10.1101/2025.06.11.659044 — plant biology — Posted on 2025-06-17

2481 Osteoarthritic chondrocytes exert higher contractile forces and exhibit enhanced protrusive activity when cultured in 3D degradable hydrogels

Vovchenko, M.; Vaes, N.; Barrasa-Fano, J.; Shapeti, A.; Castro Vinuelas, R.; Kimps, L.; Glorieux, C.; Jonkers, I.; Van Oosterwyck, H.

10.1101/2025.02.27.640613 — bioengineering — Posted on 2025-06-17

2482 RhoA Allosterically Activates Phospholipase Cε via its EF Hands

Ohri, V.; Samassekou, K.; Muralidharan, K.; Garland-Kuntz, E. E.; Fisher, I. J.; Hogan, W. C.; Davis, B. M.; Lyon, A.

10.1101/2024.11.14.623250 — biochemistry — Posted on 2025-06-17

2483 Endophilin-Lamellipodin-VASP, key components in fast endophilin-mediated endocytosis, control actin polymerization within liquid-like condensates.

Narayan, K. B.; James, H. P.; Cope, J.; Mondal, S.; Baeyens, L.; Milano, F.; Zheng, J.; Krause, M.; Baumgart, T.

10.1101/2024.03.21.586200 — biochemistry — Posted on 2025-06-17

2484 Interindividual variability in flower pickiness by foraging bumblebees

Armand, M.; Beckenbauer, C.; Avargues-Weber, A.; Lihoreau, M.; Czaczkes, T. J.

10.1101/2024.12.19.629386 — animal behavior and cognition — Posted on 2025-06-17

2485 Loss of Bbs8 leads to cystic kidney disease in mice with reduced acetylation of ciliary alpha-tubulin through HDAC2

Kieckhoefer, E.; Guenzler, J.; Matthiessen, P. A.; Ebert, L. K.; Klausen, C.; Wachten, D.; Cetiner, M.; Liebau, M. C.; Benzing, T.; May-Simera, H. L.; Schermer, B.

10.1101/2024.03.07.583949 — genetics — Posted on 2025-06-17

2486 Limited population structure but signals of recent selection in introduced African Fig Fly (Zaprionus indianus) in North America

Erickson, P. A.; Stellwagen, A.; Bangerter, A.; Gunter, A.; Polizos, N. T.; Bergland, A. O.

10.1101/2024.09.20.614190 — evolutionary biology — Posted on 2025-06-17

2487 Limitations of p50 as a measure of seed longevity and the way forward

Klepka, L.; Hay, F.; Carta, A.; Bucharova, A.

10.1101/2025.06.11.659081 — ecology — Posted on 2025-06-17

2488 Differences in components of reproductive behaviour between populations at the simultaneously hermaphroditic snail Lymnaea stagnalis

Pekelharing, S.; Nakadera, Y.; Saito, T.; Koene, J. M.

10.1101/2025.06.11.658905 — ecology — Posted on 2025-06-17

2489 Protocol to optimize gain settings of Aurora for better data resolution

Bhowmick, D.; Ratliff, M. L.; Richard, L.

10.1101/2025.06.11.659153 — cell biology — Posted on 2025-06-17

2490 Phenotypic resistance to phage infection through capsule expression shutdown in Klebsiella pneumoniae

Mora-Quilis, L.; Sanjuan, R.; Domingo-Calap, P.

10.1101/2025.06.16.659931 — microbiology — Posted on 2025-06-17

2491 The complete genome and comparative analysis of a new Tequintavirus: Salmonella phage Tennessee Salten

Maurin, A.; Zarate-Chaves, C.; Breyton, C.; Dainat, J.; Feugier, A.; Froissart, R.

10.1101/2025.06.16.659957 — microbiology — Posted on 2025-06-17

2492 Directed Evolution of a Pantoea Strain for Antibiotic Production via Interspecies Competition: A Reproducible Experimental Approach

Pavelka, J.; Janoskova, K.; Hlinkova, K.; Horova, E.; Pavelka, J.; Sima, R.

10.1101/2025.06.13.659473 — microbiology — Posted on 2025-06-17

2493 A Multiscale Framework for Uncovering Surfactant Mediated Viral Capsid Disruption

Masirevic, S.; Marzinek, J. K.; Kong, M. L. Y.; Lin, G.; Chen, H.; Liu, J.; Chua, C.; Maupin, C. M.; Verma, C. S.; Fox, S. J.; Bond, P. J.

10.1101/2025.06.16.659739 — biophysics — Posted on 2025-06-17

2494 Human parainfluenza virus infection remodels the host cell glycome

Das, P. K.; Dirr, L.; Bailly, B.; Guillon, P.; Everest-Dass, A.; von Itzstein, M.

10.1101/2025.06.15.659808 — microbiology — Posted on 2025-06-17

2495 Molecular and Phenotypic Characterization of Telomere Repeat Binding (TRBs) Proteins in Moss: Evolutionary and Functional Perspectives

Kusova, A.; Hola, M.; Goffova Petrova, I.; Rudolf, J.; Zachova, D.; Skalak, J.; Hejatko, J.; Klodova, B.; Prerovska, T.; Lycka, M.; Sykorova, E.; Bertrand, Y. J. K.; Fajkus, J.; Honys, D.; Prochazkova Schrumpfova, P.

10.1101/2025.06.11.659030 — plant biology — Posted on 2025-06-17

2496 Molecular Insights into the Production of Extracellular Vesicles by Plants

Koch, B. L.; Gardner, D.; Smith, H.; Bracewell, R.; Awdey, L.; Foster, J.; Borniego, M. L.; Munch, D. H.; Nielsen, M. E.; Pasupuleti, R.; Trinidad, J.; Rutter, B.; Thordal-Christensen, H.; Innes, R. W.

10.1101/2025.06.16.659989 — plant biology — Posted on 2025-06-17

2497 A simple and versatile plasma membrane staining method for visualizing living cell morphology in reproductive tissues across diverse plant species

Hanaki, Y.; Suzuki, H.; Nakamura, S.; Nakagawa, S.; Tada, K.; Matsumoto, H.; Kimata, Y.; Sato, Y.; Ueda, M.

10.1101/2025.06.11.659190 — plant biology — Posted on 2025-06-17

2498 The NLR immune receptor Roq1 recognizes the Pseudomonas syringae HopAG1 effector via its Nudix domain

Gorecka, M.; Jonak, M.; Grech-Baran, M.; Steczkiewicz, K.; Ochoa, J. C.; Krepski, T.; Zembek, P. B.; Pawłowski, K.; Krzymowska, M.

10.1101/2025.06.13.659573 — plant biology — Posted on 2025-06-17

2499 Domain gain or loss in fungal chitinases drives ecological specialization toward antagonism or immune suppression

Eichfeld, R.; Zuccaro, A.; Endeshaw, A. B.; Moerschbacher, B. M.; Hellmann, M. J.

10.1101/2025.06.16.659886 — plant biology — Posted on 2025-06-17

2500 The Ca2+ Channel CYCLIC NUCLEOTIDE GATED CHANNEL13 (CNGC13) regulates systemic wound signalling and immunity against Spodoptera herbivory

Prajapati, R.; Kumari, M.; Singh, Y.; Pawar, M.; Marchesano, B. M. O.; Kalia, J.; Costa, A.; Vadassery, J.

10.1101/2025.06.16.660006 — plant biology — Posted on 2025-06-17

2501 A robust platform for recombinant production of animal venom toxin modulators of ion channels

Gonzalez-Prada, J. E.; Haworth, A.; Browne, J.; Salvage, S. C.; Secomandi, N.; Rush, A.; Ritoux, A.; Dannawi, M.; Lee, L.; Mavridou, V.; Dong, Y. Y.; Smith, E. S. J.; Jackson, A.; Stevens, E.; Miller, P. S.

10.1101/2025.06.11.659050 — pharmacology and toxicology — Posted on 2025-06-17

2502 Does crossing the pond affect crystal quality?

Campomizzi, C. S.; Snell, M. E.; Mikolajek, H.; Sandy, J.; Sanchez-Weatherby, J.; Budziszewski, G. R.; Russi, S.; Howells, R.; Cohen, A.; Hough, M. A.; Bowman, S. E. J.

10.1101/2025.06.12.659325 — biophysics — Posted on 2025-06-17

2503 Predicting residue ionization of OmpF channel using Constant pH Molecular Dynamics as benchmarking

Tavares-Neto, E.; Aguilella-Arzo, M.; Aguilella, V. M.

10.1101/2025.06.16.659857 — biophysics — Posted on 2025-06-17

2504 Extracellular K+ modulates the pore conformations of Cys-loop receptor anion channels

Shimomura, T.; saitoe, M.; Kubo, Y.; Suzuki, Y.

10.1101/2025.06.15.658987 — biophysics — Posted on 2025-06-17

2505 Nucleotide-dependent conformational changes direct peptide export by the transporter associated with antigen processing

Lee, J.; Manon, V.; Chen, J.

10.1101/2025.06.12.659373 — biophysics — Posted on 2025-06-17

2506 PHD1-dependent hydroxylation of RepoMan (CDCA2) on P604 modulates the control of mitotic progression

Druker, J.; Jiang, H.; Shakir, D.; Child, F.; Alvarez, V.; Platani, M.; Corno, A.; Alabert, C.; Saurin, A. T.; Swedlow, J. R.; Rocha, S.; Lamond, A. I.

10.1101/2025.05.06.652400 — cell biology — Posted on 2025-06-17

2507 Proximity Labeling of NIMA Kinase Complex Components in C. elegans

Fay, D. S.; Balasubramaniam, B.; Harrington, S. M.; Edeen, P. T.

10.1101/2025.06.16.659960 — molecular biology — Posted on 2025-06-17

2508 Vertebrate Biodiversity via eDNA at the air-water interface

Ip, Y. C. A.; Brandao-Dias, P. F. P.; Guri, G.; Allan, E. A.; Kelly, R. P.

10.1101/2025.06.13.659655 — molecular biology — Posted on 2025-06-17

2509 Type-I interferon priming signal balances anti-bacterial and anti-tumor trained immunity in alveolar macrophages

Wang, T.; Zhang, J.; Miao, Y.; Wang, Y.; Li, Y.; Wang, L.; Liu, Y.; Chang, C.-W.; Chen, E.; Yao, Y.

10.1101/2025.06.14.659659 — immunology — Posted on 2025-06-17

2510 Larvaworld : A behavioral simulation and analysis platform for Drosophila larva

Sakagiannis, P. P.; Rapp, H.; Jovanic, T.; Nawrot, M. P.

10.1101/2025.06.15.659765 — neuroscience — Posted on 2025-06-17

2511 Spectral disruption of inter-hemispheric resting-state BOLD coherence at vasomotor frequency (~0.1 Hz) links vascular dysfunction to functional connectivity loss in carotid artery stenosis

Choi, S.; Hoffmann, G.; Schneider, S.; Kaczmarz, S.; Kleinfeld, D.; Yu, X.; Sorg, C.; Preibisch, C.

10.1101/2025.06.12.659378 — neuroscience — Posted on 2025-06-17

2512 AI-Guided CAR Designs and AKT3 Degradation Synergize to Enhance Bispecific and Trispecific CAR-T Cell Persistence and Overcome Antigen Escape

Ansari, M. S.; Chauhan, V.; Singh, A.; Akhtar, A.; Chaudhary, N.; Tyagi, R.; Divya, ; Husain, K.; Sharma, S.; Alam, R.; Md Shakir, ; Pracha, M.; Anjum, S.; Mohd Nadeem, ; Faizan, M. I.; Azmi, I.; Iyer, A. R.; Gupta, P.; Nafiz, M.; Ali, S.; Ud din, I. M.; Javid, M.; Kuma P, H.; Srivastava, A. K.; Mabalirajan, U.; Mathews, V.; Ramalingam, S.; Kharya, G.; Ahmad, T.

10.1101/2025.06.12.658477 — cancer biology — Posted on 2025-06-17

2513 Early initiation of small intestine neuroendocrine tumors

Schiller, A.; Hultmark, A.; Lindberg, M.; Socratous, A.; Luijts, T.; Van den Eynden, J.; Elf, A.-K.; Rossi Norrlund, R.; Arvidsson, Y.; Elias, E.; Larsson, E.

10.1101/2025.05.16.654489 — cancer biology — Posted on 2025-06-17

2514 Transient Non-local Interactions Dominate the Dynamics of Measles Virus NTAIL

Otteson, L.; Nagy, G.; Kunkel, J.; Kodis, G.; Bock, L. V.; Bignon, C.; Longhi, S.; Zheng, W.; Grubmüller, H.; Vaiana, A. C.; Vaiana, S. M.

10.1101/2024.07.22.604679 — biophysics — Posted on 2025-06-17

2515 Evaluating the effectiveness of various small RNA alignment techniques in transcriptomic analysis by examining different sources of variability through a multi-alignment approach

Zhao, X.; Korsching, E.

10.1101/2025.02.18.638849 — bioinformatics — Posted on 2025-06-17

2516 Predicting Disease-Specific Histone Modifications and Functional Effects of Non-coding Variants by Leveraging DNA Language Models

Wang, X.; Pan, T.; Chen, S.; Webb, G.; Jiang, Y.; Rozowsky, J.; Gerstein, M.; Song, J.

10.1101/2025.06.15.659749 — bioinformatics — Posted on 2025-06-17

2517 REINDEER2: practical abundance index at scale

Hernandez-Courbevoie, Y.; Salson, M.; Bessiere, C.; Yue, H.; Gautheret, D.; Marchet, C.; Limasset, A.

10.1101/2025.06.16.659990 — bioinformatics — Posted on 2025-06-17

2518 Repeated environmental changes mitigate inter-individual inequality of food gain in a group foraging experiment with large-billed crows

Niki, Y.; Takano, M.; Izawa, E.-I.

10.1101/2025.02.12.637811 — animal behavior and cognition — Posted on 2025-06-17

2519 Diversity and Community Structure of Collembola (Hexapoda) across sites and microhabitats in the Bula Protected Area, a UNESCO-Listed Hyrcanian Forest at the Crossroads of Two Biodiversity Hotspots (Iran).

Tully, T.; Shayanmehr, M.; Yoosefi Lafooraki, E.; Ghajar Sepanlou, M.; D'Haese, C.

10.1101/2025.05.20.650270 — ecology — Posted on 2025-06-17

2520 Revisiting Size Selective Morality in Young Fish: Do Small Teleosts Really Pay a Cost?

Bath, D.; Newediuk, L.

10.1101/2025.06.16.660013 — ecology — Posted on 2025-06-17

2521 Plastic-Degrading Clusters of Orthologous Groups in Prokaryotes

Mustari, S.; Pham, L. T.; Saikkonen, K.; Nakamura, M.; Puigbo, P.

10.1101/2025.06.10.658834 — microbiology — Posted on 2025-06-17

2522 Precision mapping of functional brain network trajectories during early development

Derman, D.; Ferradal, S. L.

10.1101/2025.06.16.659959 — neuroscience — Posted on 2025-06-17

2523 Senescence-Associated Chromatin Rewiring Promotes Inflammation and Transposable Element Activation

Dalgarno, A.; Evans, S. A.; Kelsey, M. M. G.; Nunez, T. A.; Rocha, A.; Clark, K.; Sedivy, J. M.; Neretti, N.

10.1101/2025.06.11.659151 — genomics — Posted on 2025-06-17

2524 Towards interpretable molecular and spatial analysis of the tumor microenvironment from digital histopathology images with HistoTME-v2

Patkar, S.; Rosean, T. R.; Patel, P.; Harmon, S.; Choyke, P.; Jamaspishvilli, T.; Turkbey, B.

10.1101/2025.06.11.658673 — pathology — Posted on 2025-06-17

2525 M. tuberculosis meets European Lead Factory - identification and structural characterization of novel Rv0183 inhibitors using X-ray crystallography

Riegler-Berket, L.; Goedl, L.; Polidori, N.; Aschauer, P.; Grininger, C.; Prosser, G.; Lichtenegger, J.; Sagmeister, T.; Parigger, L.; Gruber, C. C.; Reiling, N.; Oberer, M.

10.1101/2025.06.12.659322 — biochemistry — Posted on 2025-06-17

2526 A general framework for cycles in ecology

Calleja Solanas, V.; Moura, R. O.; Langa, J. A.; Portillo Fernandez, J. R.; Soler-Toscano, F.; Godoy, O.

10.1101/2025.01.13.632680 — ecology — Posted on 2025-06-17

2527 CCDC32 stabilizes clathrin-coated pits and drives their invagination

Yang, Z.; Yang, C.; Huang, Z.; Xu, P.; Li, Y.; Han, L.; Peng, L.; Wei, X.; Pak, J.; Svitkina, T.; Schmid, S. L.; Chen, Z.

10.1101/2024.06.26.600785 — cell biology — Posted on 2025-06-17

2528 Spatial integration of sensory input and motor output in Pseudomonas aeruginosa chemotaxis through colocalized distribution

Wu, Z.; Tian, M.; Fu, S.; Chen, M.; Zhang, R.; Yuan, J.

10.1101/2024.03.13.584826 — microbiology — Posted on 2025-06-17

2529 Population shifts in begomoviruses associated with tomato yellow leaf curl disease in western Mediterranean countries

Granier, M.; Faize, M.; Passera, S.; Urbino, C.; Peterschmitt, M.

10.1101/2024.08.09.607290 — microbiology — Posted on 2025-06-17

2530 Multi-omics investigation of spontaneous T2DM macaque reveals gut microbiota promote T2DM by up-regulating the absorption of excess palmitic acid

Liu, X.; Yang, S.; Xie, Y.; Jiang, C.; Shang, K.; Luo, J.; Zhang, L.; Hu, G.; Liu, Q.; Yue, B.; Fan, Z.; He, Z.; Li, J.

10.1101/2024.10.17.618794 — microbiology — Posted on 2025-06-17

2531 Napping alters Functional Brain Responses in the Aged

Reyt, M.; Dourte, M.; DeHaan, S.; Deantoni, M.; Baillet, M.; Lesoinne, A.; Laloux, S.; Hammad, G.; Collette, F.; Peigneux, P.; Muto, V.; Vandewalle, G.; Bahri, M. A.; Phillips, C.; Schmidt, C.

10.1101/2025.06.10.657597 — neuroscience — Posted on 2025-06-17

2532 Acute aerobic exercise intensity does not modulate pain potentially due to differences in fitness levels and sex effects - results from a pharmacological fMRI study

Nold, J. I.; Fadai, T.; Buechel, C.

10.1101/2024.06.25.600579 — neuroscience — Posted on 2025-06-17

2533 Inference and prediction for random walk models in biology

Simpson, M. J.; Plank, M. J.

10.1101/2025.05.25.656057 — systems biology — Posted on 2025-06-17

2534 Establishing betaxanthin pigment biosynthesis in cyanobacteria

Hanamghar, S. S.; Russo, D. A.; Mellor, S. B.; Zedler, J. A. Z.

10.1101/2025.06.16.659934 — synthetic biology — Posted on 2025-06-17

2535 Noncanonical activation of Protease-activated receptor 1 induces autophagy in mammalian breast cancer cells

SAHA, S.; KUMAR, R.; SARANGI, S.; GOPE, A.; PAL, A.; TAPADER, R.; NAG, N.; PAL, A.

10.1101/2025.01.11.632575 — cancer biology — Posted on 2025-06-17

2536 Patch deconvolution for Fourier light-field microscopy

Fu, B.; Jones, C. L.; Heraghty, D.; Yang, S.; O'Brien-Ball, C.; Junghans, V.; Yang, H.; Knowles, T.; Weiss, L. E.; Fernandes, R. A.; Lee, S.

10.1101/2025.06.13.659385 — biophysics — Posted on 2025-06-17

2537 ER tethering and active transport govern condensate diffusion during hyperosmotic stress

Halder, B.; Gao, G.; Ahnoud, A.; Stakenas, S.; Sumrall, E. R.; Walter, N. G.

10.1101/2025.06.13.659610 — biophysics — Posted on 2025-06-17

2538 Pulsed-laser lensing for phase modulation in electron microscopy

Du, D. X.; Bartnik, A. C.; Duncan, C. J. R.; Choudhry, U.; Tabachnik, T.; Sallah, C.; Ogawa, Y.; Najafi, E.; Yang, D.-S.; Maxson, J. M.; Fitzpatrick, A. W. P.

10.1101/2025.06.12.659428 — biophysics — Posted on 2025-06-17

2539 Characterizing Traction Forces in Upstream-Migrating Hematopoietic-like KG1a Cells Under Shear Flow

Lee, D.-h.; Hammer, D. A.

10.1101/2025.06.13.659511 — biophysics — Posted on 2025-06-17

2540 Cellular porosity in dentin exhibits complex network characteristics with spatio-temporal fluctuations

Chatelain, L.; Tremblay, N.; Vennat, E.; Dursun, E.; Rousseau, D.; Gourrier, A.

10.1101/2025.03.21.644497 — biophysics — Posted on 2025-06-17

2541 Establishment and Characterization of a New Immortalized Human Adenomyosis Epithelial-Like Cell Line, tAEC21

Klymenko, Y.; Kersey, J. L.; Quigley, H. D.; Hawkins, S. M.

10.1101/2025.06.16.660025 — cell biology — Posted on 2025-06-17

2542 Sustained Lysosomal Delivery of Enhanced Cy3-Labeled Acid Nanoparticles Restores Lysosomal pH in Retinal Pigment Epithelial Cells and Astrocytes

Li, J.; Wang, T.; Lu, W.; Jishkariani, D.; Tsourkas, A.; Kaja, S.; Nair, R.; Dunaief, J.; Mitchell, C. H.

10.1101/2025.06.16.659991 — cell biology — Posted on 2025-06-17

2543 A short linear motif, conserved from yeast to human, binds to members of the Spa2/GIT1 family of cortical scaffold proteins

Bareis, L.; Siewert, A.; Bergner, T.; Read, C.; Timmermann, S.; Schmid, N.; Johnsson, N.

10.1101/2025.06.12.659263 — cell biology — Posted on 2025-06-17

2544 Atad3 is Essential for Mitochondrial Permeability Transition Pore Opening and Cardiac Ischemia Reperfusion Injury.

Robichaux, D.; Lopez, S. J.; Mendoza, A.; Ramirez, D.; Lin, S.-C. J.; Molkentin, J. D.; Peixoto, P. M.; Karch, J. M.

10.1101/2025.06.13.658955 — cell biology — Posted on 2025-06-17

2545 Underappreciated role of environmental enrichment in alleviating depression and anxiety: Quantitative evidence synthesis of rodent models

Yang, Y.; Liu, M.; Morrison, K.; Lagisz, M.; Nakagawa, S.

10.1101/2025.06.02.657339 — animal behavior and cognition — Posted on 2025-06-17

2546 Sex-specific recombination landscape in a species with holocentric chromosomes

Chmielewski, S.; Konczal, M.; Parrett, J. M.; Rombauts, S.; Dudek, K.; Radwan, J.; Babik, W.

10.1101/2024.04.15.589577 — genomics — Posted on 2025-06-17

2547 Selective packaging of pathogenic non-coding RNAs into plant exosomes mediated through Phloem Protein 2 and Tetraspanin 8 may represent a key mechanism for their cross-kingdom transmission

Devi, N.; Devi, N.; Sharma, V.; Gupta, R.; Dhir, S.; Walia, Y.

10.1101/2025.03.19.644080 — plant biology — Posted on 2025-06-17

2548 Proteomic responses under differing pH and pCO2 levels in the diatom Thalassiosira pseudonana are consistent with a hybrid carbon concentrating mechanism

Himes, A. R.; Kustka, A. B.

10.1101/2025.06.11.659125 — physiology — Posted on 2025-06-17

2549 Integrative Phosphoproteomics Uncovers Tumor Heterogeneity and SRSF3 Phosphoryaltion-Driven Metastasis in Early-Stage Hepatocellular Carcinoma

Ren, L.; Jiang, J.; Lin, W.; Qi, L.; Li, C.; Jiang, Y.

10.1101/2025.02.11.637605 — cancer biology — Posted on 2025-06-17

2550 Conserved interfaces mediate multiple protein-protein interactions in a prokaryotic metabolon

Bhattacharyya, S.; Ranganathan, S.; Chowdhury, S.; ADKAR, B. V.; Khrapko, M.; Shakhnovich, E.

10.1101/2024.02.17.580827 — biophysics — Posted on 2025-06-17

2551 WaveSeekerNet: Accurate Prediction of Influenza A Virus Subtypes and Host Source Using Attention-Based Deep Learning

Nguyen, H.-H.; Rudar, J.; Lesperance, N.; Vernygora, O.; Taylor, G. W.; Laing, C.; Lapen, D.; Leung, C. K.; Lung, O.

10.1101/2025.02.25.639900 — bioinformatics — Posted on 2025-06-17

2552 Refining sequence-to-expression modelling with chromatin accessibility

Lapohos, O.; Fonseca, G. J.; Emad, A.

10.1101/2025.02.11.637651 — bioinformatics — Posted on 2025-06-17

2553 Heterologous expression of carbonic anhydrase in Acinetobacter sp. Tol 5 for whole-cell biocatalysis

Yoshimoto, S.; Oka, H.; Ohara, Y.; Chen, Y.-Y.; Ishikawa, M.; Hori, K.

10.1101/2025.06.09.658560 — bioengineering — Posted on 2025-06-17

2554 ZC3H11A mutations cause high myopia by triggering PI3K-AKT and NF-κB mediated signaling pathway in humans and mice

Chen, C.; Liu, Q.; Tang, C.; Rong, Y.; Zhao, X.; Li, D.; Lu, F.; Qu, J.; Liu, X.

10.1101/2023.08.29.555422 — genetics — Posted on 2025-06-17

2555 The gene regulatory effects of selective glucocorticoid receptor ligands

Giroux, N. S.; Johnson, G. D.; Barrera, A. E.; Reddy, T. E.

10.1101/2025.06.16.659962 — genomics — Posted on 2025-06-16

2556 How Accurate is Genomic Prediction Across Wild Populations?

Aase, K.; Burnett, H. A.; Jensen, H.; Muff, S.

10.1101/2025.06.16.659953 — evolutionary biology — Posted on 2025-06-16

2557 Multi-omics analysis uncovers differential growth kinetics of Japanese Encephalitis Virus in human and porcine macrophages

Praharaj, M. R.; Ambati, T.; Kumar, S.; Gulati, B. R.; Majumdar, S. S.; Sharma, G. T.; Dey, B.; Gandham, R. K.

10.1101/2025.06.16.659876 — microbiology — Posted on 2025-06-16

2558 Compensatory Mechanisms in Visual Sequence Learning: An fMRI Study of Children with Developmental Language Disorder

Brylka, M.; Wojciechowski, J.; Wolak, T.; Cygan, H.

10.1101/2025.06.16.659875 — neuroscience — Posted on 2025-06-16

2559 Establishing betaxanthin pigment biosynthesis in cyanobacteria

Hanamghar, S. S.; Russo, D. A.; Mellor, S. B.; Zedler, J. A. Z.

10.1101/2025.06.16.659934 — synthetic biology — Posted on 2025-06-16

2560 Polymer-assisted condensation as key to chromatin localization

Majee, A.; Sommer, J.-U.

10.1101/2025.06.11.658974 — biophysics — Posted on 2025-06-16

2561 Integrating eDNA and acoustic-trawl data to provide small pelagic biomass estimates for fisheries assessment

Claver, C.; Sobradillo, B.; Mendibil, I.; Canals, O.; Boyra, G.; Ibaibarriaga, L.; Kelly, R. P.; Rodriguez-Ezpeleta, N.

10.1101/2025.06.11.659118 — genetics — Posted on 2025-06-16

2562 Synthetic guide sequence to generate CRISPR-Cas9 entry strains in C. elegans

Lange, K. I.

10.1101/2025.06.16.659939 — genetics — Posted on 2025-06-16

2563 In cellulo DNA assembly for targeted genomic integration and rearrangement in human cells

Levesque, S.; Kawashima, N.; Hwang, G.-H.; Becerra, B.; Schoonenberg, V. A.; Mannherz, W.; Homfeldt, L.; Pinello, L.; Agarwal, S.; Bauer, D. E.

10.1101/2025.06.16.659926 — molecular biology — Posted on 2025-06-16

2564 Real-time Malaria Detection in the Amazon Rainforest via Drone-Collected eDNA and Portable qPCR

Ip, Y. C. A.; Montemartini, L.; Chang, J. J. M. Y. C.; Desiderato, A.; Franco-Sierra, N. D.; Geckeler, C.; Gonzalez, M. A.; Gregorini, M.; Jucker, M.; Kirchgeorg, S.; Luthi, M.; Thostrup, F. B.; Murari, G.; Mura, M.; Santacruz, P. P.; Sangermano, F.; Schindler, T.; Melvad, C.; Mintchev, S.; Deiner, K.

10.1101/2025.06.16.660023 — molecular biology — Posted on 2025-06-16

2565 Stress testing reveals selective vulnerabilities in protein homeostasis

Aldikacti, B.; Putun, H.; Sarsani, V.; Zeinert, R.; Flaherty, P.; Chien, P.

10.1101/2025.06.11.659168 — molecular biology — Posted on 2025-06-16

2566 Transgenic Inducible MHC I Overexpression in Mouse Alveolar Type 2 Cells

Mathe, J.; Brochu, S.; Saba-El-Leil, M. K.; Cote, C.; Karia, A.; Harton, S.; Perreault, C.

10.1101/2025.06.11.659140 — molecular biology — Posted on 2025-06-16

2567 Restoring compromised Blood-Retina-Barrier integrity with Netrin-1 overexpression

Furtado, J.; Zapadka, T. E.; Park, H.; Boye, K.; Demb, J.; Eichmann, A.

10.1101/2025.06.14.658755 — molecular biology — Posted on 2025-06-16

2568 A novel AAA+ ATPase required for sporulation and stress response in Bacillus anthracis

Sangwan, N.; Bothra, A.; Pomerantsev, A. P.; Gangwal, A.; Fattah, R.; Moayeri, M.; Ma, Q.; Ganesan, S.; Keshavam, C. C.; Baweja, R.; Dhawan, U.; Leppla, S. H.; Singh, Y.

10.1101/2025.06.16.659970 — microbiology — Posted on 2025-06-16

2569 Effect of prolonged dehydration stress on the vector competence of Aedes aegypti for Mayaro virus

WAHAAB, A.; Manzano-Alvarez, J.; Minh, H. T. N.; Benoit, J. B.; Rasgon, J. L.

10.1101/2025.06.16.660000 — microbiology — Posted on 2025-06-16

2570 Role of Atg1 in morphologic changes of the pathogenic fungus Trichosporon asahii

Nakayama, M.; Matsumoto, Y.; Kurakado, S.; Sugita, T.

10.1101/2025.06.16.659855 — microbiology — Posted on 2025-06-16

2571 Genome-wide CRISPR base-editing screening defines drug response networks in Leishmania

del Angel, J. A.; Link, F.; May, N. H.; Ekici, I.; Wawra, K.; Schwind, S.; Zorn, S.; Haggarty, J.; Weidt, S. K.; Ritchie, R.; Barrett, M. P.; van Zandbergen, G.; Beneke, T.

10.1101/2025.06.16.659792 — microbiology — Posted on 2025-06-16

2572 Biosynthesis of glycosylated 5-hydroxycytosine in the DNA of diverse viruses

Lee, Y.-J.; Li, J.; Sobieski, C.; Young, S. H.; Stupak, J.; Vinogradov, E.; Zhou, H.; Chen, W.; Weigele, P.; Peters, D. L.

10.1101/2025.06.16.659550 — microbiology — Posted on 2025-06-16

2573 Knockout of tusA facilitates flagella formation and cationic antimicrobial resistance by disrupting Fur transcriptional regulation in Escherichia coli

Ishikawa, K.; Nakata, K.; Furuta, K.; Kaito, C.

10.1101/2025.06.16.659981 — microbiology — Posted on 2025-06-16

2574 Bacteriophage diversity declines with COPD severity in the respiratory microbiome

Cook, R. A.; Ponsero, A. J.; Telatin, A.; Yang, Y.; Liang, Z.; Wang, F.; Chen, R.; Wang, Z.; Adriaenssens, E. M.; Clokie, M. R.; Millard, A. D.; Brightling, C. E.

10.1101/2025.06.16.659870 — microbiology — Posted on 2025-06-16

2575 Size tuning of neural response variability in laminar circuits of macaque primary visual cortex

Nurminen, L.; Bijanzadeh, M.; Angelucci, A.

10.1101/2023.01.17.524397 — neuroscience — Posted on 2025-06-16

2576 The Spatial Atlas of Human Anatomy (SAHA): A Multimodal Subcellular-Resolution Reference Across Human Organs

Park, J.; De Gregorio, R.; Hissong, E.; Ozcelik, E.; Bartelo, N.; Dezem, F. S.; Zhang, L.; Marcao, M.; DuBose, H.; Zheng, Y.; Abila, E.; Kim, J.; Proszynski, J.; Agyemang, A. A.; Arikatla, M. R.; Metzger, E.; Rogers, S.; Divakar, P.; Dulai, P. S.; Reeves, J. W.; Liang, Y.; Pan, L.; Bhattacharjee, S.; Young, K.; Heck, A.; Korukonda, M.; McGuire, D.; Wu, L.; Wardhani, A.; Beechem, J.; Church, G.; Lipkin, S. M.; Patel, S.; Socciarelli, F.; Monette, S.; Robinson, B.; Loda, M.; Elemento, O.; Martelotto, L.; Plummer, J. T.; Rendeiro, A. F.; Alonso, A.; Schwartz, R. E.; Houlihan, S. L.; Mason, C. E.

10.1101/2025.06.16.658716 — systems biology — Posted on 2025-06-16

2577 Pathway Sculptor for Compact and Versatile Combinatorial Genetic Perturbation

Gu, B.; Linton, J.; Hendrickson, B. G.; Li, H.; Hadas, R.; Manella, G.; Gregrowicz, J.; Elowitz, M. B.

10.1101/2025.06.15.659618 — synthetic biology — Posted on 2025-06-16

2578 A synthetic cell phage cycle

Levrier, A.; Soudier, P.; Garenne, D.; Izri, Z.; Bowden, S. D.; Lindner, A. B.; Noireaux, V.

10.1101/2025.06.14.659709 — synthetic biology — Posted on 2025-06-16

2579 Synthetic autotrophic yeast enables high itaconic acid production from CO2 via integrated pathway and process design

Ata, O.; Lutz, L.; Baumschabl, M.; Mattanovich, D.

10.1101/2025.06.16.659842 — synthetic biology — Posted on 2025-06-16

2580 FvFT1-FvTFL1 epistasis drives flowering time adaptation in woodland strawberry

Lembinen, S.; Koskela, E.; Fan, G.; Toivainen, T.; Zhou, Q.; Andres, J.; Vaattovaara, A.; Rastas, P. M. A.; De Kort, H.; Elomaa, P.; Hytonen, T.

10.1101/2025.06.11.659068 — plant biology — Posted on 2025-06-16

2581 A Hotspot Phosphorylation Site on SHP2 Drives Oncoprotein Activation and Drug Resistance

Karunaraj, P.; Scheele, R.; Wells, M. L.; Rathod, R.; Abrahamson, S.; Taylor, L. C.; Gokulu, I. S.; Chowdhury, L.; Kazmi, A.; Song, W.; Hornbeck, P.; Li, J.; Glasgow, A.; Vasan, N.

10.1101/2025.06.11.659120 — cancer biology — Posted on 2025-06-16

2582 A bottom-up approach to understanding ultrasound mediated blood-brain barrier opening using long and short pulses

Shen, Y.; Cai, Y.; Qiao, C.; Liu, Z.; Xu, Y.; Hu, M.; Zhang, J.; Ma, L.; Li, F.

10.1101/2025.06.11.659100 — biophysics — Posted on 2025-06-16

2583 Annotating the X-ray diffraction pattern of vertebrate striated muscle

Koubassova, N. A.; Dutta, D.; Ma, W.; Tsaturyan, A. K.; Irving, T.; Padron, R.; Craig, R.

10.1101/2025.06.11.659175 — biophysics — Posted on 2025-06-16

2584 LazyNet: Interpretable ODE Modeling of Sparse CRISPR Single-Cell Screens Reveals New Biological Insights

Yi, Z.

10.1101/2025.06.11.658833 — bioinformatics — Posted on 2025-06-16

2585 Discovery and characterization of a copper-binding carbohydrate-binding module (CBM) regulating the activity of lytic polysaccharide monooxygenases

Forsberg, Z.; Stepnov, A. A.; Golten, O.; Lopez-Tavera, E.; Ayuso-Fernandez, I.; Eijsink, V. G. H.

10.1101/2025.06.11.659075 — biochemistry — Posted on 2025-06-16

2586 Dynamic assessment of the allocation of copper to cytochrome c oxidase using size-exclusion chromatography (SEC) combined with inductively coupled plasma mass spectrometry (ICP-MS)

Secic, D.; Bischoff, M. E.; Schmidt, L.; Vest, K. E.; Cunningham, J. T.; Figueroa, J. L.; Czyzyk-Krzeska, M. F.

10.1101/2025.06.11.659066 — biochemistry — Posted on 2025-06-16

2587 Structure of a pH-sensitive pentameric ligand-gated ion channel from the Sarcoptes scabies mite

Kleiz-Ferreira, J.; Brams, M.; Harrison, P. J.; Gallagher, C. I.; Nys, M.; Donze, Y.; Quigley, A.; Bertrand, D.; Ulens, C.

10.1101/2025.06.11.659021 — biochemistry — Posted on 2025-06-16

2588 Sex Differences in Structural and Receptor mRNA Expression in the Ventral Anterior Cingulate Cortex and a Potential Role of Perineuronal Nets in Monogamous Pair Bond Establishment (Peromyscus californicus)

Malone, C. L.; Li, J.; Luebke, E. M.; Carreras-Simons, L.; Treis, W. W.; Hammond, E. R.; Monari, P. K.; Marler, C. A.

10.1101/2025.06.16.659986 — animal behavior and cognition — Posted on 2025-06-16

2589 Anthracyclines induce global changes in cardiomyocyte chromatin accessibility that overlap with cardiovascular disease loci

Matthews, E. R.; Abodunrin, R. O.; Hurley, J. D.; Gutierrez, J. A.; Ward, M. C.

10.1101/2025.06.11.658997 — genomics — Posted on 2025-06-16

2590 The genetic control of rapid genome content divergence in Arabidopsis thaliana

Fiscus, C. J.; Koenig, D.

10.1101/2025.06.11.659220 — genomics — Posted on 2025-06-16

2591 Time-resolved phenotyping at subcellular resolution reveals shared principles and key trade-offs across antimicrobial peptide activities

Fragasso, A.; Schlechtweg, T.; Lin, W.-H.; Barron, A. E.; Jacobs-Wagner, C.

10.1101/2025.04.10.648262 — microbiology — Posted on 2025-06-16

2592 Odoribacter splanchnicus mitigates pathogen-induced gut inflammation and its associated pathogenesis via its secreted bacteriocin

Hajra, D.; Mukherjee, D.; Vij, R.; Rajmani, R. S.; Dadireddy, V.; Das, D.; Hussain, T.; Ganji, M.; Tatu, U.; Chakravortty, D.

10.1101/2024.08.23.609322 — microbiology — Posted on 2025-06-16

2593 The pcnB gene sustains Shigella flexneri virulence

Frisch, T.; Geiser, P.; Komi, M.; Karlsson, P. A.; Bhetwal, A.; Jenniches, L.; Barquist, L.; Holmqvist, E.; Mateus, A.; Sellin, M. E.; Di Martino, M. L.

10.1101/2025.06.16.659909 — microbiology — Posted on 2025-06-16

2594 Dermaseptin DMS-DA6, a promising alternative to conventional antibiotic in the treatment of N. brasiliensis induced actinomycetoma

Auvynet, C.; Ivonne, D.-M. D.; Velia, V.-M. A.; Estefania, A.-N.; Christophe, P.; Yvonne, R.; Cesar, S.-C. M.

10.1101/2025.06.16.659840 — microbiology — Posted on 2025-06-16

2595 Type IV minor pilin ComN predicted the USS-receptor in Pasteurellaceae

Helsem, S. A.; Alfsnes, K.; Frye, S. A.; Hesselberg Lovestad, A. Y.; Ambur, O. H.

10.1101/2025.06.16.659825 — microbiology — Posted on 2025-06-16

2596 A connection between two ancient and essential cellular processes, iron-sulfur protein biogenesis and fatty acid synthesis, in Escherichia coli

Fakroun, S.; Bouvier, G.; Libiad, M.; Sechet, E.; Bouveret, E.; Barras, F.; Dubrac, S.

10.1101/2025.06.16.659903 — microbiology — Posted on 2025-06-16

2597 Evolutionary Genomics Guides Scalable Coral Probiotics for Climate Resilience

Xie, M.; Xiang, N.; Liao, T.; Cheung, C. T.; Lee, C. H.; Tse, W. Y.; Tsang, K. K.; Ho, K. E.; He, Q.; Dörr, M.; Manns, H.; Li, P.; Xian, Z.; Wang, X.; Luo, D.; Hayden, R.; Chei, E.; Wan, Z.; Thompson, P.; Brennan, J.; Peixoto, R. S.; Cui, G.; Mcllroy, S. E.; Chui, A. P. Y.; Voolstra, C. R.; Luo, H.

10.1101/2025.06.16.659728 — microbiology — Posted on 2025-06-16

2598 The nematode symbiotic bacterium Xenorhabdus griffiniae can sense and respond to the presence of its host Steinernema hermaphroditum

Larsson, E. M.; Myers, C.; Newman, D. K.; Cao, M.

10.1101/2025.06.16.660008 — microbiology — Posted on 2025-06-16

2599 Isolation and Screening of Polyethylene Terephthalate (PET)-degrading bacteria from Municipal Waste Disposal Site in West Java, Indonesia

Fibriani, A.; Evelyn, T.; Zulfitri, A. F.

10.1101/2025.06.16.659912 — microbiology — Posted on 2025-06-16

2600 A Singapore-centric Fungal Dataset of 518 Cultivated Strains with Visual Phenotypes and Taxonomic Identity

Ten, D.; Wong, F. T.; Lim, Y. H.; Koh, W.

10.1101/2025.06.15.659681 — microbiology — Posted on 2025-06-16

2601 Optimising the use of Oxford Nanopore Sequencing technology for detection of Wolbachia bacterial endosymbionts in Anopheles mosquitoes.

Chatterley, L.; Hull, N.; Hughes, I.; Sougoufara, S.; Meek, O.; Ceyran, M.; Dhokiya, V.; Bandibabone, J.; Adala, C.; Cunningham, E.; Awandu, S. S.; Nkondjio, C. A.; Hughes, G. L.; Heinz, E.; Walker, T.

10.1101/2025.06.16.659891 — microbiology — Posted on 2025-06-16

2602 The BTK-DDX41 axis of the STING pathway is activated during cytomegalovirus lytic infection

Baruah, V.; O'Connor, C. M.

10.1101/2024.10.03.616496 — microbiology — Posted on 2025-06-16

2603 Dual Role of Plasmacytoid Dendritic Cells in Humoral and CD8⁺ T Cell Memory Post COVID-19 mRNA Vaccination

Pizzichetti, C.; Latino, I.; Virgilio, T.; Capucetti, A.; Chahine, K.; Cascione, L.; Moro, S. G.; Brugger, M.; Kozarac, N.; Pulfer, A.; Renner, L.; Thakur, R. S.; Benarafa, C.; Legler, D. F.; Gonzalez, S. F.

10.1101/2025.06.13.659539 — immunology — Posted on 2025-06-16

2604 In vivo AAV9-SB-CRISPR screen identifies fatty acid elongase ELOVL5 as a pro-resolving mediator in lung inflammation

Liu, S.; Wang, J.; Li, L.; Zhu, J.; Cao, X.

10.1101/2025.06.11.659216 — immunology — Posted on 2025-06-16

2605 The cortical scene processing network emerges in infancy, prior to independent navigation experience

Kamps, F. S.; Chen, E. M.; Du, H.; Kosakowski, H. L.; Fuchs, A.; Kanwisher, N.; Saxe, R.

10.1101/2025.06.16.655720 — neuroscience — Posted on 2025-06-16

2606 Reversed functional gradient in primate prefrontal cortex: posterior dominance and frontopolar deactivation

Watanabe, K.; Hirata, M.; Suzuki, T.

10.1101/2025.06.16.659673 — neuroscience — Posted on 2025-06-16

2607 Motoneurons can count: A cell intrinsic spike number memory compensates for deviations from rate coding

Huthmacher, L.; Hilgert, S.; Reichert, S.; Hürkey, S.; Ryglewski, S.; Duch, C.

10.1101/2025.06.16.659928 — neuroscience — Posted on 2025-06-16

2608 Selective octopaminergic tuning of mushroom body circuits during memory formation

Franke, U. S.; Grossjohann, A.; Aurich, S.; Köhler, I.; Lamberty, M.; Selcho, M.; Kittel, R. J.; Thum, A. S.; Pauls, D.

10.1101/2025.06.16.659845 — neuroscience — Posted on 2025-06-16

2609 Population sparseness determines strength of Hebbian plasticity for maximal memory lifetime in associative networks

Auer, N.; Chen, L.; Stubenrauch, J.; Lindner, B.; Kempter, R.

10.1101/2025.06.16.659837 — neuroscience — Posted on 2025-06-16

2610 Systematic measurements of dose-dependent responses for combinatorial treatments of SA and JA led to the development of transcriptomic biomarkers

Tomita, A.; Maeda, T.; Mori-Moriyama, N.; Nomura, Y.; Kurita, Y.; Kashima, M.; Betsuyaku, S.; Nagano, A. J.

10.1101/2025.05.29.656841 — plant biology — Posted on 2025-06-16

2611 Availability of charged tRNAs drives maximal protein synthesis at intermediate levels of codon usage bias

Hill, A. M.; To, K.; Wilke, C. O.

10.1101/2025.06.16.659965 — biochemistry — Posted on 2025-06-16

2612 Susceptible host dynamics explain pathogen resilience to perturbations

Park, S. W.; Nielsen, B. F.; Howerton, E.; Grenfell, B.; Cobey, S.

10.1101/2025.06.13.659551 — ecology — Posted on 2025-06-16

2613 Default Mode Network Connectivity Predicts Individual Differences in Long-Term Forgetting: Evidence for Storage Degradation, not Retrieval Failure

Xu, Y.; Prat, C. S.; Sense, F.; van Rijn, H.; Stocco, A.

10.1101/2021.08.04.455133 — neuroscience — Posted on 2025-06-16

2614 Increased listening effort and cochlear neural degeneration underlie speech-in-noise deficits in normal hearing middle-aged adults

Zink, M. E.; Zhen, L.; McHaney, J. R.; Klara, J.; Yurasits, K.; Cancel, V.; Flemm, O.; Mitchell, C.; Datta, J.; Chandrasekaran, B.; Parthasarathy, A.

10.1101/2024.08.01.606213 — neuroscience — Posted on 2025-06-16

2615 Meningeal vascular Aβ deposition associates with cerebral hypoperfusion and compensatory collateral remodeling

Kaloss, A. M.; Browning, J. L.; Li, J.; Pan, Y.; Watsen, S.; Sontheimer, H.; Theus, M. H.; Olsen, M. L.

10.1101/2025.02.05.635937 — neuroscience — Posted on 2025-06-16

2616 Brain FGF2 and NCAM1 contribute to FGFR1-dependent progression of ER+ breast cancer brain metastases in young and aged hosts

Fox, M. S.; Jaramillo-Gomez, J. A.; Marquez-Ortiz, R. A.; Alvarez-Eraso, K. L. F.; Contreras Zarate, M. J.; Koliavas, S.; Kabos, P.; Serkova, N. J.; Sartorius, C. A.; Wellberg, E. A.; Cittelly, D. M.

10.1101/2025.06.07.658373 — cancer biology — Posted on 2025-06-16

2617 DeepSEA: an alignment-free deep learning tool for functional annotation of antimicrobial resistance proteins

Borelli, T. C.; Paschoal, A. R.; da Silva, R.

10.1101/2024.06.11.598242 — bioinformatics — Posted on 2025-06-16

2618 Deep mutational scanning of an S. pneumoniae FMN riboswitch reveals robustness during mouse infection but diverging adaptive landscapes in response to targeting antibiotics

Korn, R. J.; Meyer, M. M.

10.1101/2025.04.17.649428 — genetics — Posted on 2025-06-16

2619 Non-autonomy of age-related morphological changes in the C. elegans germline stem cell niche

Gupta, N.; Sinks, M.; Hubbard, E. J. A.

10.1101/2025.06.13.658151 — cell biology — Posted on 2025-06-16

2620 Spyglass: a framework for reproducible and shareable neuroscience research

Lee, K. H.; Denovellis, E. L.; Ly, R.; Magland, J.; Soules, J.; Comrie, A. E.; Gramling, D. P.; Guidera, J. A.; Nevers, R.; Adenekan, P.; Brozdowski, C.; Bray, S. R.; Monroe, E.; Bak, J. H.; Coulter, M.; Sun, X.; Broyles, E.; Shin, D.; Chiang, S.; Holobetz, C.; Tritt, A.; Ruebel, O.; Nguyen, T.; Yatsenko, D.; Chu, J.; Kemere, C.; Garcia, S.; Buccino, A.; Frank, L. M.

10.1101/2024.01.25.577295 — neuroscience — Posted on 2025-06-16

2621 Flexible EMG arrays with integrated electronics for scalable electrode density

Anschutz, P. M.; Zia, M.; Lu, J.; Williams, M. J.; Jacob, A. L.; Sober, S. J.; Bakir, M. S.

10.1101/2024.07.02.601782 — neuroscience — Posted on 2025-06-16

2622 Bacterial population dynamics during colonization of solid tumors

Sayin, S.; ElGamel, M.; Rosener, B.; Brehm, M.; Mugler, A.; Mitchell, A.

10.1101/2025.02.11.637537 — systems biology — Posted on 2025-06-16

2623 The EGFR ligand amphiregulin regulates genomic integrity by facilitating heterochromatin formation in response to replication stress

Jiang, T.; Zein, A.; Pratt, C. M. A.

10.1101/2024.10.27.620431 — cancer biology — Posted on 2025-06-16

2624 Systematic characterization of site-specific proline hydroxylation using hydrophilic interaction chromatography and mass spectrometry

Jiang, H.; Druker, J.; Wilson, J. W.; Bensaddek, D.; Swedlow, J. R.; Rocha, S.; Lamond, A. I.

10.1101/2023.07.28.550951 — biochemistry — Posted on 2025-06-16

2625 RpS12-mediated induction of the Xrp1short isoform links ribosomal protein mutations to cell competition

Potiri, M.; Tsakiri, E.; Kontogiannidi, K.; Loizou, M.; Skoulakis, E. M. C.; Samiotaki, M.; Kafasla, P.; Kiparaki, M.

10.1101/2025.06.15.659587 — developmental biology — Posted on 2025-06-16

2626 Diatom ultrastructural diversity across controlled and natural environments

Flori, S.; Mikus, F.; Flaum, E.; Moog, K.; Guessoum, S.; Beavis, T.; Zwahlen, S.; Romero-Brey, I.; Orschot, V.; Olivetta, M.; Steele-Ogus, M.; Yeh, E.; Mobile Labs Team, ; Dudin, O.; Schwab, Y.; Dey, G.; Vincent, F.

10.1101/2025.06.16.659906 — cell biology — Posted on 2025-06-16

2627 Sld3CBD-Cdc45 structural insights into Cdc45 recruitment for CMG complex formation on DNA replication

Li, H.; Ishizaki, I.; Kato, K.; Sun, X.; Muramatsu, S.; Itou, H.; Ose, T.; Araki, H.; Yao, M.

10.1101/2024.08.29.610416 — molecular biology — Posted on 2025-06-16

2628 Virus glycoprotein nanodisc platform for vaccine design

Rantalainen, K.; Liguori, A.; Ozorowski, G.; Flynn, C.; Steichen, J. M.; Swanson, O.; Madden, P. J.; Baboo, S.; Phulera, S.; Gharpure, A.; Lu, D.; Kalyuzhniy, O.; Skog, P.; Terada, S.; Shil, M.; Diedrich, J. K.; Georgeson, E.; Tingle, R.; Eskandarzadeh, S.; Lee, W.-H.; Goodwin, D.; Alavi, N.; Kubitz, M.; Amirzehni, S.; Himansu, S.; Sok, D.; Lee, J. H.; Yates, J. R.; Paulson, J. C.; Crotty, S.; Schiffner, T.; Ward, A. B.; Schief, W. R.

10.1101/2025.05.02.651272 — immunology — Posted on 2025-06-16

2629 Neural Mechanism Underlying Successful Classification of Amnestic Mild Cognitive Impairment Using Multi-Sensory-Evoked Potentials

Zhang, L.; Binns, M.; Chow, R.; Rabi, R.; Anderson, N. D.; Lu, J.; Freedman, M.; Alain, C.

10.1101/2024.08.10.607449 — neuroscience — Posted on 2025-06-16

2630 Cognitive reserves hold back age-related upregulation of neural activities in speech-in-noise perception

Zhang, L.; Ross, B.; Du, Y.; Alain, C.

10.1101/2024.05.27.596069 — neuroscience — Posted on 2025-06-16

2631 Accept-reject decision-making revealed via a quantitative and ethological study of C. elegans foraging

Haley, J. A.; Chen, T.; Aoi, M.; Chalasani, S. H.

10.1101/2024.09.18.613674 — neuroscience — Posted on 2025-06-16

2632 Effects of cortical thickness, volume, and memory performance on age differences in neural reinstatement of scene information

Olivier, J. M.; Srokova, S.; Hill, P. F.; Rugg, M. D.

10.1101/2025.02.06.636759 — neuroscience — Posted on 2025-06-16

2633 Genomic structural equation modeling of impulsivity and risk-taking traits reveals three latent factors distinctly associated with brain structure and development

Shishikura, M.; Liu, L.; Yu, E.; Zhu, R.; Vilar-Ribo, L.; Cupertino, R. B.; Palmer, A. A.; Sanchez-Roige, S.; Vainik, U.; Morys, F.; Gan-Or, Z.; Misic, B.; Dagher, A.

10.1101/2025.06.05.657840 — neuroscience — Posted on 2025-06-16

2634 Trial-by-trial learning of successor representations in human behavior

Kahn, A. E.; Bassett, D. S.; Daw, N. D.

10.1101/2024.11.07.622528 — neuroscience — Posted on 2025-06-16

2635 Mitochondrial stress-induced protein carboxyl-terminal alanine threonine tailing (msiCAT-tailing) facilitates glioblastoma tumorigenesis through the modulation of mitochondrial functions

Zhang, B.; Cai, T.; Reddy, E.; Wu, Y.; Gbufor, A. S.; Tang, Y.; Mondal, I.; Wang, J.; Shen, Y.; Liu, Q.; Ho, W. S.; Lu, R. O.; Wu, Z.

10.1101/2024.05.15.594447 — cancer biology — Posted on 2025-06-16

2636 ChemOrigins: A community curated database for origins of life chemistry

Cuevas, B.; Adam, Z. R.; Cove, D.; Kacar, B.

10.1101/2025.06.10.658922 — bioinformatics — Posted on 2025-06-16

2637 Paralog interference preserves genetic redundancy

Cisneros, A.; Mattenburger, F.; Gagnon-Arsenault, I.; Seffal, Y.; Nielly-Thibault, L.; Dube, A.; Varela Vasquez, M. d. M.; Munoz Vega, M. C.; Landry, C. R.

10.1101/2025.06.13.659495 — evolutionary biology — Posted on 2025-06-16

2638 Widespread evolution of poricidal flowers: A striking example of morphological convergence across flowering plants

Russell, A. L.; Zenil-Ferguson, R.; Buchmann, S.; Jolles, D. D.; Kriebel, R.; Vallejo-Marin, M. L.

10.1101/2024.02.28.582636 — evolutionary biology — Posted on 2025-06-16

2639 Mitotic BLM functions are required to maintain genomic stability

Hamann, T. E.; Wieland, A.; Tirincsi, A.; Vukusic, K.; Mohseni, F.; Wardenaar, R.; Losito, M.; Goenenc, I. I.; Wollnik, B.; Foijer, F.; Tolic, I. M.; Storchova, Z.; Raschle, M.

10.1101/2025.06.16.659902 — cell biology — Posted on 2025-06-16

2640 Ciliary and non-ciliary functions of CEP104 in Xenopus

Louka, P.; Potamiti, L.; Panayiotidis, M. I.; Skourides, P.

10.1101/2025.06.12.659327 — cell biology — Posted on 2025-06-16

2641 Reversal of ATP synthase is a key attribute for cellular differentiation of the Trypanosoma brucei insect forms

Kunzova, M.; Dolezelova, E.; Moos, M.; Panicucci, B.; Zikova, A.

10.1101/2025.06.16.659894 — cell biology — Posted on 2025-06-16

2642 ARHGAP10 is a novel microtubule-associated protein that regulates the resorption activity of osteoclasts

Jentschel, L.; BLANGY, A.; Bompard, G.

10.1101/2025.06.12.659268 — cell biology — Posted on 2025-06-16

2643 Neural sensitivity to radial frequency patterns in the visual cortex of developing macaques

Rodriguez Deliz, C. L.; Lee, G.; Bushnell, B.; Majaj, N.; Movshon, J. A.; Kiorpes, L.

10.1101/2025.01.27.634810 — neuroscience — Posted on 2025-06-16

2644 Catecholamines reduce choice history biases

de Gee, J. W.; Kloosterman, N. A.; Braun, A.; Donner, T. H.

10.1101/2024.10.28.620689 — neuroscience — Posted on 2025-06-16

2645 Multifaceted brain representation of numerosity across the senses and presentation formats

Yang, Y.; Fornaciai, M.; Togoli, I.; Shahzad, I.; Gau, R.; Van Audenhaege, A.; Cerpelloni, F.; Collignon, O.

10.1101/2025.05.29.653470 — neuroscience — Posted on 2025-06-16

2646 Dorsal prefrontal cortex drives perseverative behavior in mice

Lebedeva, A.; Wang, Y.; Funnell, L.; Terry, B.; Oh, J.; Miller, K.; Harris, K. D.

10.1101/2024.05.02.592241 — neuroscience — Posted on 2025-06-16

2647 Employing Artificial Neural Networks for Optimal Storage and Facile Sharing of Molecular Dynamics Simulation Trajectories

Wasim, A.; Schäfer, L. V.; Mondal, J.

10.1101/2024.09.15.613125 — biophysics — Posted on 2025-06-16

2648 Two de novo transcriptome assemblies and functional annotations from juvenile cuttlefish (Sepia officinalis) under various metal and pCO2 exposure conditions

Sol Dourdin, T.; Minet, A.; Pante, E.; Lacoue-Labarthe, T.

10.1101/2025.06.03.657592 — genomics — Posted on 2025-06-16

2649 Probabilistic modelling improves relative dating from gene phylogenies

Bernabeu, M.; Armero, C.; Gabaldon, T.

10.1101/2024.09.30.615760 — evolutionary biology — Posted on 2025-06-16

2650 High-throughput microbiome profiling and co-occurrence with antibiotic resistance genes in Lucilia sericata

Shatta, A.; Chavarria, X.; Choi, J. H.; Oh, S.; Kim, M.; Kang, D.; Cho, Y. H.; Choi, D.-Y.; Yi, M.-h.; Kim, J. Y.

10.1101/2025.06.11.659062 — ecology — Posted on 2025-06-16

2651 The Rab7-Epg5 and Rab39-ema modules cooperatively position autophagosomes for efficient lysosomal fusions

Boda, A.; Balazs, V.; Nagy, A.; Hargitai, D.; Lippai, M.; Simon-Vecsei, Z.; Molnar, M.; Fürstenhoffer, F.; Juhasz, G.; Lörincz, P.

10.1101/2024.08.16.608254 — cell biology — Posted on 2025-06-16

2652 Aiolos restricts the generation of antigen-inexperienced, virtual memory CD8+ T cells

Oestreich, K.; Pokhrel, S.; Jones, D. M.; Leonard, M. R.; Tuazon, J. A.; Read, K. A.; Dileepan, G.; Warren, R. T.; Gong, Q.; Yount, J.; Xin, G.; Forero, A.; Ghoneim, H. E.; Collins, P.; Hemann, E.

10.1101/2025.06.11.659122 — immunology — Posted on 2025-06-16

2653 Surface-Enhanced Raman Spectroscopy-Assisted Lateral Flow Test for Adenine and IgG Analysis

Chaloupkova, Z.; Gajdosova, K.; Polakova, K.; Ranc, V.

10.1101/2025.06.11.659022 — immunology — Posted on 2025-06-16

2654 ACOD1 regulates microglial arginine metabolism and inflammatory responses

Karadima, E.; Yilmaz, C.; Sinha, A.; Fodelianaki, G.; Dimothyra, S.; Nirakis, N.; Traikov, S.; Zamboni, N.; Wielockx, B.; Verginis, P.; Peitzsch, M.; Chavakis, T.; Alexaki, V. I.

10.1101/2025.06.01.657243 — immunology — Posted on 2025-06-16

2655 Elucidating the Contribution of OVLT Glutamatergic Neurons to Mineralocorticoid Hypertension in TASK-/- Mice

Shi, L.; Liu, K.; Zhao, K.; He, W.; Chen, Y.; Zhao, X.; Wei, Y.; Chen, J.; Wang, S.; Yuan, F.

10.1101/2025.06.11.659218 — neuroscience — Posted on 2025-06-16

2656 Enhancing Statistical Power While Maintaining Small Sample Sizes in Behavioral Neuroscience Experiments Evaluating Success Rates

Theo, D.; Thevenet, M.; Garcia, S.; Lightning, A.; Didier, A.; Mandairon, N.; Kuczewski, N.

10.1101/2024.07.25.605060 — neuroscience — Posted on 2025-06-16

2657 Sharp waves, bursts, and coherence: Activity in a songbird vocal circuit is influenced by behavioral state

Lorenz, C.; Das, A.; Centeno, E. G. Z.; Yeganegi, H.; Duvoisin, R.; Ursu, R.; Retailleau, A.; Giret, N.; Leblois, A.; Hahnloser, R. H. R.; Ondracek, J. M.

10.1101/2024.09.03.610933 — neuroscience — Posted on 2025-06-16

2658 A canonical chloroplast unfolded protein response triggered by misfolded polypeptides

Cantoia, A.; Bertero, F.; Berrocal, R.; Ceccarelli, E. A.; Blanco, N. E.; Rosano, G. L.

10.1101/2025.06.11.659047 — plant biology — Posted on 2025-06-16

2659 Opposing effects of systemic and pancreas-specific inhibition of BCKDK on pancreatic carcinogenesis

Noji, M. C.; Demetriadou, C.; Landis, M.; Pennise, J.; Pinheiro, L. V.; Jaccard, A.; Chatoff, A.; Drummond, J.; Guo, K.; Azor, R.; Robertson, M. R.; Kawakami, R.; Marcinkiewicz, M. M.; Tobias, J. W.; Snyder, N. W.; Feldser, D.; Arany, Z.; Wellen, K. E.

10.1101/2025.06.10.658925 — cancer biology — Posted on 2025-06-16

2660 Two δ-Catenins, Plakophilin 4 and p120, Promote Formation of Distinct Types of Adherens Junctions

Indra, I.; Troyanovsky, R. B.; Korobova, F. V.; Troyanovsky, S. M.

10.1101/2025.06.14.659701 — cell biology — Posted on 2025-06-16

2661 Proteomic responses under differing pH and pCO2 levels in the diatom Thalassiosira pseudonana are consistent with a hybrid carbon concentrating mechanism

Himes, A. R.; Kustka, A. B.

10.1101/2025.06.11.659125 — physiology — Posted on 2025-06-16

2662 X-Atlas/Orion: Genome-wide Perturb-seq Datasets via a Scalable Fix-Cryopreserve Platform for Training Dose-Dependent Biological Foundation Models

Huang, A. C.; Hsieh, T.-H. S.; Zhu, J.; Michuda, J.; Teng, A.; Kim, S.; Rumsey, E. M.; Lam, S. K.; Anigbogu, I.; Wright, P.; Ameen, M.; You, K.; Graves, C. J.; Kim, H. J.; Litterman, A. J.; Sit, R. V.; Blocker, A.; Chu, C.

10.1101/2025.06.11.659105 — genomics — Posted on 2025-06-16

2663 In Vitro Maturation of Bone Marrow-Derived Dendritic Cells via STING Activation for T Cell Priming

Buyuk, B.; Ye, K.

10.1101/2025.06.11.659197 — bioengineering — Posted on 2025-06-16

2664 SWI/SNF ATPase Brahma and Notch signaling collaborate with CBP/p300 to regulate neural stem cell apoptosis in Drosophila larval central nervous system.

Bala, P.; Prakki, V.; JOSHI, R.

10.1101/2025.06.16.659888 — developmental biology — Posted on 2025-06-16

2665 Proteomic and metabolic profiling reveals APOE4-dependent shifts in whole brain, neuronal, and astrocytic mitochondrial function and glycolysis

Lysaker, C. R.; Johnson, C.; Csikos, V.; Franczak, E.; Benson, M.; Gilmore, C.; Birky, C.; Davis, X.; McCoin, C.; Smith, K.; Puchalska, P.; Crawford, P.; Slawson, C.; Thyfault, J.; Geiger, P.; Morris, J.; Wilkins, H. M.

10.1101/2025.06.15.659811 — neuroscience — Posted on 2025-06-16

2666 High-throughput single-cell CRISPRi screens stratify neurodevelopmental functions of schizophrenia-associated genes

Yildiz, U.; Claringbould, A.; Marttinen, M.; Campos-Fornes, V.; Lamprousi, M.; Saraswat, M.; Saver, M.; Bunina, D.; Dorrity, M.; Zaugg, J. B.; Noh, K.-M.

10.1101/2025.06.13.659629 — neuroscience — Posted on 2025-06-16

2667 Preictal high-connectivity states in epilepsy: Evidence of intracranial EEG, interplay with the seizure onset zone and network modeling

Medina Leandro, B. N.; Vila-Vidal, M.; Tost, A.; Khawaja, M.; Carreno, M.; Roldan, P.; Rumia, J.; Centeno, M.; Conde, E.; Donaire, A.; Tauste, A.

10.1101/2025.01.24.634461 — neuroscience — Posted on 2025-06-16

2668 Large-scale Inference of Cell Lineage Trees and Genotype Calling from Noisy Single-Cell Data Using Efficient Local Search

Zhang, H.; Zhang, Y.; Gao, T.; Wu, Y.

10.1101/2024.11.08.622704 — bioinformatics — Posted on 2025-06-16

2669 MSI-VISUAL: New visualization methods for mass spectrometry imaging and tools for interactive m/z mapping and exploration

Gildenblat, J.; Pahnke, J.

10.1101/2025.03.18.643852 — bioinformatics — Posted on 2025-06-16

2670 TreeProfiler: Large-scale metadata profiling along gene andspecies trees

Deng, Z.; Hernandez-Plaza, A.; Arellano Davin, A.; Huerta-Cepas, J.

10.1101/2023.09.21.558621 — bioinformatics — Posted on 2025-06-16

2671 Mating status drives fitness tradeoffs in exercised female Drosophila

Backlund, A. E.; Green, M.; Vandiver, E. K.; Reed, L. K.

10.1101/2025.06.11.659196 — genetics — Posted on 2025-06-16

2672 HIV-1 Envelope glycoprotein modulates CXCR4 clustering and dynamics on the T cell membrane

Quijada-Freire, A.; Santiago, C.; Garcia-Cuesta, E. M.; Soler Palacios, B.; Ayala-Bueno, R.; Gardeta, S.; San Sebastian, E.; Armendariz-Burgoa, E.; Puertas, M. C.; Villares, R.; Garaigorta, U.; Gonzalez-Granado, L. I.; Rodriguez Frade, J. M.; Chojnacki, J.; Martinez-Picado, J.; Mellado, M.

10.1101/2025.06.11.659074 — immunology — Posted on 2025-06-16

2673 Divergent effects of a Treg selective IL-2 mutein on Influenza-specific T cell responses

Albe, J. R.; Chaudhary, A.; Khanna, A.; Weinstein, K. N.; Ziegler, S. F.; Kalia, V.; Sarkar, S.; Campbell, D. J.

10.1101/2025.06.10.658962 — immunology — Posted on 2025-06-16

2674 Establishing an in vitro pipeline for the high-throughput quantification of epithelial permeability of gut bacterial metabolites

Brauer-Nikonow, A.; Voogdt, C. G. P.; Ribeiro, N. V.; Zimmermann, M.

10.1101/2025.06.10.658935 — pharmacology and toxicology — Posted on 2025-06-16

2675 G protein subtype preference dictates paroxetine-enhanced serotonin receptor response in normal breast epithelial cells

Lengyel, M.; Arkosy, P.; Uray, I. P.

10.1101/2025.06.10.658790 — pharmacology and toxicology — Posted on 2025-06-16

2676 Transitional lncRNA Signatures Reveal Distinct Stages of Cancer Progression and Metastasis

Zok, S.; Behar, D.; Linial, M.

10.1101/2025.06.10.658949 — cancer biology — Posted on 2025-06-16

2677 Ultrasonic rewarming of cryopreserved alginate encapsulated liver spheroids

Xu, R.; Brookshaw, T.; Erro, E.; Selden, C.; Martin, E.

10.1101/2025.06.11.659069 — biophysics — Posted on 2025-06-16

2678 In silico self-assembly and complexation dynamics of cationic lipids with DNA nanocages to enhance lipofection

Mandal, S.; Bhatia, D. D.; Maiti, P. K.

10.1101/2025.06.11.659007 — biophysics — Posted on 2025-06-16

2679 A Case Study Leveraging Angler Reported Data For Whirling Disease Monitoring

James, C. T.; Christenson, C.; Simmons, S.

10.1101/2025.06.10.658966 — ecology — Posted on 2025-06-16

2680 Natural Product-Like Fragments Unlock Novel Chemotypes for a Kinase Target - Exploring Options beyond the Flatland

Santura, A.; Mueller, J.; Wolter, M.; Tutzschky, I.; Klebe, G.; Glinca, S.; Czodrowski, P.

10.1101/2025.06.11.659015 — molecular biology — Posted on 2025-06-16

2681 Multi-omics analyses reveal the effect of DNA methylation on iridoid glycosides biosynthesis in Rehmannia glutinosa

Dong, T.; Du, Y.; Huang, T.; Su, J.; Yang, Q.; Guo, J.; Chen, P.; Xing, J.; Duan, H.

10.1101/2025.06.11.659110 — molecular biology — Posted on 2025-06-16

2682 Ataxin-2 preserves oocyte genome integrity by promoting timely premeiotic DNA replication

Monteiro, V. L.; Yu, C.; Camilla Roselli, C.; Baskar Bakthavachalu, B.; Mani Ramaswami, M.; Hurd, T. R.

10.1101/2025.06.13.659559 — genetics — Posted on 2025-06-16

2683 Paradigm shift for cry gene expression in Bacillus thuringiensis

Verplaetse, E.; Slamti, L.; Lereclus, D.

10.1101/2025.06.13.659657 — microbiology — Posted on 2025-06-16

2684 Detection of stress-dependent m5C rRNA dynamics in Escherichia coli using m5C-Rol-LAMP

Vasquez-Camus, L.; Riquelme-Barrios, S.; Jung, K.

10.1101/2025.06.13.659538 — microbiology — Posted on 2025-06-16

2685 Causes and consequences of experimental variation in Nicotiana benthamiana transient expression

Tang, S. N.; Szarzanowicz, M.; Lanctot, A.; Sirirungruang, S.; Kirkpatrick, L. D.; Drako, K.; Alamos, S.; Cheng, A.; Waldburger, L. M.; Liu, S.; Thompson, M.; Shih, P.

10.1101/2025.06.12.659391 — plant biology — Posted on 2025-06-16

2686 Single-Nucleus Transcriptomics Reveals How Tissue Context Shapes the Circadian Transcriptome of the Arabidopsis Leaf

Zulfiqar, A.; Myers, Z. A.; Menon, A.; Greenham, K.

10.1101/2025.06.12.659411 — plant biology — Posted on 2025-06-16

2687 Nanorate sequencing reveals the Arabidopsis somatic mutation landscape

Meyer, C. A.; Nelms, B.; Schmitz, R. J.

10.1101/2025.06.15.659769 — genomics — Posted on 2025-06-16

2688 Major effect mutations drive DNA methylation variation after colonization of a novel habitat

Zicola, J.; Tergemina, E.; Goktay, M.; Neto, C.; Schmitz, R. J.; Hancock, A. M.

10.1101/2025.06.14.659694 — genetics — Posted on 2025-06-16

2689 Mapping genetic modifiers of epimutation rates reveals a punctuated-equilibrium model of CG methylome evolution

Zhang, Z.; Wanney, W.; Xu, Y.; Zicola, J.; Hancock, A. M.; Schmitz, R. J.; Johannes, F.

10.1101/2025.06.14.659605 — genetics — Posted on 2025-06-16

2690 Mechanistic insights into transcriptional regulation of ARHGAP36 expression identify a factor predictive of neuroblastoma survival

Havrylov, S.; Gamper, A. M.; Lehmann, O. J.

10.1101/2025.06.13.659594 — molecular biology — Posted on 2025-06-16

2691 Differential effect of low and high frequency transcranial magnetic stimulation on cortical excitability and myelination after neonatal hypoxia in mice

Fabres, R. B.; Goussakov, I.; Synowiec, S.; Yarnykh, V.; Aksenov, D.; Drobyshevsky, A.

10.1101/2025.06.13.659545 — neuroscience — Posted on 2025-06-16

2692 Use of a specific set of learner-centered evidence-based teaching practices correlates with higher exam performance across seven STEM departments

Jackson, M. A.; Liu, H.; Moon, S.; Doherty, J. H.; Wenderoth, M. P.

10.1101/2025.06.13.659643 — scientific communication and education — Posted on 2025-06-16

2693 S3Mirror: Making Genomic Data Transfers Fast, Reliable, and Observable with DBOS

Vasquez-Grinnell, S.; Poliakov, A.

10.1101/2025.06.13.657723 — bioinformatics — Posted on 2025-06-16

2694 Protocol for GDT, Gene Dictionary Tool, to create and implement a gene dictionary across annotated genomes

Dupin, B.; Lima, M. S.; Paschoal, A. R.; Smith, D. R.

10.1101/2025.06.15.659783 — bioinformatics — Posted on 2025-06-16

2695 ChemOrigins: A community curated database for origins of life chemistry

Cuevas, B.; Adam, Z. R.; Cove, D.; Kacar, B.

10.1101/2025.06.10.658922 — bioinformatics — Posted on 2025-06-16

2696 Untangling overlapping barcodes in spatial genomics data

White, J. A.; Lu, C.; Ombelets, L.; Cai, L.

10.1101/2025.06.10.658913 — bioengineering — Posted on 2025-06-16

2697 Engineering Controlled Microporosity in Liquid-Core Soft Compartments via Compositional Tuning of Aqueous Immiscible Systems for Facilitated Cell Migration

Goncalves, R. C.; Oliveira, M. B.; Mano, J. F.

10.1101/2025.06.11.659026 — bioengineering — Posted on 2025-06-16

2698 Environment-dependent selection impacts heritable developmental stability and trait canalization in rice

Dunivant, T. S.; Calic, I.; Gilligan, C.; Joly-Lopez, Z.; Choi, J. Y.; Natividad, M.; Cabral, C. L.; Torres, R. O.; Vergara, G. V.; Franks, S. J.; Henry, A.; Purugganan, M. D.; Groen, S. C.

10.1101/2025.06.13.659410 — evolutionary biology — Posted on 2025-06-16

2699 Beyond biomass: how interactions shape species' importance for ecosystem functioning

Ardichvili, A. N.; Loreau, M.; Onimus, T.; Galiana, N.; Lajaaiti, I.; Kefi, S.; Arnoldi, J.-F.

10.1101/2025.06.11.659013 — ecology — Posted on 2025-06-16

2700 Lycium barbarum polysaccharide alleviates neurobehavioral deficits in mice with ischemic cerebral injury

Mian, R.; Ma, L.

10.1101/2025.06.13.659653 — neuroscience — Posted on 2025-06-16

2701 WITHDRAWN: CEBPB as a potential biomarker for prognosis and immuneinfiltration in clear cell renal cell carcinoma

Ren, Y.; Qiao, B.; Wei, M.; Tian, Q.; Guo, W.

10.1101/2024.06.05.597653 — bioinformatics — Posted on 2025-06-16

2702 D-CoMEx: A Unified Approach to Identify Phenotype-specific miRNA Biomarkers Related to Diseases

Kakati, T.; Bhattacharyya, D. K.; Kalita, J. K.

10.1101/2025.06.10.658948 — bioinformatics — Posted on 2025-06-16

2703 A collection of patient-derived intestinal organoid lines reveals epithelial phenotypes associated with genetic drivers of pediatric inflammatory bowel disease

Jeshvaghani, Z. S.; Argmann, C.; Mokry, M.; van Es, J.; de Vries, M.; Collen, L.; Kotlarz, D.; Sveen, M.; Comella, P.; Snapper, S.; Klein, C.; Schadt, E.; Clevers, H.; Kuijk, E.; Nieuwenhuis, E.

10.1101/2025.06.11.659052 — genetics — Posted on 2025-06-16

2704 Distinct heterozygous TTC7A missense variants lead to different intestinal epithelial phenotypes in pediatric IBD

Jeshvaghani, Z. S.; Deenichina, P.; Collen, L.; de Vries, M.; Brunsveld, J.; Kotlarz, D.; Koletzko, S.; Klein, C.; Beekman, J.; Snapper, S.; Lindemans, C.; Mokry, M.; Argmann, C.; Kuijk, E.; Nieuwenhuis, E.

10.1101/2025.06.11.659065 — genetics — Posted on 2025-06-16

2705 An iPSC-based iMSC Model for Osteogenesis Imperfecta: A Platform for Disease Modeling and Drug Screening

Kumar, A.; Kumar, V.; Selina, A.; Madhuri, V.; Thamodaran, V.

10.1101/2025.06.11.659155 — genetics — Posted on 2025-06-16

2706 Not too rigid nor too wobbly: Defining a "Goldilocks" membrane fluidity range essential for biofilm formation in Escherichia coli

Hong, Y.; Qin, J.; Totsika, M.

10.1101/2025.02.02.635587 — microbiology — Posted on 2025-06-16

2707 Digital PCR detection of Mycobacterium tuberculosis and HIV-1 co-localization in spinal tuberculosis biopsies

Waters, R.; Martineau, A.; Laubscher, M.; Dunn, R. N.; Held, M.; Abrahams, M.-R.; Coussens, A. K.

10.1101/2025.06.11.659223 — microbiology — Posted on 2025-06-16

2708 Comparison of Neural Tracking and Spectral Entropy in Patients with Disorders of Consciousness

Sonck, R.; Laureys, S.; Diels, P.; Francart, T.; Vanthornhout, J.

10.1101/2025.04.21.649509 — neuroscience — Posted on 2025-06-16

2709 Cryo-EM Structure of Photosystem I from mangroves in their natural environment

Malavath, T.; Heilmann, E.; Charras, Q.; Yuan, X.; Al-Amoudi, A.; Naschberger, A.; Gholami, A.

10.1101/2025.06.10.658896 — plant biology — Posted on 2025-06-16

2710 Practical considerations for accurate estimation of diffusion parameters from single-particle tracking in living cells

Ghosal, A.; Wang, Y.-H.; Nguyen, N.; Troyer, L.; Kim, S.

10.1101/2025.06.12.659344 — biophysics — Posted on 2025-06-16

2711 CLUES2 Companion: Computational pipelines to estimate, visualize, and date selection on multi-locus sites

Lisi, A.; Campbell, M. C.

10.1101/2025.06.10.658975 — bioinformatics — Posted on 2025-06-16

2712 A Multimodal Adaptive Optical Microscope For In Vivo Imaging from Molecules to Organisms

Fu, T.-M.; Liu, G.; Milkie, D. E.; Ruan, X.; Gorlitz, F.; Shi, Y.; Ferro, V.; Divekar, N. S.; Wang, W.; York, H. M.; Kilic, V.; Mueller, M.; Liang, Y.; Daugird, T. A.; Gacha-Garay, M. J.; Larkin, K. A.; Adikes, R. C.; Harrison, N.; Shirazinejad, C.; Williams, S.; Nourse, J. L.; Sheu, S.-H.; Gao, L.; Li, T.; Mondal, C.; Achour, K.; Hercule, W.; Stabley, D.; Emmerich, K.; Dong, P.; Drubin, D.; Liu, Z. J.; Clapham, D.; Mumm, J. S.; Koyama, M.; Killilea, A.; Bravo-Cordero, J. J.; Keene, C. D.; Luo, L.; Kirchhausen, T.; Pathak, M. M.; Arumugam, S.; Nunez, J. K.; Gao, R. G.; Matus, D. Q.; Martin, B.

10.1101/2025.06.02.657494 — cell biology — Posted on 2025-06-16

2713 Subcellular reorganization upon phage infection reveals stepwise assembly of viral particles from membrane-associated precursors

Corroyer-Dulmont, S.; Labarde, A.; Prazak, V.; Godinho, L.; Masson, C.; Legrand, P.; Gruenewald, K.; Tavares, P.; Quemin, E.

10.1101/2025.06.15.659807 — cell biology — Posted on 2025-06-16

2714 Connectivity and Contraction in Cytoskeletal Networks

Norman, M. J.; Leske, A.; Belmonte, J. M.

10.1101/2025.06.12.659219 — cell biology — Posted on 2025-06-16

2715 Restored rigidity sensing fails to induce anoikis in cancer cells due to Akt activation and cell cell interactions

Nir, G.; Vivante, A. G.; Dwivedi, N.; Sheetz, M.

10.1101/2025.06.11.659173 — cell biology — Posted on 2025-06-16

2716 Architecture, Activation, and Conformational Plasticity in the GluA4 AMPA Receptor

Hale, W. D.; Huganir, R. L.; Twomey, E. C.

10.1101/2025.06.12.659357 — biophysics — Posted on 2025-06-16

2717 An Adaptive Visuomotor Transformation Reservoir Embedded in the Vertebrate Brain

Qian, Y.; Li, S.; Chen, M.-C.; Du, X.; Du, J.

10.1101/2025.06.10.658856 — neuroscience — Posted on 2025-06-15

2718 Placental Iron Utilisation in Fetal Growth Restriction: Alterations in Mitochondrial Heme Synthesis and Iron-Sulfur Cluster Assembly Pathways

Botha, V. B.; Murray, H. C.; Acharya, S.; Pringle, K. G.; Smith, R.; Fisher, J. J.

10.1101/2025.06.09.658195 — physiology — Posted on 2025-06-15

2719 AI-Guided CAR Design and AKT3 Degradation Synergize to Enhance Bispecific and Trispecific CAR-T Cell Persistence and Overcome Antigen Escape

10.1101/2025.06.12.658477 — cancer biology — Posted on 2025-06-15

2720 Multi-Scale Parcellation of Dynamic Causal Models of the Brain

Zarghami, T. S.

10.1101/2025.06.14.659698 — neuroscience — Posted on 2025-06-15

2721 DeepFace: A High-Precision and Scalable Deep Learning Pipeline for Predicting Large-Scale Brain Activity from Facial Dynamics in Mice

Ozdemirli, K.; Connor, T.; Lacin, M. E.; Kim, K.; Maldonado, M.; Peixoto, T. L.; oksuz, c.; mata, i.; Yildirim, M.

10.1101/2025.06.10.658952 — neuroscience — Posted on 2025-06-15

2722 Fetal sex is associated with the maternal gut microbiota composition and its metabolic function

Williams, B. M.; Liu, J.; Bernabe, B. P.

10.1101/2025.06.15.659758 — bioinformatics — Posted on 2025-06-15

2723 Depth-Resolved Macroscopic Fluorescence Lifetime Imaging via High-Spatial-Frequency Structured Illumination

Yuan, N.; Ragab, S.; Nizam, N. I.; Pandey, V.; Verma, A.; Young, T.; Williams, J. C.; Barroso, M.; Intes, X.

10.1101/2025.06.10.658928 — bioengineering — Posted on 2025-06-15

2724 VAMPIRE: Analyzing variation and motif pattern in tandem repeats

Yang, Z.; Zhang, S.; Logsdon, G. A.; Mao, Y.

10.1101/2025.06.15.659631 — genomics — Posted on 2025-06-15

2725 Histo-LCM-Hi-C reveals the 3D chromatin conformation of spatially localized rare cells in tissues at high resolution

Liu, Y.; Chen, M.; Liu, X.; Xu, Z.; Li, X.; Guo, Y.; Czajkowsky, D. M.; Shao, Z.

10.1101/2025.06.10.658807 — genomics — Posted on 2025-06-15

2726 Spatial Proofreading Amplification of in situ Transcript and Protein Signals

Tischbirek, C. H.; Colon, K. L.; Lobbia, S.; Cronin, C. J.; Cai, L.

10.1101/2025.06.11.659176 — molecular biology — Posted on 2025-06-15

2727 Phage-Encoded TelN Inhibits Mre11-Rad50 to Protect Hairpin Telomeres

Houmel, M.; Pellaton, N.; Anchimiuk, A.; Gruber, S.

10.1101/2025.06.15.659773 — microbiology — Posted on 2025-06-15

2728 Comparative Metagenomics of Soda Lakes and the Rumen Reveals Novel Microbial Lineages and Carbohydrate-active Enzyme Diversity

Oumer, O. J.; Simachew, A.; Hartmann, E. M.; Alexandersson, E.; Johansson, E.

10.1101/2025.06.14.659726 — microbiology — Posted on 2025-06-15

2729 Cleavage of the Hippo kinases and programmed cell death in murine macrophages exposed to sterile stimuli and bacterial pathogens

Quagliato, S. M.; Mirhosiny, R.; Meints, L.; Gulker, M.; St. Louis, B. M.; Su, Y.-T.; Lee, P.-C.

10.1101/2025.06.15.659776 — microbiology — Posted on 2025-06-15

2730 Automated 3D Segmentation of Human Vagus Nerve Fascicles and Epineurium from Micro-Computed Tomography Images Using Anatomy-Aware Neural Networks

Zhang, J.; Lapierre-Landry, M.; Kalpatthi, H.; Jenkins, M. W.; Wilson, D. L.; Pelot, N. A.; Shoffstall, A. J.

10.1101/2025.06.12.659370 — neuroscience — Posted on 2025-06-15

2731 Innervation of Retrodiscal Tissues in Patients with Temporomandibular Joint Disorder

Alfaro, J. J.; Hovhannisyan, A. H.; Locke, E. E.; Amarista, F. J.; Perez, D. E.; Akopian, A. N.

10.1101/2025.06.11.659119 — neuroscience — Posted on 2025-06-15

2732 Preventing Microglial Reactivity Protects from Acute and Progressive Neuronal Dysfunction, Motor Impairments and Sedation following Alcohol Abuse

Paouri, E.; Stanko, S.; Gasmi, N.; Glusauskas, G.; Mao, V.; Kwak, A.; Sarmadi, S.; Huang, E.; Hershberger, C.; Watercutter, Q.; Burton, H.; Crockett, A.; Gjojdeshi, A.; McMullen, M. R.; Hanamsagar, R. M.; Rotroff, D. M.; Prayson, R. A.; Bilbo, S. D.; Valadkhan, S.; Dana, H.; Nagy, L. E.; Davalos, D.

10.1101/2025.06.12.658437 — neuroscience — Posted on 2025-06-15

2733 Effects of aging on upper body express visuomotor responses while reaching under varying postural demands

Billen, L. S.; Gilchrist, M.; Weerdesteyn, V.; Corneil, B. D.

10.1101/2025.06.11.659162 — neuroscience — Posted on 2025-06-15

2734 Proximity labelling reveals the compartmental proteome of murine sensory neurons

Sondermann, J. R.; Barry, A. M.; Xian, F.; Haberl, T.; Gomez-Varela, D.; Benseler, F.; Schreiner, D.; Lipstein, N.; Brose, N.; Schmidt, M.

10.1101/2025.06.13.659475 — neuroscience — Posted on 2025-06-15

2735 Unlocking the Neuropeptidome using a Novel Endogenous Peptidomics Framework

Fields, L.; Wu, W.; Dang, T. C.; Ibarra, A. E.; Gray, M.; Li, L.

10.1101/2025.06.12.659356 — neuroscience — Posted on 2025-06-15

2736 Label-free structural imaging of plant roots and microbes using third-harmonic generation microscopy

Pan, D.; Rivera, J. A.; Miao, M.; Kim, P.; Tyml, T.; Rodriguez, C.; Afifa, U.; Wang, B.; Yoshikuni, Y.; Elisabeth, N. H.; Northen, T.; Vogel, J. P.; Ji, N.

10.1101/2024.04.13.589377 — plant biology — Posted on 2025-06-15

2737 Hepatic ADMA/PRMT1 axis regulation is associated with NO-dependent endothelial dysfunction in MASH

Lallement, J.; Bott, S.; Esfahani, H.; Serafimov, K.; Henderson, M.; Benoit, Z.; Dumas, L.; Al-Siyabi, S.; Feron, O.; Leclercq, I. A.; Dessy, C.

10.1101/2025.06.10.658894 — physiology — Posted on 2025-06-15

2738 IGF1R-Targeted Delivery of a Bridged Nucleic Acid Oligonucleotide-Peptide Conjugate for MicroRNA 21 Inhibition in Triple-Negative Breast Cancer

Jin, Y.; Desai, V. S.; Mazzaroth, J. D.; Wickstrom, E.

10.1101/2025.03.09.642231 — cancer biology — Posted on 2025-06-15

2739 Enthalpy-Entropy Compensation

DUMAS, P.

10.1101/2025.06.10.658876 — biophysics — Posted on 2025-06-15

2740 Bringing the Genetically Minimal Cell to Life on a Computer in 4D

Thornburg, Z. R.; Maytin, A.; Kwon, J.; Brier, T. A.; Gilbert, B. R.; Fu, E.; Gao, Y.-L.; Quenneville, J.; Wu, T.; Li, H.; Long, T.; Pezeshkian, W.; Sun, L.; Glass, J.; Mehta, A.; Ha, T.; Luthey-Schulten, Z.

10.1101/2025.06.10.658899 — biophysics — Posted on 2025-06-15

2741 Applying Self-Supervised Tissue Patch Encoders to Enable Cellular Graph Encoding

Ding, Z.; Baras, A.

10.1101/2025.06.10.658651 — bioinformatics — Posted on 2025-06-15

2742 A Functional Atlas of the Tardigrade Resistome Reveals a Diverse Molecular Toolkit for Extremotolerance

Ito, T.; Ota, K.; Hishinuma, H.; Shimizu, H.

10.1101/2025.06.10.658754 — bioinformatics — Posted on 2025-06-15

2743 TRPV4 Inhibition Reduces Cartilage Growth During Axolotl Limb Regeneration

Kondiboyina, V.; Miller, M.; Ritterbuck, M.; Owen, A.; Duerr, T. J.; Monaghan, J. R.; Shefelbine, S. J.

10.1101/2025.06.10.658903 — bioengineering — Posted on 2025-06-15

2744 Bipartite chromatin recognition by Hop1 from two diverged holozoa

Rodriguez, A. A.; Cirulli, A. E.; Chau, K.; Nguyen, J.; Ye, Q.; Corbett, K. D.

10.1101/2025.06.14.659699 — biochemistry — Posted on 2025-06-15

2745 A high-affinity split-HaloTag for live-cell protein labeling

Lin, Y.-H.; Kompa, J.; Sun, D.-e.; Mao, R.; Koch, B.; Hinnah, K.; Wilhelm, J.; Franz, N.; Kühn, S.; Menche, T.; Adow, A.; Breuer, P.; Hiblot, J.; Johnsson, K.

10.1101/2025.06.15.659771 — biochemistry — Posted on 2025-06-15

2746 Tracking molar wear in captive baboons: sex and age effects using a modified Scott scoring system

Krueger, K. L.; Towle, I.; Matthews, G. J.; Alvarez Fernandez, A.; Hlusko, L. J.

10.1101/2025.06.12.659345 — animal behavior and cognition — Posted on 2025-06-15

2747 Systematic characterization of the ovarian landscape across mouse menopause models

Kim, M.; Bhala, R.; Wang, J.; Lu, R. J.; Lee, E. H.; Alvarenga, J. L.; Williams, R. G.; Benayoun, B. A.

10.1101/2025.06.10.658920 — genomics — Posted on 2025-06-15

2748 A collection of patient-derived intestinal organoid lines reveals epithelial phenotypes associated with genetic drivers of pediatric inflammatory bowel disease

Jeshvaghani, Z. S.; Argmann, C.; Mokry, M.; van Es, J.; de Vries, M.; Collen, L.; Kotlarz, D.; Sveen, M.; Comella, P.; Snapper, S.; Klein, C.; Schadt, E.; Clevers, H.; Kuijk, E.; Nieuwenhuis, E.

10.1101/2025.06.11.659052 — genetics — Posted on 2025-06-15

2749 Urbanization drives genetic and plastic responses of the spotted jewelweed flower morphology

Burkiewicz, J.; Carvalho, J.; Caporgno, S.; Lafond, J.; Devaux, C.; Normandin, E.; Joly, S.

10.1101/2025.06.10.658901 — evolutionary biology — Posted on 2025-06-15

2750 Spatial and temporal patterns of colony density and habitat associations of a small desert ant

Cao, A. L.; Milesi, F. A.; Pol, R. G.; Vullo, L.; Miretti, M. F.; Pirk, G. I.; Lopez de Casenave, J.

10.1101/2025.06.10.658907 — ecology — Posted on 2025-06-15

2751 Plasma membrane rather than endosomal Gq signaling drives transcriptional activity by the viral chemokine receptor US28 in glioblastoma

Daly, C.; Wright, A.; Heukers, R.; McKee, C. M.; Coll, R. C.; Evergren, E.; Smit, M. J.; Thomsen, A.; Plouffe, B.

10.1101/2025.06.12.659276 — cell biology — Posted on 2025-06-15

2752 Structural basis and pathological implications of the dimeric OS9-SEL1L-HRD1 ERAD Core Complex

Lin, L. L.; Maldosevic, E.; Zhou, L. E.; Jomaa, A.; Qi, L.

10.1101/2025.06.13.659592 — molecular biology — Posted on 2025-06-15

2753 Intracellular imaging of MGMT and FTO

Liang, F.

10.1101/2025.06.15.659742 — molecular biology — Posted on 2025-06-15

2754 High-resolution spatial mapping of cell state and lineage dynamics in vivo with PEtracer

Koblan, L. W.; Yost, K. E.; Zheng, P.; Colgan, W. N.; Jones, M. G.; Yang, D.; Kumar, A.; Sandhu, J.; Schnell, A.; Sun, D.; Ergen, C.; Saunders, R. A.; Zhuang, X.; Allen, W. E.; Yosef, N.; Weissman, J. S.

10.1101/2025.06.15.659774 — molecular biology — Posted on 2025-06-15

2755 Activin receptor type IIA/B blockade increases muscle mass and strength, but compromises glycemic control in mice

Carlsson, M.; Larsen, E. H. F.; Marmol, J. M.; Ali, M. S.; Raun, S. H.; Battey, E.; Andersen, N. R.; Irazoki, A.; lund, C.; Henriquez-Olguin, C.; Hoejfeldt, M. H.; Blomquist, P.; Bromer, F. D.; Lodberg, A.; Andersen, C. B. F.; Eijken, M.; Knudsen, J. R.; Richter, E. A.; Sylow, L.

10.1101/2025.06.11.659035 — molecular biology — Posted on 2025-06-15

2756 Metagenomic Analysis Reveals Northwest Pacific Ocean as a Reservoir and Evolutionary Hub of Antibiotic Resistance Genes

Guo, Z.; Ma, H.; Liu, Y.; Xie, J.; Liu, X.; Chang, Y.; Wang, Z.; Cui, P.

10.1101/2025.06.14.659680 — microbiology — Posted on 2025-06-15

2757 Ovarian Cancer Drives TLR5-Dependent Expansion of Myeloid Progenitors Through Systemic Dissemination of Ligands

Kolli, S. H.; McGinty, M. T.; Putelo, A. M.; Hatzinger, C. N.; Bajgai, S.; Poblete, M. K.; Thompson, B.; Feng, T.-Y.; Azar, F. N.; Mirani, A.; Petri, W.; Burgess, S. L.; Rutkowski, M. R.

10.1101/2025.06.10.658497 — immunology — Posted on 2025-06-15

2758 LSD Restores Synaptic Plasticity in VTA of Morphine-Treated Mice and Disrupts Morphine-Conditioned Place Preference

Von Gunten, M.; Russell, T.; Stirlund, I.; Parks, S.; Jenkins, T.; Edwards, J. G.

10.1101/2025.06.12.658958 — neuroscience — Posted on 2025-06-15

2759 Effects of non-invasive vagus nerve stimulation on pupil dilation are dependent on sensory matching

Vezzani, C.; Breakspear, R.-M.; Thurn, L.; Ettinger, U.; Kuehnel, A.; Kroemer, N. B.

10.1101/2025.06.13.659318 — neuroscience — Posted on 2025-06-15

2760 Glutaminolysis Fuels Reactive Astrocytes, Exacerbating Amyloid Pathology in Alzheimer's Disease.

Devi, S. S.; Heese, S. L.; Leray, I.; Gallardo, G.

10.1101/2025.06.12.658977 — neuroscience — Posted on 2025-06-15

2761 Canagliflozin reprograms the aging hippocampus in genetically diverse UM-HET3 mice and attenuates Alzheimer's-like pathology

Jayarathne, H. S.; Manchanayake, D. H.; Chimienti, N.; Kadri, O.; Gurdziel, K.; Kim, S.; Jang, H.; Ginsburg, B. C.; Miller, R. A.; Yakar, S.; Sadagurski, M.

10.1101/2025.06.10.658747 — neuroscience — Posted on 2025-06-15

2762 A Reappraisal of the Role of the Mammillothalamic Tract in Memory Deficits Following Stroke in the Thalamus

Vidal, J. P.; Danet, L.; Pariente, J.; Albucher, J.-f.; Peran, P.; Barbeau, E. J.

10.1101/2025.06.13.659501 — neuroscience — Posted on 2025-06-15

2763 Two Specialized Intrinsic Cardiac Neuron Types Safeguard Heart Homeostasis and Stress Resilience

Xu, Q. J.; Applegate, M. C.; Hsu, I.-U.; Kogan, R. P.; Hafez, O. A.; Wang, R. L.; Rios Coronado, P. E.; Young, L. H.; Zeng, X.; Zhang, L.; Chang, R.

10.1101/2025.06.13.659555 — neuroscience — Posted on 2025-06-15

2764 Increased Synapse Elimination by Inflammatory Cells Contributes to Long-lasting Post-Stroke Memory Dysfunction in Old Mice

Shabani, Z.; Pan, P.; Li, Q.; Wang, Z.; Leng, K.; Sangras, S.; Huo, K.; Yadav, A.; Wang, C.; Shi, J.; Chinn, G.; Kyritsis, N.; Ferguson, A. R.; Hellman, J.; Su, H.

10.1101/2025.06.13.659591 — neuroscience — Posted on 2025-06-15

2765 The vagus nerve promotes memory via septo-hippocampal acetylcholine: Implications for obesity-induced cognitive dysfunction

Tierno Lauer, L.; Decarie-Spain, L.; Hayes, A. M. R.; Suarez, A. N.; Bashaw, A. G.; Klug, M. E.; Kao, A. E.; Cheng, R.; Rea, J. J.; Subramanian, K. S.; Nourbash, A. C.; Donohue, K. N.; Schier, L. A.; Myers, K. P.; Kanoski, S. E.

10.1101/2025.06.11.659206 — neuroscience — Posted on 2025-06-15

2766 Sex-dependent effects of maternal high-fat diet during lactation in adult THY-Tau22 mice offspring

Gauvrit, T.; Benderradji, H.; Pelletier, A.; Carvalho, K.; Aboulouard, S.; Faivre, E.; Chatelain, E.; Cannafarina, H.; Labous, L.; Launay, A.; Fourcot, M.; Kwiatkowski, D.; Chesnais, L.; Vallez, E.; Cardon, T.; Deleau, A.; Thiroux, B.; Eddarkaoui, S.; Bogdanova, A.; Besegher, M.; Delahaye, F.; Annicotte, J.-S.; Le Gras, S.; Tailleux, A.; Salzet, M.; Marot, G.; Buee, L.; Blum, D.; Vieau, D.

10.1101/2025.06.10.658847 — neuroscience — Posted on 2025-06-15

2767 Generation of knock-in Cre and FlpO mouse lines for precise targeting of striatal projection neurons and dopaminergic neurons

Albarran, E.; Fushiki, A.; Nelson, A.; Ng, D.; Chaimowitz, C.; Nikoobakht, L.; Sippy, T.; Peterka, D. S.; Costa, R. M.

10.1101/2025.06.15.659794 — neuroscience — Posted on 2025-06-15

2768 Structurally Constrained Functional Connectivity Reveals Efficient Visuomotor Decision-Making Mechanisms in Action Video Gamers

Cahill, K.; Dhamala, M.

10.1101/2025.06.13.659455 — neuroscience — Posted on 2025-06-15

2769 Semantics across the globe: A universal neurocognitive semantic structure adaptive to climate

Fu, Z.; Chu, Y.; Zhang, T.; Li, Y.; Wang, X.; Bi, Y.

10.1101/2025.06.13.659453 — neuroscience — Posted on 2025-06-15

2770 Supervised white matter bundle segmentation in glioma patients with transfer learning

Riccardi, C.; Coletta, L.; Ghezzi, S.; Amorosino, G.; Zigiotto, L.; Jovicich, J.; Sarubbo, S.; Avesani, P.

10.1101/2025.06.13.659452 — neuroscience — Posted on 2025-06-15

2771 Post-translational modifications distinguish amyloid-β isoform patterns extracted from vascular deposits and parenchymal plaques

Koutarapu, S.; Roberts, K. F.; Coyle, R. A.; Mehla, J.; Sato, C.; Zipfel, G. J.; Bateman, R. J.; Schwetye, K. E.; Mukherjee, S.

10.1101/2025.06.11.658821 — neuroscience — Posted on 2025-06-15

2772 Directed cell-type recruitment during consolidation of a remote memory

Zeidler, Z.; Yu, A. L.; Seong, M. P.; Hundley, R.; DeNardo, L. A.

10.1101/2025.06.13.659562 — neuroscience — Posted on 2025-06-15

2773 Astrocytes control motor neuronal mitochondrial axonal transport deficits in C9ORF72 ALS.

Stavrou, M.; Heffernan, A.; Carter, R. N.; Dando, O.; Jiwaji, Z.; Burr, K.; Nanda, J.; Cholewa, J.; Story, D.; Hardingham, G.; Selvaraj, B.; Chandran, S.

10.1101/2025.06.10.658820 — neuroscience — Posted on 2025-06-15

2774 Problem-solving without a cortex: inferior lobe drives goal-directed object manipulation in cichlid fish

Estienne, P.; Page, G.; Poon, G.; Larrat, B.; Durier, T.; Dufresne, A.; Ciobanu, L.; Yamamoto, K.

10.1101/2025.06.10.658878 — neuroscience — Posted on 2025-06-15

2775 Challenges in Replay Detection by TDLM in Post-Encoding Resting State

Kern, S.; Nagel, J.; Wittkuhn, L.; Gais, S.; Dolan, R. J.; Feld, G. B.

10.1101/2025.06.11.658835 — neuroscience — Posted on 2025-06-15

2776 Dynamic respiration-neural coupling in substantia nigra across sleep and anesthesia

Dehdar, K.; Neuberg, E.; Gu, B.-M.

10.1101/2025.06.11.659127 — neuroscience — Posted on 2025-06-15

2777 Mapping of individual somatosensory representations - comparison of fMRI and TMS

Gogulski, J. D.; Nyrhinen, M.; Zetter, R.; Tokariev, M.; Lin, H.; Pertovaara, A.; Carlson, S.

10.1101/2025.06.12.659279 — neuroscience — Posted on 2025-06-15

2778 Action observation responses in macaque frontal cortex

De Schrijver, S.; Decramer, T.; Janssen, P.

10.1101/2025.06.11.659180 — neuroscience — Posted on 2025-06-15

2779 Modulation of SLP-2 expression protects against alpha-synuclein neuropathology by mitigating mitochondrial dysfunction

Bolduc, C.; Castelo Rueda, M. P.; Lorente Picon, M.; Gentile, G.; Kalvakuri, S.; Soto Linan, V.; Zanon, A.; Laouafa, S.; Lang, M.; Lavdas, A. A.; Gilmozzi, V.; Bernardo, G.; Coulombe, V.; Gora, C.; Peralta, M.; Rioux, V.; Honisch, C.; Pramstaller, P. P.; Ruzza, P.; Ziviani, E.; Bodmer, R.; Hicks, A. A.; Parent, M.; Soliz, J.; Joseph, V.; Pichler, I.; Levesque, M.

10.1101/2025.06.13.659577 — neuroscience — Posted on 2025-06-15

2780 An intracortical brain-machine interface based on macaque ventral premotor activity

De Schrijver, S.; Ramirez, J. G.; Iregui, S.; Aertbelien, E.; De Schutter, J.; Theys, T.; Decramer, T.; Janssen, P.

10.1101/2025.06.11.659174 — neuroscience — Posted on 2025-06-15

2781 The Taco Setup: A Novel TMS-fMRI Setup for High Resolution Whole Brain Imaging

Assem, M.; Mada, M.; Eldridge, S.; Woolgar, A.

10.1101/2025.06.14.659622 — neuroscience — Posted on 2025-06-15

2782 Precision targeting of C3+ reactive astrocyte subpopulations with endogenous ADAR in an iPSC-derived model

Kim, H.; Kjar, A.; Embalabala, R.; Brunger, J.; Lippmann, E.

10.1101/2025.06.11.659213 — neuroscience — Posted on 2025-06-15

2783 A systemic clock brake: Period1 stabilizes the circadian network under environmental stress

Kim, P.; Kumar, V.; Garner, N.; Jayasinghe, O.; Roman, G.; Walters, S.; Vo, T. Q. A.; Nguyen, Q.; Bowles, J.; Woodruff, T. M.; Inder, W.; Hunt, J.; Heyde, I.; Oster, H.; Rawashdeh, O.

10.1101/2025.06.12.659230 — neuroscience — Posted on 2025-06-15

2784 RubyACRs Enable Red-Shifted Optogenetic Inhibition in Freely Behaving Drosophila

Bushey, D.; Shiozaki, H. M.; Shuai, Y.; Zheng, J.; Jayaraman, V.; Kolb, I.; Hasseman, J. P.; GENIE Project Team, ; Turner, G. C.

10.1101/2025.06.13.659144 — neuroscience — Posted on 2025-06-15

2785 Close Packing of Cells in Vestibular Epithelia Supports Local Electrical Potentials that Reduce Latency of Action Potential Generation

Govindaraju, A. C.; Raphael, R. M.

10.1101/2025.06.14.659580 — neuroscience — Posted on 2025-06-15

2786 Predicting Trends in Avian Wing Motion and Energetics Across Scales

Parslew, B.

10.1101/2025.06.10.658879 — zoology — Posted on 2025-06-15

2787 Cryo-EM Structure of Photosystem I from mangroves in their natural environment

Malavath, T.; Heilmann, E.; Charras, Q.; Yuan, X.; Al-Amoudi, A.; Naschberger, A.; Gholami, A.

10.1101/2025.06.10.658896 — plant biology — Posted on 2025-06-15

2788 Proximal Pulmonary Artery Stiffening as a Biomarker of Cardiopulmonary Aging

De Man, R.; Cai, Z.; Doddaballapur, P.; Guerrera, N.; Lin, L.; Justet, A.; Abu Hussein, N. S.; Cavinato, C.; Raredon, M. S. B.; Heerdt, P.; Singh, I.; Yan, X.; Kang, M.-J.; Bruns, D. R.; Lee, P. J.; Tellides, G.; Humphrey, J.; Kaminski, N.; Ramachandra, A. B.; Manning, E. P.

10.1101/2025.06.10.658632 — physiology — Posted on 2025-06-15

2789 Reversible Antagonism of Dopamine D1 Receptor using a Photoswitchable Remotely Tethered Ligand

Hetzler, B. E.; Donthamsetti, P. C.; Wolesensky, R. M.; Stanley, C.; Isacoff, E.; Trauner, D.

10.1101/2025.06.10.658926 — pharmacology and toxicology — Posted on 2025-06-15

2790 Hydration shells of globular and intrinsically disordered proteins: effects of amino acid composition, peptide conformation, and force fields

Linse, J.-B.; Fischbach, T. M.; Hub, J. S.

10.1101/2025.06.10.658889 — biophysics — Posted on 2025-06-15

2791 Constrained template matching using rejection sampling

Maurer, V. J.; Grunwald, L.; Kennes, D. M.; Kosinski, J.

10.1101/2025.06.10.658890 — biophysics — Posted on 2025-06-15

2792 Encapsulation-enhanced genetic switches in lactobacilli

Blanch-Asensio, M.; Tadimarri, V. S.; Martinez, R. P.; Dahiya, G. S.; Duong, C. N.; Lale, R.; Sankaran, S.

10.1101/2025.01.10.632477 — bioengineering — Posted on 2025-06-15

2793 Maternal diet exerts sex-specific effects on offspring' personalities in predatory mites

Nguyen, T. H.; Schausberger, P.

10.1101/2025.06.13.659584 — animal behavior and cognition — Posted on 2025-06-15

2794 Desert Hedgehog mediates stem Leydig cell differentiation through Ptch2/Gli1/Sf1 signaling axis

Zhao, C.; Chen, Y.; Liu, L.; Liu, X.; Xiao, H.; Wang, F.; Huang, Q.; Dai, X.; Tao, W.; Wang, D.; Wei, J.

10.1101/2025.06.13.659479 — developmental biology — Posted on 2025-06-15

2795 Structural insights into scaffold-guided assembly of the Pseudomonas phage D3 capsid

Belford, A. K.; Maurer, J. B.; Duda, R. L.; Huet, A.; Conway, J. F.

10.1101/2025.06.14.659615 — molecular biology — Posted on 2025-06-15

2796 The Staphylococcus aureus prophage-encoded SSBP attenuates virulence and enhances IL-6-mediated macrophage clearance

Ahmad-Mansour, N.; Abi Najem, C. N.; Martin, M.; Plumet, L.; Huc-Brandt, S.; Morsli, M.; Francois, P.; Sotto, A.; Dunyach-Remy, C.; Lavigne, J.-P.; MOLLE, V.

10.1101/2025.03.13.643069 — microbiology — Posted on 2025-06-15

2797 An archaeal CBASS system eliminates viruses without killing the host cells

Choudhary, D. K.; Singla, H.; Vassover, D.; Golan, N.; Reshef, L.; Shukrun, H.; Gophna, U.

10.1101/2024.09.12.612678 — microbiology — Posted on 2025-06-15

2798 The capsule and genetic background, rather than specific individual loci, strongly influence in vitro pneumococcal growth kinetics

Chaguza, C.; Arends, D. W.; Lo, S. W.; Putri, I. H.; York, A.; Lees, J. A.; Wyllie, A. L.; Weinberger, D. M.; Bentley, S. D.; de Jonge, M. I.; Cremers, A. J. H.

10.1101/2024.12.05.627025 — microbiology — Posted on 2025-06-15

2799 Multiplexed Neuromodulatory-Type-Annotated EM-Reconstruction of Larval Zebrafish

Li, F.-n.; Liu, J.-z.; Shi, C.; Yuan, J.-b.; Lv, Y.-n.; Liu, J.; Zhang, L.-n.; Li, L.-l.; Shen, L.-j.; Chen, X.; Zhai, H.; Chen, B.-h.; Zhang, Y.-c.; Chen, H.-r.; Yan, H.-y.; Chang, S.; Ma, H.-t.; Zhou, F.-x.; Xin, T.; Dong, X.-h.; Lin, L.-m.; Zhao, X.-h.; Fang, Z.-h.; Zu, J.-l.; Tao, R.-k.; Hu, H.-y.; Qian, C.-y.; Wang, Y.-s.; Zhang, C.-m.; Xiang, P.-s.; Yang, Y.-x.; Du, X.-f.; Han, H.; Du, J.-l.

10.1101/2025.06.12.659365 — neuroscience — Posted on 2025-06-15

2800 NiCLIP: Neuroimaging contrastive language-image pretraining model for predicting text from brain activation images

Peraza, J. A.; Kent, J. D.; Nichols, T. E.; Poline, J.-B.; de la Vega, A.; Laird, A. R.

10.1101/2025.06.14.659706 — neuroscience — Posted on 2025-06-15

2801 Long-term Nrf2-driven microglial repopulation mitigates microgliosis, neuronal loss and cognitive deficits in tauopathy

Viqueira, L.; Navarro, E.; Negredo, P.; Bernal, J. A.; Rodriguez-Franco, M. I.; Tortosa, E.; Lopez, M. G.

10.1101/2025.06.11.659019 — neuroscience — Posted on 2025-06-15

2802 Viral Infection Induces Alzheimer's Disease-Related Pathways and Senescence in iPSC-Derived Neuronal Models

Hribkova, H.; Pospisilova, V.; Amruz Cerna, K.; Vanova, T.; Haviernik, J.; Sedmik, J.; Bernatik, O.; Olha, J.; Raska, J.; Ruzek, D.; Sheardova, K.; Vajrychova, M.; Gresova, K.; Cesnarikova, S.; Satkova, M.; Plesingrova, K.; Maragkakis, M.; Strakova, P.; Fortova, A.; Sadibolova, M.; Kupcik, R.; Fabrik, I.; Bohaciakova, D.

10.1101/2025.06.11.659008 — neuroscience — Posted on 2025-06-15

2803 Combined MEG and EEG suggest a limbic source network of the P3 including retrosplenial cortex and hippocampus

Das, D.; Hamalainen, M. S.; Dykstra, A. R.; Rupp, A.; Gutschalk, A.

10.1101/2025.03.24.645008 — neuroscience — Posted on 2025-06-15

2804 Ultrasound neuromodulation reveals distinct roles of the dorsal anterior cingulate cortex and anterior insula in Pavlovian biases

Koutsoumpari, N.; Algermissen, J.; Yaakub, S. N.; den Ouden, H. E. M.; Bault, N.; Fouragnan, E. F.

10.1101/2025.06.12.659273 — neuroscience — Posted on 2025-06-15

2805 Hibernation improves neural performance during energy stress in regions across the central nervous system in the American bullfrog

Bueschke, N.; Santin, J. M.

10.1101/2025.06.13.659541 — neuroscience — Posted on 2025-06-15

2806 Overnight circuit remodelling drives juvenile alloparental care

Jamieson, B. B.; Chen, M. X.; Liang, S.; El Rasheed, L. S. H.; Chattey, G. M. K.; Kohl, J.

10.1101/2025.06.13.659524 — neuroscience — Posted on 2025-06-15

2807 FiPhoPHA - A fiber photometry python package for post-hoc analysis

Drakopoulos, V.; Reichenbach, A.; Stark, R.; Foldi, C. J.; Jean-Richard-dit-Bressel, P.; Andrews, Z. B.

10.1101/2025.06.12.659422 — neuroscience — Posted on 2025-06-15

2808 Aβ-HMGB1 complex is a pathogenic molecule at the advanced stage of Alzheimer's disease

Tanaka, H.; Homma, H.; Yoshioka, Y.; Fujita, K.; Yamada, S.; Furukawa, K.; Ishiki, A.; Atsuta, N.; Waragai, M.; Mano, T.; Katsuno, M.; Sobue, G.; Arai, H.; Iwata, A.; Okazawa, H.

10.1101/2025.06.12.659430 — neuroscience — Posted on 2025-06-15

2809 Selective-plane Functional Ultrasound Neuroimaging

Waasdorp, R.; Gouwerok, T.; Munoz-Ibarra, E.; Nelissen, F.; Gazzola, V.; Renaud, G. G. J.; Maresca, D.; Heiles, B.

10.1101/2025.06.12.659275 — neuroscience — Posted on 2025-06-15

2810 Sleep strengthens successor representations of learned sequences

He, X.; Büchel, P. K.; Faghel-Soubeyrand, S.; Klingspohr, J.; Kehl, M. S.; Staresina, B. P.

10.1101/2025.06.11.658893 — neuroscience — Posted on 2025-06-15

2811 Response dynamics of discrete subiculum->retrosplenial cortex projections underlying trace fear conditioning

Bassett, T. E.; Wang, Y.-Z.; Wood, E. M.; Zhang, H.; Petrovic, Z.; Prifti, V.; Jovasevic, V.; Yamawaki, N.; Ren, L.; Khalatyan, N.; Grayson, V.; Savas, J. N.; Radulovic, J.; Cicvaric, A.

10.1101/2025.06.12.659393 — neuroscience — Posted on 2025-06-15

2812 Characterization of neuronal ensembles in a model of dual reward conditioned place preference

Flom, L. T.; Sandum, K.; Hodgins, S.; Johnson-Noya, S.; Crouse, J.; Zhang, Z.; Bobadilla, A. C.

10.1101/2025.06.11.659163 — neuroscience — Posted on 2025-06-15

2813 Neural Mechanisms Underlying Approach and Avoidance Tendencies in Alcohol Use: An Electrophysiological Investigation

Verma, A. K.; Kumar, A. D.; Chivukula, U.; Kumar, N.

10.1101/2025.06.14.658999 — neuroscience — Posted on 2025-06-15

2814 Induction of Human Pruriceptors from Pluripotent Stem Cells via Transcription Factors

Iriki, H.; Hu, R.; Li, X.; Baljinnyam, E.; Habich, C.; Imanishi, I.; Miller, L.; Chegireddy, K.; Malik, L. I.; Yassky, D.; Heul, A. V.; Smith, K. M.; Goedken, E. R.; Reinhardt, P.; Kim, B. S.; Marro, S. G.

10.1101/2025.06.11.659208 — neuroscience — Posted on 2025-06-15

2815 Dynamics of mesoscale brain network during decision-making learning revealed by chronic, large-scale single-unit recording

WANG, T.-Y.; Feng, C.; Wang, C.; Ren, C.; Zhao, Z.

10.1101/2025.06.13.659464 — neuroscience — Posted on 2025-06-15

2816 GPR68, a proton-sensing GPCR, mediates acid-induced visceral nociception

Paine, L. W.; Gupta, R.; Higham, J.; Aguilera-Lizarraga, J.; Ritoux, A.; Pritchard, T.; Nicholson, S.; Hockley, J.; Raine, T.; Hausmann, M.; Bednar, K.; Rogler, G.; Welsh, F.; Smith, E. S. J.; Bulmer, D.

10.1101/2025.06.13.659465 — neuroscience — Posted on 2025-06-15

2817 Circadian Rhythms Time Seizure Severity in Drosophila

Huertas Radi, M.; Bradlaugh, A. A.; Baines, R. A.

10.1101/2025.06.11.659104 — neuroscience — Posted on 2025-06-15

2818 Arousal-Driven Serial Dependence: Internal States Modulate Perceived Duration

Cheng, S.; Jin, W.; Shan, X.; Kara, E. B.; Bilgic, S. E.; Salomasova, S.; Unterguggenberger, Q.; Shi, Z.

10.1101/2025.06.15.659791 — neuroscience — Posted on 2025-06-15

2819 DCPS modulates TDP-43 mediated neurodegeneration through P-body regulation

Ye, Y.; Zhang, Z.; Yu, X.; Zhu, C.; Wright, N.; Asbury, J.; Huang, Y.; Wang, W.; Gomez-Isaza, L.; Troncoso, J.; He, C.; Sun, S.

10.1101/2025.06.13.659508 — neuroscience — Posted on 2025-06-15

2820 Drosophila Modeling of Insomnia-Associated Genes Reveals Diverse Underlying Sleep Phenotypes

Mandigo, T. R.; Abou Daya, F.; Math, S.; Ye, A. Q.; Maher, M.; Saxena, R.; Walker, J. A.

10.1101/2025.06.12.659376 — neuroscience — Posted on 2025-06-15

2821 Shared Neural Signatures of Socioeconomic Status, Scarcity, and Neighborhood Threat in Youth

Brosch, K.; Wiersch, L.; Christensen, E.; Rakesh, D.; Hanson, J.; Schwartz, R. M.; Dhamala, E.

10.1101/2025.06.11.659188 — neuroscience — Posted on 2025-06-15

2822 Precision of reaches and proprioception in motor control and adaptation

Henriques, D. Y.; 't Hart, B. M.

10.1101/2025.06.14.659693 — neuroscience — Posted on 2025-06-15

2823 iSleep: Continuous, binocular pupil tracking in sleep and reduced consciousness for physiological monitoring, predictions and interventions

Yuzgec, O.; Legendre, G.; Asadian, A.; Gloria, Y.; Bayer, L.; Tourdot, Q.; Pellat, S.; Novozhilova, S.; D'Ancona, C.; Ulanova, M.; Kecik, M.; Maccari, A.; Lopez, D.; Licini, L.; Nguyen Tang, G.; Van Delden, S.; Bravetti, G. E.; Vo, T.; Kropp, M.; Boex, C.; Jakus, L.; Schaller, K.; Sollander, F.; Vutskits, L.; Thumann, G.; Schwartz, S.; Huber, D.

10.1101/2025.06.13.659058 — neuroscience — Posted on 2025-06-15

2824 Intrinsically disordered regions facilitate Msn2 target search to drive promoter selectivity

Strugo, N.; Burstein, C.; Hossain, S. S.; Nago, N.; Goldsmith, M.; Khamis, H.; Kaplan, A.

10.1101/2025.05.23.654710 — biophysics — Posted on 2025-06-15

2825 Investigating diurnal effects and joint nest defense behavior in Herring Gulls

Shah, S. S.; Ellms, M. E.; Dygean, F.; Gunasekera, S.; Hart, E.; Ivanyi, R. E.; Lane, M.; Liu, D.; Pitcher, D.; Saucier, A.; Schroeder, K. F.; Triquet, J.; Williams, K.; Covino, K. M.

10.1101/2025.06.13.659635 — animal behavior and cognition — Posted on 2025-06-15

2826 Environmental modifications of dung beetle larvae shape their growth and life history.

McConnell, N. J.; Rohner, P. T.

10.1101/2025.06.10.658956 — animal behavior and cognition — Posted on 2025-06-15

2827 Group-level matching behavior in phototaxis of acoel flatworm, Praesagittifera naikaiensis.

Matsui, H.; Hata, Y.

10.1101/2025.06.11.659215 — animal behavior and cognition — Posted on 2025-06-15

2828 Take it or leaf it: bees learn leaf shape as a cue when flower color is easily learned

Castagna, A. M. T.; Burrow, J. K.; Stewart, C. G.; Russell, A. L.

10.1101/2025.06.12.659384 — animal behavior and cognition — Posted on 2025-06-15

2829 Single-cell omics reveal distinct gene regulatory dynamics underpinning embryonic and extraembryonic lineage functions during pig blastocyst development

Dufour, A.; Rossignol, M.-N.; Manceau, P.; Bailly, Y.; Ferchaud, S.; Mercat, M.-J.; Turhan, A. G.; Djebali, S.; Foissac, S.; Artus, J.; Acloque, H.

10.1101/2025.06.15.657618 — developmental biology — Posted on 2025-06-15

2830 Major waves of H2A.Z incorporation during mouse oogenesis

Fosslie, M.; Ilaslan, E.; Skuland, T.; Manaf, A.; Soegaard, M. L. C.; Indahl, M.; Vera-Rodriguez, M.; Suganthan, R.; Jermstad, I.; Khanam, S.; Dalen, K. T.; Eskeland, R.; Choudalakis, M.; Bjoras, M.; Fedorcsak, P. Z.; Greggains, G. D.; Zagrobelny, M.; Dahl, J. A.; Lerdrup, M.

10.1101/2025.06.14.659461 — developmental biology — Posted on 2025-06-15

2831 Quantitative Proteomics Links Mitochondrial Dysfunction to Metabolic Changes and Epithelial Differentiation Defects in Hyperoxia-Exposed Neonatal Airway Cells

Ganguly, A.; Carter, C. M.; Negron, A. R.; Zhong, H.; Moreira, A.; Walters, M. S.; Rogers, L. K.; Prakash, Y. S.; Tipple, T. E.; Richardson, A.

10.1101/2025.06.15.659571 — developmental biology — Posted on 2025-06-15

2832 Effects of Ambient Temperature During Pregnancy on Newborn Birthweight

Nargund, R.; Marchesoni, J.; Bareja, A.; W. Sosnowski, D.; Peng, G.; Hoyo, C.; Pan, W.; K. Murphy, S.

10.1101/2025.06.10.658978 — developmental biology — Posted on 2025-06-15

2833 Somatic gene repression ensures physical segregation of germline and soma in Drosophila embryos

Asaoka, M.; Kayama, M.; Kawagoe, T.; Hayashi, M.; Morita, S.; Kobayashi, S.

10.1101/2025.06.13.659480 — developmental biology — Posted on 2025-06-15

2834 Stc1-expressing myofibroblasts are a developmentally distinct lineage cleared through intrinsic apoptosis in the neonatal lung

Snitow, M. E.; Michki, S. N.; Chaudhry, F. N.; Dherwani, R.; Katzen, J. B.; Frank, D. B.; Zepp, J. A.

10.1101/2025.06.12.659126 — developmental biology — Posted on 2025-06-15

2835 Integrate-and-fire neurons with potassium dynamics that capture switches in neuronal excitability class and firing regime

Lemaire, L.; Behbood, M.; Schleimer, J.-H.; Schreiber, S.

10.1101/2025.06.14.659682 — neuroscience — Posted on 2025-06-15

2836 Neurons, Muscles, and Venom: Identifying Drivers of Cephalopod Predation

Kirchhoff, K. N.; Williams, M.; Stambouli, B.; Pardo-Blas, J. R.; Courtney, A.; Sugarman, A. L.; Vanselow, D. J.; Carrasco, C.; Cuddy, C.; Schafer, W. R.; Cheng, K. C.; Seuntjens, E.; Holford, M.

10.1101/2025.06.15.659772 — neuroscience — Posted on 2025-06-15

2837 Slow Wave Sleep Reduces CSF Concentrations of Beta-amyloid and Tau: A Randomized Crossover Study in Healthy Adults

Lyckenvik, T.; Olsson, M.; Forsberg, M.; Wasling, P.; Zetterberg, H.; Hedner, J.; Hanse, E.

10.1101/2025.06.15.659740 — neuroscience — Posted on 2025-06-15

2838 Cholesterol Inhibits HCN Channels through Dual Mechanisms in Neuropathic Pain

Handlin, L. J.; Giere, C.; Dumaire, N. L.; Salih, L.; Moutal, A.; Dai, G.

10.1101/2025.06.15.659789 — neuroscience — Posted on 2025-06-15

2839 Integration of Motor Planning and Execution through Latent Structure Reorganization in the Posterior Parietal Cortex

Diomedi, S.; Vaccari, F. E.; Hadjidimitrakis, K.; Fattori, P.; Stoianov, I. P.

10.1101/2025.06.10.658832 — neuroscience — Posted on 2025-06-15

2840 Human placental stem cells induce a novel multiple myeloid cell-driven immunosuppressive program that ameliorates proinflammatory CNS pathology

Sarlus, H.; Guo, Y.; Bencina, S.; Zhu, K.; Joshua, V.; Virgilio, G. A.; Cheng, Y.; Lin, J.; Min, J. H.; Cuesta, I. B.; Suerth, V.; Alonso, P. T.; Thomas, O. G.; Rykaczewska, U.; Cacais, A. O. G.; Jagodic, M.; Gramignoli, R.; Harris, R. A.

10.1101/2025.06.14.659704 — neuroscience — Posted on 2025-06-15

2841 Non-inertial scan angle multiplier for expanded fields-of-view

Yu, C.-H.; Yu, Y.; Canzano, J. S.; Fei, Y.; Smith, S. L.

10.1101/2025.06.13.659647 — neuroscience — Posted on 2025-06-15

2842 Fictive Learning in Model-based Reinforcement Learning by Generalized Reward Prediction Errors

Chen, J.; Taira, M.; Doya, K.

10.1101/2025.06.12.659433 — animal behavior and cognition — Posted on 2025-06-15

2843 Predicting continuous outcomes: Some new tests of associative approaches to contingency learning.

Chow, J.; Don, H. J.; Colagiuri, B.; Livesey, E. J.

10.1101/2025.06.12.659290 — animal behavior and cognition — Posted on 2025-06-15

2844 Entirely synthetic memory inception via dual optogenetic activation of sensory and dopaminergic neurons

Tumkaya, T.; Zhang, X.; Mai, Y.; Stewart, J. C.; Claridge-Chang, A.

10.1101/2025.06.11.659083 — animal behavior and cognition — Posted on 2025-06-15

2845 Male attraction to short-range multimodal gyne signals in bumble bees

Spence, S. K.; Amsalem, E.

10.1101/2025.06.10.658960 — animal behavior and cognition — Posted on 2025-06-15

2846 Oscillating Ears Dynamically Transform Echoes in Constant-Frequency Bats

Umadi, R.

10.1101/2025.06.14.659613 — animal behavior and cognition — Posted on 2025-06-15

2847 The Homeodomain-interacting protein kinase Hipk promotes apoptosis by stabilizing the active form of Dronc

Garcla-Arias, J. M.; Juarez-Uribe, R. A.; Baena-Lopez, L. A.; Morata, G.; Sanchez-Herrero, E.

10.1101/2025.06.12.659078 — developmental biology — Posted on 2025-06-15

2848 RpS12-mediated induction of the Xrp1short isoform links ribosomal protein mutations to cell competition

Potiri, M.; Tsakiri, E.; Kontogiannidi, K.; Loizou, M.; Skoulakis, E. M. C.; Samiotaki, M.; Kafasla, P.; Kiparaki, M.

10.1101/2025.06.15.659587 — developmental biology — Posted on 2025-06-15

2849 The nucleus forms a dynamic contact with the plasma membrane to maintain the glandular epithelial architecture

Rayer, M. S.; Mui, K.; Pendyala, K.; Rockenbach Zenzen, J. A.; Antoku, S.; Lele, T.; Gundersen, G. G.

10.1101/2025.06.13.659552 — cell biology — Posted on 2025-06-15

2850 Treatment with the ribosome biogenesis inhibitor CX-5461 increases platelet count in humans and enhances murine megakaryopoiesis

Bhoopalan, V.; Kaur, A.; Hearn, J. I.; Maclachlan, K. H.; Liu, L.; Ferreira, R.; Ali, S. A.; Thong, Y. L.; Hein, N.; Nazir, S.; Brysland, S. A.; Man, S. M.; Harrison, S. J.; Andrews, R. K.; Eto, K.; Choi, P. Y.-I.; Wen, J.; Hannan, K. M.; Hannan, R. D.; Gardiner, E. E.

10.1101/2025.06.15.659730 — cell biology — Posted on 2025-06-15

2851 Oviduct fluid metabolic regulation of embryonic genome methylation

Fuego, D. M.; Devkota, I.; Bonomo, Z. L.; Li, Y.; Zhang, X.; Dondeti, M. F.; Donnarumma, F.; Matsakas, A.; Patterson, A. L.; Williams, C. C.; Vourekas, A.; Fu, X.; Bondioli, K. R.; Simintiras, C. A.

10.1101/2025.06.13.659599 — cell biology — Posted on 2025-06-15

2852 Ciliary and non-ciliary functions of CEP104 in Xenopus

Louka, P.; Potamiti, L.; Panayiotidis, M. I.; Skourides, P.

10.1101/2025.06.12.659327 — cell biology — Posted on 2025-06-15

2853 Condensate-driven chromatin organization via elastocapillary interactions

Zhao, H.; Strom, A. R.; Eeftens, J. M.; Haataja, M.; Kosmrlj, A.; Brangwynne, C. P.

10.1101/2025.06.12.659369 — biophysics — Posted on 2025-06-15

2854 Formation of extracellular vesicles depends on mechanical feedback of the cortex and the glycocalyx

Xiao, K.; Rangamani, P.

10.1101/2025.06.14.659723 — biophysics — Posted on 2025-06-15

2855 Mechanochemical feedback between confinement and actin crosslinking drives the shape dynamics of liquid-like droplets

Mansour, D.; Jordan, D.; Walker, C.; Chandrasekaran, A.; Lee, C. T.; Graham, K.; Stachowiak, J.; Rangamani, P.

10.1101/2025.06.13.659650 — biophysics — Posted on 2025-06-15

2856 A lipid plug affects K2P6.1(TWIK-2) function

Mondal, A.; Niranjan, S.; Minor, D. L.

10.1101/2025.06.11.659167 — biophysics — Posted on 2025-06-15

2857 Nutritional iron deficiency elicits profound rewiring of red pulp macrophage functions via high FPN and SYK-mediated signaling

Mandal, P. K.; Chouhan, K.; Slusarczyk, P.; Mahadeva, R.; Zurawska, G.; Niklewicz, M.; Jonczy, A.; Lenartowicz, M.; Pokrzywa, W.; Meynard, D.; Nemeth, E.; Mleczko-Sanecka, K.

10.1101/2025.06.13.659526 — cell biology — Posted on 2025-06-15

2858 The adeno-associated virus Rep proteins target PP4:SMEK1 by preventing substrate-recruitment

Vandewinkel, B.; Torrekens, S.; Claes, Z.; Bollen, M.; Henckaerts, E.

10.1101/2025.06.13.659448 — cell biology — Posted on 2025-06-15

2859 Synergistic Control of Mitochondrial Dynamics and Function by ERAD and Autophagy in Brown Adipocytes

Chen, X.; Wang, S.; Torres, M.; Hao, S.; Sun, S.; Qi, L.

10.1101/2025.06.14.659625 — cell biology — Posted on 2025-06-15

2860 Proof-of-Concept in a Murine Model of Treatment of Thrombotic Thrombocytopenic Purpura Using Engineered Red Blood Cells

Roberts, K. S.; Zhang, S.; Batbayar, K.; Yan, Z.; Muia, J.; Mulvey, J. J.; Olivier, E.; Pullman, J. M.; Cataland, S. R.; Bouhassira, E. E.

10.1101/2025.06.12.659386 — cell biology — Posted on 2025-06-15

2861 Inhibition of Acyl-CoA: Cholesterol Acyltransferase 1 Promotes Shedding of Soluble TREM2 and LRP1-Dependent Phagocytosis of Amyloid β Protein in Microglia

Hovde, M. J.; Maaser-Hecker, A.; Tanzi, R. E.

10.1101/2025.06.12.659424 — cell biology — Posted on 2025-06-15

2862 Functional rescue of a fatal ERAD mutation via alternative splicing

Wang, H.; Wang, Z.; Lin, L.; Verma, S.; Gniadzik, W.; Wang, H.; Li, Z.; Jiang, L.; Kuyumcu-Martinez, M.; Sun, S.; Qi, L.

10.1101/2025.06.13.659581 — cell biology — Posted on 2025-06-15

2863 The nucleus activates mechano-responsiveness via FHOD-associated LINC complexes

Antoku, S.; Gundersen, G. G.; Worman, H. J.; Morrow, J. P.; Joseph, L. C.; Fine, B. M.; Zhang, X.; Kushner, J.; Lin, C.-S.; Schwartz, T.; Dabhade, P.

10.1101/2025.06.13.659598 — cell biology — Posted on 2025-06-15

2864 Topologically-based parameter inference for agent-based model selection from spatiotemporal cellular data

Wenzel, A. R.; Haughey, P. M.; Nguyen, K. C.; Nardini, J. T.; Haugh, J. M.; Flores, K. B.

10.1101/2025.06.13.659586 — cell biology — Posted on 2025-06-15

2865 Occludin Acts as a Dynein Adaptor Regulating Permeability and Collateral Angiogenesis

Liu, X.; Su, E. J.; Dreffs, A.; Gillies, J. P.; Merlino, M.; Gao, L.; Peregoff, J. S.; Lin, C.-m.; Ross, M. E.; DeSantis, M. E.; Lawrence, D. A.; Antonetti, D. A.

10.1101/2025.06.12.659326 — cell biology — Posted on 2025-06-15

2866 PB-scope: Contrastive learning of dynamic processing body formation reveals undefined mechanisms of approved compounds

Shen, D.; Zhu, Q.; Pang, X.; Yang, X.; Pan, D.; Zhang, M.; Li, Y.; Sun, Z.; Fang, L.; Chen, W.; Tsuboi, T.

10.1101/2025.06.14.659731 — cell biology — Posted on 2025-06-15

2867 Native, Spatiotemporal Profiling of the Global Human Regulome

Pino, L. K.; Canzani, D.; Gutierrez, A.; Hubbard, E.; Broderick, E.; Prymolenna, A.; Mercenne, G.; Siebenthall, K.; Fondrie, W. E.; Robbins, J.; McEllin, B.; Takta, L.; Paez, J. S.; Federation, A. J.

10.1101/2025.06.14.659727 — cell biology — Posted on 2025-06-15

2868 The role of amygdala calcitonin gene-related peptide receptors on the development of persistent bladder pain in mice.

Lewter, L. A.; Paul, B. K.; Salazar, A. M.; Chatterjee, U. R.; Pham, H. P. T.; Khan, M. Z.; Schmitz, A. E.; Nofal, A. M.; Hussein, M. M.; Mysorekar, I. U.; Kolber, B. J.

10.1101/2025.06.10.658965 — neuroscience — Posted on 2025-06-15

2869 A connectomic resource for neural cataloguing and circuit dissection of the larval zebrafish brain

Petkova, M. D.; Januszewski, M.; Blakely, T.; Herrera, K. J.; Schuhknecht, G. F. P.; Tiller, R.; Choi, J.; Schalek, R. L.; Boulanger-Weil, J.; Peleg, A.; Wu, Y.; Wang, S.; Troidl, J.; Kumar Vohra, S.; Wei, D.; Lin, Z.; Bahl, A.; Tapia, J. C.; Iyer, N.; Miller, Z. T.; Hebert, K. B.; Pavarino, E. C.; Taylor, M.; Deng, Z.; Stingl, M.; Hockling, D.; Hebling, A.; Wang, R. C.; Zhang, L. L.; Dvorak, S.; Faik, Z.; King, K. I.; Goel, P.; Wagner-Carena, J.; Aley, D.; Chalyshkan, S.; Contreas, D.; Li, X.; Muthukumar, A. V.; Vernaglia, M. S.; Tapia Carrasco, T.; Melnychuck, S.; Yan, T.; Dalal, A.; DiMarti

10.1101/2025.06.10.658982 — neuroscience — Posted on 2025-06-15

2870 CTCF is crucial for decidualization of uterine stromal cells through facilitating HOXA11 expression

Yang, X.-Q.; Jiang, R.-F.; Zhang, A.-N.; Deng, Y.-M.; Tang, S.; Zhang, Q.-Y.; Xu, Y.-W.; Yang, S.-H.; Liu, J.-L.

10.1101/2025.06.10.658981 — physiology — Posted on 2025-06-15

2871 A Systematic Multi-LLM AI Framework for Immunotherapy Biomarker Discovery and Target Identification

Park, N.; Lee, J. H.

10.1101/2025.06.10.658988 — cancer biology — Posted on 2025-06-15

2872 ParB C-terminal lysine residues are essential for dimerization, in vitro DNA sliding and in vivo function

Aleshintsev, A.; Way, L. E.; Guerra, B.; Serwaa, L. A.; Molina, M.; Wang, X.; Kim, H.

10.1101/2025.06.10.659001 — biophysics — Posted on 2025-06-15

2873 Differential roles for the spindle assembly checkpoint in error surveillance and mitotic timing

Kim, R.; Su, K.-C.; Tsang, M. J.; Maier, N.; Moodie, B.; Cheeseman, I. M.

10.1101/2025.06.14.659703 — cell biology — Posted on 2025-06-15

2874 Scalable expansion and hepatic zone maturation of hepatic progenitor cells from human pluripotent stem cells

Ogawa, S.; Ogawa, M.; Liu, J. C.; Dadvar, A.; Tian, B.; Zhao, X.; Fernandes, I.; Minegishi, K.; Takase, K.; Higuchi, Y.; Suemizu, H.; McGilvray, I.; MacParland, S.; Bader, G.

10.1101/2025.06.13.659636 — cell biology — Posted on 2025-06-15

2875 Mitochondrial Dysfunction Drives Age-Related Degeneration of the Thoracic Aorta

Dhanekula, A. S.; Harrison, B.; Pharaoh, G.; Mattson-Hughes, A.; Tarantini, S.; Stuppard, R.; DeRoo, S.; Burke, C. R.; Hwang, B.; Pal, J. D.; Mulligan, M. S.; Marcinek, D.

10.1101/2025.06.13.659620 — cell biology — Posted on 2025-06-15

2876 Proximity labelling-based identification of vascular homing peptide receptors

Enno, R.; Haugas, M.; Pleiko, K.; Posnograjeva, K.; Teesalu, T.

10.1101/2025.06.14.659695 — cell biology — Posted on 2025-06-15

2877 A bipartite, mutation-tolerant NLS regulates interaction of ΔNp63α with importin alpha, nuclear transport and transcriptional activity

De Marinis, A.; Esmaeili, S.; Swarbrick, C. M. D.; Ranno, S.; Pavan, S.; Forwood, J. K.; McSharry, B. P.; Pal, M.; Di Iorio, E.; Alvisi, G.

10.1101/2025.06.12.659319 — cell biology — Posted on 2025-06-15

2878 Motor protein disruption critically alters organelle trafficking, NMJ formation, and excitation contraction coupling.

Bansal, H.; Hana, T. A.; Michael, A. H.; Kamaridinova, S.; Bransford, J. C.; Ormerod, K. G.

10.1101/2025.06.10.658915 — neuroscience — Posted on 2025-06-15

2879 Napping alters Functional Brain Responses in the Aged

Reyt, M.; Dourte, M.; DeHaan, S.; Deantoni, M.; Baillet, M.; Lesoinne, A.; Laloux, S.; Hammad, G.; Collette, F.; Peigneux, P.; Muto, V.; Vandewalle, G.; Bahri, M. A.; Phillips, C.; Schmidt, C.

10.1101/2025.06.10.657597 — neuroscience — Posted on 2025-06-15

2880 rAAV-miniBEND: A targeted vector for brain endothelial cell gene delivery and cerebrovascular malformation modeling

Li, J.-L.; Bi, Z.; Chen, X.-j.; Ming, T.; Qiu, B.; Li, F.; Feng, Z.; Ai, D.; Zhang, T.; Wang, J.; Lin, S.; Lu, Y.; Wang, Z.; Huang, J.; Zhao, F.; Zhao, H.; Wang, Y.; Sun, W.; Ge, W.-p.

10.1101/2025.06.10.658979 — neuroscience — Posted on 2025-06-15

2881 NanoBondy reacting through NeissLock anhydride allows covalent immune cell decoration

Vankayala, L. R.; Adoni, K. R.; Lim, S. Y.; Dushek, O.; Thalassinos, K.; Howarth, M. R.

10.1101/2025.06.14.659678 — synthetic biology — Posted on 2025-06-15

2882 EARLY RAINY SEASON PATTERNS OF FERN DIVERSITY AND ECOLOGICAL DISTRIBUTION IN AMURUM FOREST RESERVE, JOS PLATEAU.

Tumba, C. Y.; Samuel, G.; Ibrahim, I.; Abok, C. J.; Cleophas, A. B.; Chaskda, A. A.; Diffa, A. A.

10.1101/2025.06.10.659003 — plant biology — Posted on 2025-06-15

2883 Structural Determinants and Biochemical Characterization of LORELEI as a GPI-Anchored Protein

Palanivelu, R.; Wang, Y.; Liu, X.; Desnoyer, N. J.; Howard, G.

10.1101/2025.06.10.659000 — plant biology — Posted on 2025-06-15

2884 Unraveling cooperative and competitive interactions within protein triplets in the human interactome

Vagiona, A.-C.; Mier, P.; Andrade, M.

10.1101/2025.06.10.658265 — bioinformatics — Posted on 2025-06-15

2885 MEIOC prevents continued mitotic cycling and promotes meiotic entry during mouse oogenesis

Ushuhuda, E. G.; Nguyen, J. T.; Pfaltzgraff, N. G.; Kofron, M.; Mikedis, M. M.

10.1101/2025.06.12.659330 — developmental biology — Posted on 2025-06-15

2886 Parameter Optimization for Iterative MINFLUX Microscopy enabled Single Particle Tracking

Vogler, B. T. L.; De Angelis, G.; Zhao, Z.; Eggeling, C.; Reina, F.

10.1101/2025.06.10.658837 — biophysics — Posted on 2025-06-15

2887 Kinetic asymmetry drives kinesin-1's unidirectional and processive movement

Isojima, H.; Matsuzaki, K.; Tomishige, M.

10.1101/2025.06.11.659012 — biophysics — Posted on 2025-06-15

2888 Dissecting the biological impact of GBA1 mutations using multi-omics in an isogenic setting

Alvarez Jerez, P.; Wild Crea, P. A.; Patel, D.; Glasstetter, L. M.; Alvarez, C.; Makarious, M. B.; Lara, E.; Chen, Y.; Pantazis, C. B.; Paquette, K.; Malik, L.; Nalls, M. A.; Reed, X.; Singleton, A. B.; Billingsley, K. J.; Mcdonough, J. A.; Ning, G.; Skarnes, W. C.; Ryten, M.; Sidransky, E.; Cookson, M. R.; Beilina, S.; Blauwendraat, C.

10.1101/2025.06.12.656971 — genomics — Posted on 2025-06-15

2889 Organ-specific isolation of hepatocyte extracellular vesicles from human plasma enables tissue-resolved proteomic and miRNA profiling

Figueiras, R.; Vagueiro, S.; G.G Kay, R.; Persia, E.; de Alwis, R.; Hijazi, R.; Davidson, B.; Sanches-Kuiper, R.; Arsene, P.; Dias, T.

10.1101/2025.06.13.658908 — molecular biology — Posted on 2025-06-15

2890 Quantifying Misuse of Color in Biological Research

Lin, T.-J.; Hillman, K.; Kim, L.; Garg, M.; Duong, M.; Landry, M. P.

10.1101/2025.06.12.659203 — scientific communication and education — Posted on 2025-06-15

2891 PhysDock: A Physics-Guided All-Atom Diffusion Model for Protein-Ligand Complex Prediction

Zhang, K.; Ma, Y.; Yu, J.; Luo, H.; Lin, J.; Qin, Y.; Li, X.; Jiang, Q.; Bai, F.; Dou, J.; Zheng, J.; Yu, J.; Sun, L.

10.1101/2025.04.28.650887 — bioinformatics — Posted on 2025-06-15

2892 Fine-mapping methods for complex traits: essential adaptations for samples of related individuals

Wang, J.; Tiezzi, F.; Huang, Y.; Wei, J.; Maltecca, C.; Jiang, J.

10.1101/2021.10.10.463846 — genetics — Posted on 2025-06-15

2893 Structure of endogenous Pfs230:Pfs48/45 in complex with potent malaria transmission-blocking antibodies

Bekkering, E. T.; Yoo, R.; Hailemariam, S.; Heide, F.; Ivanochko, D.; Jackman, M.; Proellochs, N. I.; Stoter, R.; van Gemert, G.-J.; Maeda, A.; Yuguchi, T.; Wanders, O. T.; van Daalen, R. C.; Inklaar, M. R.; Andrade, C. M.; Jansen, P. W.; Vermeulen, M.; Bousema, T.; Takashima, E.; Rubinstein, J. L.; Kooij, T. W.; Jore, M. M.; Julien, J.-P.

10.1101/2025.02.14.638310 — molecular biology — Posted on 2025-06-15

2894 Early Postnatal Dysfunction of ACC PV Interneurons in Shank3B-/- Mice

Shih, Y.-C.; Nelson, L.; Janecek, M.; Matarazzo, M.; D'Agostino, A.; Peixoto, R. T.

10.1101/2024.10.04.616584 — neuroscience — Posted on 2025-06-15

2895 Integrative models of visually guided steering in Drosophila

Canelo, A.; Kim, H.; Kim, Y.; Park, J.; Kim, A.

10.1101/2023.10.11.561122 — neuroscience — Posted on 2025-06-15

2896 Estimation of stature from hand length and hand breadth in undergraduate medical students: An anthropometric study

Pandey, N.; Phuyal, N.; Shrestha, A.; Pandeya, A.; Mishra, A. K.; Bhusal, K.

10.1101/2025.06.03.657765 — systems biology — Posted on 2025-06-15

2897 Larger larval sea lamprey (Petromyzon marinus) have longer survival times when exposed to the lampricide 3-trifluoromethyl-4-nitrophenol

Nalesnik, A. M.; Martin, E. L.; Kovacs, I. S.; Johnson, C. S.; Carroll, E. I.; Jubar, A.; Hemstrom, W.; Wilkie, M. P.; Dunlop, E. S.; Sepulveda, M. S.; Johnson, N. S.; Christie, M. R.

10.1101/2025.01.10.632359 — evolutionary biology — Posted on 2025-06-15

2898 Widespread loss of sleep in independently evolved populations of wild-caught cavefish

North, O.; Maza-Castaneda, L. C.; Manning, A. E.; Rastogi, A.; Gluesenkamp, A.; Gluesenkamp, L.; Swanson, N.; Hernandez-Lozano, J.; Garduno-Sanchez, M.; Diaz-Cruz, J. A.; Kowalko, J. E.; McGaugh, S. E.; Keene, A. C.; Ornelas-Garcia, P.

10.1101/2024.10.29.619241 — evolutionary biology — Posted on 2025-06-15

2899 The WAVE complex forms linear arrays at negative membrane curvature to instruct lamellipodia formation.

Wu, M.; Marchando, P.; Meyer, K.; Tang, Z.; Woolfson, D. N.; Weiner, O. D.

10.1101/2024.07.08.600855 — cell biology — Posted on 2025-06-15

2900 Widespread variation in EDNRB2 is associated with diverse melanin loss phenotypes across avian species

Maclary, E. T.; Shapiro, M. D.

10.1101/2025.06.13.659395 — genetics — Posted on 2025-06-15

2901 Food seeking suppression by environmental enrichment accompanies cell type- and circuit-specific prelimbic cortical modulation

Peters, K. Z.; Agbude, R.; Steele, O. G.; Suto, N.; Koya, E.

10.1101/2025.06.11.659116 — neuroscience — Posted on 2025-06-15

2902 How Minds Take Shape: Graph-ESN Reveals How Neural Ensembles Engineer Stable Representations

Pottore, K. V.; Ponnambalam, A.

10.1101/2025.06.11.659086 — neuroscience — Posted on 2025-06-15

2903 Erratic Maternal Care Induces Avoidant-Like Attachment Deficits in a Mouse Model of Early Life Adversity

MacDowell Kaswan, Z.; Bowers, C.; Teplyakov, I.; Munoz-Martin, J.; Ahmed, S.; Kaffman, L.; Giuliano, L.; Dietrich, M. O.; Kaffman, A.

10.1101/2025.06.13.659607 — neuroscience — Posted on 2025-06-15

2904 Spectral Matched Filtering in the Butterfly Visuomotor System

Supple, J. A.; Cerkvenik, U.; Ilic, M.; Pirih, P.; Zkorjanc, A.; Belusic, G.; Krapp, H. G.

10.1101/2025.06.10.658887 — neuroscience — Posted on 2025-06-15

2905 PhyloControl: a phylogeny visualisation platform for risk analysis in weed biological control

Chen, S. H.; Stevens, L.; Gooden, B.; Rafter, M. A.; Knerr, N.; Thrall, P. H.; Ord, L.; Schmidt-Lebuhn, A. N.

10.1101/2025.06.11.658203 — plant biology — Posted on 2025-06-15

2906 Identification of CaVβ1 isoforms required for neuromuscular junction formation and maintenance

Vergnol, A.; Bourguiba, A.; Bauche, S.; Traore, M.; Gelin, M.; Gentil, C.; Pezet, S.; Saillard, L.; Meunier, P.; Lemaitre, M.; Perronnet, J.; Tores, F.; Gautier, C.; Guesmia, Z.; Allemand, E.; Batsche, E.; Pietri-Rouxel, F.; Falcone, S.

10.1101/2025.06.10.658789 — physiology — Posted on 2025-06-15

2907 Magnetic Particle Imaging Lymphography (MPIL): A novel technique for lymph node mapping

Fernando, N.; Sehl, O. C.; Fellows, B.; Saayujya, C.; Foster, P. J.

10.1101/2025.06.11.658392 — biophysics — Posted on 2025-06-15

2908 PHLAME: A benchmark for continuous evaluation of host phenotype prediction from shotgun metagenomic data

Barak, N.; Bhattacharya, H.; Asnicar, F.; Sung, J.; Segata, N.; Yassour, M.

10.1101/2025.06.12.658885 — bioinformatics — Posted on 2025-06-15

2909 Polygenic and monogenic adaptation drive evolutionary rescue at different magnitudes of environmental change

Bellagio, T.; Exposito-Alonso, M.

10.1101/2025.06.13.659553 — evolutionary biology — Posted on 2025-06-15

2910 Generalizing animal movement predictions across landscapes: a scalable framework grounded in empirical telemetry data

Chalkowski, K.; Sack, A.; Wittemyer, G.; Miller, R. S.; Boughton, R. K.; Snow, N. P.; Beasley, J. C.; Ditchkoff, S. S.; Evans, T. S.; Gray, S. M.; Lewis, J. S.; Parsons, M. A.; Vercauteren, K. C.; Webb, S. L.; Young, J. K.; Pepin, K. M.

10.1101/2025.06.12.658668 — ecology — Posted on 2025-06-15

2911 Directional growth of developing myelin mediated by Wnt gradient and required for proper axon functions

Liu, P.; Deng, Q.-S.; Chen, Q.; Chen, X.; Du, J.; He, C.

10.1101/2025.06.13.659097 — neuroscience — Posted on 2025-06-15

2912 Resolving a paradox about how vision is transformed into familiarity

Bohn, S.; Hacker, C. M.; Jannuzi, B. G. L.; Meyer, T.; Hay, M.; Rust, N. C.

10.1101/2025.06.13.659490 — neuroscience — Posted on 2025-06-15

2913 CCorGsDB: A Database for Clock Correlated Genes in the Mouse and Human Central Nervous Systems

Santos, J. L. A.; Pinto, V. T. B. C.; Santos, T. E. d. S.; Coimbra, D. G.; de Andrade, T. G.

10.1101/2025.06.11.659048 — neuroscience — Posted on 2025-06-15

2914 How Cells Tame Noise While Maintaining Ultrasensitive Transcriptional Responses

Jeong, E. M.; Chung, C. Y.; Kim, J. K.

10.1101/2025.06.12.659288 — systems biology — Posted on 2025-06-15

2915 Transient AMPK activation by nutrient stress of high fat diet preserves cardiac electrophysiological stability and protects against arrhythmias

Rudokas, M. W.; McKay, M.; Wu, X.; Granger, J. M.; Williams, Y.; Bogner, M.; Kang, T.; Seyfried, A.; Toksoy, Z.; Cacheux, M.; Young, L. H.; Akar, F. G.

10.1101/2025.06.11.658631 — physiology — Posted on 2025-06-15

2916 Automated High-Content, High-Throughput Spatial Analysis Pipeline for Drug Screening in 3D Tumor Spheroid Inverted Colloidal Crystal Arrays

Jeon, H.; Kim, G.; Carpenter, J.; Colon, Y.; Wang, Y.

10.1101/2025.06.10.658844 — cancer biology — Posted on 2025-06-15

2917 AI-Guided Design and AKT3 Degradation Synergize to Enhance Bispecific and Trispecific CAR-T Cell Persistence and Overcome Antigen Escape

Ansari, M. S.; Chauhan, V.; Akhtar, A.; Chaudhary, N.; Tyagi, R.; Divya, ; Husain, K.; Singh, A.; Sharma, S.; Alam, R.; Md Shakir, ; Pracha, M.; Anjum, S.; Mohd Nadeem, ; Faizan, M. I.; Azmi, I.; Iyer, A. R.; Gupta, P.; Nafiz, M.; Ali, S.; Ud din, I. M.; Javid, M.; Kuma P, H.; Srivastava, A. K.; Mabalirajan, U.; Mathews, V.; Ramalingam, S.; Kharya, G.; Ahmad, T.

10.1101/2025.06.12.658477 — cancer biology — Posted on 2025-06-15

2918 DNA origami-based platform for multi-axial single-molecule force spectroscopy reveals hidden dynamics in Holliday junctions

Wisna, G. B. M.; Saurabh, A.; Sasmal, R.; Karna, D.; Chopade, P.; Presse, S.; Hariadi, R. F.

10.1101/2025.06.10.658941 — biophysics — Posted on 2025-06-15

2919 Backbone Rigidity Encodes Universal Viscoelastic Signatures in Biomolecular Condensates

Yang, S.; Biswas, S.; Potoyan, D. A.

10.1101/2025.06.10.658939 — biophysics — Posted on 2025-06-15

2920 Simulating Iron Deficiency in Plant Plastids With a Flexible Physics-Informed Neural Network Approach

El Alaoui, S.; Henry, C. S.; Paape, T.; Xie, M.; Seaver, S. M.

10.1101/2025.06.10.658179 — bioinformatics — Posted on 2025-06-15

2921 MemPPI platform for measuring and engineering membrane protein-protein interactions in mammalian cells via split nanoluciferase

Tang, W.; Jojoa-Cruz, S.; Li, J.; Mravic, M.

10.1101/2025.06.10.658938 — bioengineering — Posted on 2025-06-14

2922 Capture-C MPRA: A high-throughput method to simultaneously characterize promoter interactions and regulatory activity

Arnould, C.; Keukeleire, P.; Inoue, F.; Cui, X.; An, K.; Murray, E.; Zhang, X.; Drmanac, R.; Peters, B.; Shendure, J.; Shen, Y.; Kircher, M.; Ahituv, N.

10.1101/2025.06.11.658967 — genomics — Posted on 2025-06-14

2923 Multifaceted evolution of dental morphology during the diversification of the bat superfamily Noctilionoidea

Lopez Aguirre, C.; Ballen, G.; Hand, s. J.; Silcox, M. T.

10.1101/2025.06.10.658888 — evolutionary biology — Posted on 2025-06-15

2924 Spatial autocorrelation of species diversity and distributions in time and across spatial scales

Soria, C. D.; Ortega, G. R.; Wolke, F. J. R.; Bartak, V.; Tschernosterova, K.; Bejcek, V.; Herrando, S.; Mikulas, I.; Stastny, K.; Ueta, M.; Vorisek, P.; Keil, P.

10.1101/2025.06.13.659470 — ecology — Posted on 2025-06-15

2925 Unraveling the diversity and functional potential of cyanosphere microbiomes assembled from terrestrial cyanobacteria

Palmer, B.; Couradeau, E.; Johansen, J.; Kurbessoian, T.; Ortega Carranza, J.; Stajich, J. E.; Ward, R.; Pietrasiak, N.

10.1101/2025.06.10.658773 — ecology — Posted on 2025-06-15

2926 Cell type specific CaMKII activation patterns revealed by CaMKAR, a bioactivity reporter deployable in living cells

Severino, A.; Reyes Gaido, O. E.; Liu, B.; Lopez-Cecetaite, G. A.; Wei, A.-C.; Rosales-Soto, G.; Hernandez-Ochoa, E. O.; Luczak, E. D.

10.1101/2025.06.11.658946 — molecular biology — Posted on 2025-06-15

2927 Teleost-specific ictacalcins exhibit similar structural organization, cation-dependent activation and transcriptional regulation as human S100 proteins

Hernandez, L.; Paris, T.; Demou, M.; Birck, C.; Begon-Pescia, C.; Rodriguez-Vidal, J. F.; Tyrkalska, S.; Bureau, C.; Gonzalez, C.; Gracia, J.; Lelievre, E.; Mulero, V.; Chi, M. N.; YATIME, L.

10.1101/2025.06.10.658860 — immunology — Posted on 2025-06-14

2928 An open dataset of cerebral tau deposition in young healthy adults based on MK6240 positron emission tomography

Lam, J.; Rodriguez-Cruces, R.; Arafat, T.; Royer, J.; Chen, J.; Dascal, A.; Sahlas, E.; Pana, R.; Hopewell, R.; Hsiao, C. H.-H.; Massarweh, G.; Soucy, J.-P.; Villeneuve, S.; Caciagli, L.; Koepp, M.; Bernasconi, A.; Bernasconi, N.; Bernhardt, B.

10.1101/2025.06.13.655622 — neuroscience — Posted on 2025-06-14

2929 An Adaptive Visuomotor Transformation Reservoir Embedded in the Vertebrate Brain

Qian, Y.; Li, S.; Chen, M.-C.; Du, X.; Du, J.

10.1101/2025.06.10.658856 — neuroscience — Posted on 2025-06-14

2930 The geometry of cortical sound processing in slow wave sleep

Muller, A.; Filipchuk, A.; Bagur, S.; Bathellier, B.

10.1101/2025.06.13.658070 — neuroscience — Posted on 2025-06-14

2931 Sexually-dimorphic neurons in the Drosophila whole-brain connectome

Deutsch, D.; Matsliah, A.; Wang, K.; Dorkenwald, S.; Mondal, A.; Burke, A.; Hebditch, J.; Gager, J.; Yu, S.-C.; Sterling, A.; MkKellar, C.; Schlegel, P.; Gerhard, S.; Sterne, G.; Costa, M.; Eichler, K.; Yin, Y.; Jefferis, G. S. X. E.; Seung, H. S.; Murthy, M.

10.1101/2025.06.10.658788 — neuroscience — Posted on 2025-06-14

2932 Cocaine withdrawal enhances subthalamic reward sensitivity

Williams, M.; Vielle, C.; de Peretti, J.-L.; Tiran-Cappello, A.; Melon, C.; Awada, A.; Pelloux, Y.; Maurice, N.; BAUNEZ, C.; Degoulet, M.

10.1101/2025.06.10.658581 — neuroscience — Posted on 2025-06-14

2933 Continuous flashing suppression of V1 responses and the perceptual consequences revealed via two-photon calcium imaging and transformer modeling

Chen, C.-X.; Wang, X.; Jiang, D.-Q.; Tang, S.; Yu, C.

10.1101/2025.06.13.658791 — neuroscience — Posted on 2025-06-14

2934 A quantitative comparison of two methods for higher-order EEG microstate syntax analysis

von Wegner, F.; Hermann, G.; Toedt, I.; Todtenhaupt, I. K.; Laufs, H.

10.1101/2025.06.11.658518 — neuroscience — Posted on 2025-06-14

2935 Decoupling simultaneous motor imagination and execution via orthogonal ECoG neural representations

Pollina, L.; Struber, L.; de Seta, V.; Russo, E.; Karakas, S.; Chabardes, S.; Aksenova, T.; Charvet, G.; Shokur, S.; Micera, S.

10.1101/2025.06.13.659445 — neuroscience — Posted on 2025-06-14

2936 Fos labels a distinct excitatory neuron ensemble for memory retrieval

Ding, N.; Sun, Q.; Wu, C.; Xiao, Y.; Li, Y.; Wang, X.; Shu, Y.; Yuan, P.

10.1101/2025.06.14.659414 — neuroscience — Posted on 2025-06-14

2937 Biomarkers in cerebrospinal fluid sediments

Alsina, R.; Riba, M.; Sartorio, M.; Romera, C.; Vilaplana, B.; Prats, E.; Molina-Porcel, L.; del Valle, J.; Pelegri, C.; Vilaplana, J.

10.1101/2025.06.10.657984 — neuroscience — Posted on 2025-06-14

2938 A CRISPR-CAS9 high throughput machine-learning platform for modulation of genes involved in Parkinson's disease-associated PINK1-mitophagy in iPSC-derived dopaminergic neurons

Soutar, M. P. M.; Carbone, B.; Kindalova, P.; Mehrizi, R.; Lopes, F. M.; Lam, N.; Rockliffe, A.; Braybrook, T.; Taylor, M.; Nguyen, C.; Ducotterd, F.; Reith, A. D.; Mohamet, L.; Plun-Favreau, H.

10.1101/2025.06.10.658840 — neuroscience — Posted on 2025-06-15

2939 Disruption of GABA-Regulated Network Resilience in Human Cerebral Organoids Leads to Fragmented Small-World States and Reduced Connectivity

Ayalavarapu, S.; Smith, N.; Lybrand, Z. R.

10.1101/2025.06.11.659143 — neuroscience — Posted on 2025-06-15

2940 Mapping 3D Heterogeneity of Thyroid Tumors Using Micro-CTbased Radiomics

Tajbakhsh, K.; Stanowska, O.; Buljan, M.; Neels, A.; Perren, A.; Zboray, R.

10.1101/2025.06.13.658854 — pathology — Posted on 2025-06-14

2941 Spatial analysis reveals a novel inflammatory tumor transition state which promotes a macrophage-driven induction of sarcomatoid renal cell carcinoma

May, A. M.; Kadomoto, S.; Williams, C.; Soupir, A. C.; The, S.; McGue, J. J.; Robinson, T.; Shelley, G.; Hayes, M. T.; Fridley, B. L.; Balasi, J. A.; Ramos Echevarria, P. M.; Dhillon, J.; Nallandhighal, S.; Acharyya, S.; Chen, L.; Aldous, J.; Schurman, N.; Baladandayuthapani, V.; Frankel, T. L.; Salami, S. S.; Manley, B. J.; Mehra, R.; Udager, A. M.; Keller, E. T.

10.1101/2025.06.12.656421 — cancer biology — Posted on 2025-06-14

2942 Breaking Through Biology's Data Wall: Expanding the Known Tree of Life by Over 10x using a Global Biodiscovery Pipeline

Vince, O.; Oldach, P.; Pereno, V.; Leung, M. H. Y.; Greco, C.; Minto-Cowcher, G.; Ur-Rehman, S.; Kam, K. Y. K.; Chow, W.; Bolton, E.; Mwambingu, B. R.; Greenhalgh, N. L.; Knot, I. E.; Christoffersen, L.; Clark, M.; Pecoraro, R.; Kollasch, A. W.; Bohnuud, T.; Bakalar, M.; Lorenz, P.; Gowers, G.

10.1101/2025.06.11.658620 — genomics — Posted on 2025-06-14

2943 MLMarker: A machine learning framework for tissue inference and biomarker discovery

Claeys, T.; van Puyenbroeck, S.; Gevaert, K.; Martens, L.

10.1101/2025.06.10.658642 — bioinformatics — Posted on 2025-06-14

2944 Intratumoral heterogeneity in microsatellite instability status at single cell resolution

Anthony, H.; Seoighe, C.

10.1101/2025.06.11.658021 — bioinformatics — Posted on 2025-06-14

2945 Engineered AAV9 as in vivo gene delivery platform for the selective transduction of TME cell subsets

Demircan, M. B.; Strassheimer, F.; Zinser, L. J.; Elleringmann, P.; John, F.; Thalheimer, F. B.; Steinbach, J. P.; Oellerich, T.; Burger, M. C.; Buchholz, C. J.

10.1101/2025.06.11.658408 — bioengineering — Posted on 2025-06-14

2946 Awake and hungry: artificial light at night disrupts behaviour and reproductive ecology in a wild migratory bird

Champenois, J.; Diaz-Palma, S.; Di Lecce, I.; Cichon, M.; Gustafsson, L.; Sudyka, J.

10.1101/2025.06.10.658843 — ecology — Posted on 2025-06-14

2947 Factors influencing birch (Betula spp.) age distribution in Norway: Insights from tree ring data

Vergarechea, M.; Anton Fernandez, C.; Jepsen, J.; Vindstad, O. P.; Astrup, R.

10.1101/2025.06.10.658859 — ecology — Posted on 2025-06-14

2948 A novel bio-inspired passive selective cutting mechanism for cutting surgical tools and other material-selective applications

Verdaguer Mallorqui, M.; Vincent, J. F. V.; Liston, A.; Blagoderov, V.; Desmulliez, M. P. Y.

10.1101/2025.06.10.658779 — bioengineering — Posted on 2025-06-14

2949 Small RNA ASpks2 Promote Mycobacterium tuberculosis Survival in Macrophages via Targeting Polyketide Synthase 2

Wu, Q.; yang, m.; Bi, l.; Chen, Y.; Yu, W.; ge, F.

10.1101/2025.06.14.659662 — microbiology — Posted on 2025-06-14

2950 Rational Generation of Monoclonal Antibodies and Intrabodies Selective for Pathogenic TDP-43

Zhao, B.; Louadi, S.; Coutts, J. A.; Gibbs, E.; Huang, M. Y.; Marina, R. J.; Aigner, S.; Alam, P.; DeMarco, M. L.; Mackenzie, I. R.; Djikstra, A. A.; Caughey, B.; Yeo, G. W.; Kaplan, J. M.; Cashman, N. R.

10.1101/2025.06.10.658846 — immunology — Posted on 2025-06-14

2951 Mitochondrial Bioenergetic Failure in SLE Immunocytes: Targeting Fitness for Therapy

Yennemadi, A. S.; Jordan, N.; Diong, S.; Little, M.; Keane, J.; Leisching, G.

10.1101/2025.06.10.658845 — immunology — Posted on 2025-06-14

2952 Gene and cell line efficiency of CRISPR computed by tensor decomposition in genome-wide CRISPR-Cas9 knockout screens

Taguchi, Y.-h.; Turki, T.

10.1101/2025.06.12.659265 — bioinformatics — Posted on 2025-06-14

2953 All-Atom Protein Sequence Design using Discrete Diffusion Models

Villegas-Morcillo, A.; Admiraal, G. J.; Reinders, M. J. T.; Weber, J. M.

10.1101/2025.06.13.659451 — bioinformatics — Posted on 2025-06-14

2954 MitoDelta: identifying mitochondrial DNA deletions at cell-type resolution from single-cell RNA sequencing data

Nakagawa, H.; Shima, Y.; Sasagawa, Y.; Nikaido, I.

10.1101/2025.06.10.658806 — bioinformatics — Posted on 2025-06-14

2955 Cell-free RNA reveals host and microbial correlates of broadly neutralizing antibody development against HIV

Kowarsky, M.; Moufarrej, M. N.; Okamoto, J.; Xie, Y.; Neff, N. N.; Abdool Karim, S. S.; Garrett, N. J.; Moore, P. L.; Camunas-Soler, J.; Quake, S. R.

10.1101/2025.06.10.658831 — genomics — Posted on 2025-06-14

2956 RWKV-IF: Efficient and Controllable RNA Inverse Folding via Attention-Free Language Modeling

Ji, G.; Xu, K.; Zheng, C.

10.1101/2025.06.13.659654 — bioengineering — Posted on 2025-06-14

2957 LucID: A Self-Activating Bioluminescent Biotin Ligase for Light-Free Proximity Labeling in Deep Tissues

Taheri Kal-Koshvandi, A.

10.1101/2025.06.10.658826 — bioengineering — Posted on 2025-06-14

2958 The metabolic kinase LKB1 shapes the enteric nervous system bymitigating the oxidative stress and p53 activity

Lucas, A.; Appaix, F.; Allard, J.; Mevel-Aliset, M.; Radu, A. G.; Fauvelle, F.; Favier, B.; Grichine, A.; Maurer, J.; Hainaut, P.; Attardi, L. D.; Billaud, M.; Torch, S.; Thibert, C.

10.1101/2025.06.10.658770 — developmental biology — Posted on 2025-06-14

2959 Epigenetic regulation of cilia stability and kidney by the chromatin remodeling SWI/SNF complexes

Cheng, X.; Zhu, Q.; Ma, S.; Peng, X.; Huang, G.; Liu, g.; Zhang, W.; Zhang, Y.; Jiang, C.; Qiu, A.; Cao, Y.

10.1101/2025.06.10.658863 — developmental biology — Posted on 2025-06-14

2960 Self-amplifying mRNA expression is governed by mitochondrial machinery and ACSL4

F. Tshering, L.; Wang, C.; Xiang, Q.; Kundu, S.; Solorzano, A.; Chaparro-Riggers, J.; Lin, L.; Paksa, A.

10.1101/2025.06.13.659366 — molecular biology — Posted on 2025-06-14

2961 Accumulation of SA-βGal High Cells in Human Naive T Cell Compartments Reveals a Stress-Adapted, Senescent-Like State

Alexandru, A. C.; Hormazabal, G. V.; Matsui, H.; Kasler, H.; Lore, S.; Aguirre, C. G.; Roberts, A.; Heckenbach, I. J.; Tiwari, R.; Kwok, R.; Becker, S.; Verdin, E.

10.1101/2025.06.10.658841 — immunology — Posted on 2025-06-14

2962 Synthetic Rewiring of Virus-Like Particles via Circular Permutation Enables Modular Peptide Display and Protein Encapsulation

Liang, S.; Butaney, K.; de Castro Assumpcao, D.; Jung, J.; Kennedy, N. W.; Tullman-Ercek, D.

10.1101/2025.06.13.659512 — synthetic biology — Posted on 2025-06-14

2963 Inducible genome-wide mutagenesis for improvement of pDNA production by E. coli

Li, Z.; Sun, G.; Zhou, Y.-H.; Crook, N.

10.1101/2025.06.13.659583 — synthetic biology — Posted on 2025-06-14

2964 Multi-selective RAS(ON) Inhibition Targets Oncogenic RAS Mutations and Overcomes RAS/MAPK-Mediated Resistance to FLT3 and BCL2 Inhibitors in Acute Myeloid Leukemia

Popescu, B.; Jones, M. F.; Piao, M.; Tran, E.; Koh, A.; Lomeli, I.; Peretz, C. A. C.; Murad, N.; Abelson, S.; Morales, C.; Rivera, J. M.; Pikman, Y.; Cheng, M. L.; Logan, A. C.; Stieglitz, E.; Smith, C. C.

10.1101/2025.06.10.658786 — cancer biology — Posted on 2025-06-14

2965 A computational analysis of the glycoprotein LRP1 structure and the role of glycans as quaternary glue

Tuveri, G. M.; Basile, M.; Acosta Gutierrez, S.; Kausas, M.; Tian, X.; Franzese, G.; Ruiz Perez, L.; Battaglia, G.

10.1101/2025.06.10.658798 — biophysics — Posted on 2025-06-14

2966 Conformational dynamics of the active state of β-arrestin 1

Ngo, V.; Asher, W. B.; Javitch, J. A.; Shi, L.

10.1101/2025.06.10.658911 — biophysics — Posted on 2025-06-14

2967 A fluorescent probe for the enzymatic activity of KATP

Rubio, P.; Whitaker, S. Q.; Ashby, J.; Puljung, M. C.

10.1101/2025.06.10.658839 — biophysics — Posted on 2025-06-14

2968 Local optogenetic control of genome editing and tumorigenesis in vivo using wireless implantable optoelectronics

Bansal, T.; Lee, M.-K.; Coleman, C.; Kim, Y.-M.; Chen, Y.; Haney, C. R.; David, O.; Sreekanth, V.; Avila, R.; Matsche, J.; Vijeth, S.; Hintermueller, D.; Yamagishi, K.; Kang, J.; Mowry, K.; Kim, M.; Liu, Y.; Toth, P. T.; Lee, S. S.-Y.; Loh, S.; Clark, S.; Huynh, H.; Kim, Y.; Banks, A. R.; Huang, Y.; Good, C. H.; Rehman, J.; Rogers, J. A.; Karginov, A. V.

10.1101/2025.06.12.659214 — bioengineering — Posted on 2025-06-14

2969 Enhanced Sampling on Domain/Motif Level with Kinetic Accelerated Molecular Dynamics

Wei, H.

10.1101/2025.06.14.659665 — biochemistry — Posted on 2025-06-14

2970 Assessing the Suitability of Deubiquitylases As Substrates For Targeted Protein Degradation

Tong, J.; Watkins, J. M.; Burke, J.; Kodadek, T.

10.1101/2025.06.13.659525 — biochemistry — Posted on 2025-06-14

2971 Changes in DNA methylation after trauma processing and meditation in a large group setting of 1.6 years duration (Timeless Wisdom Training)

Gruenwald, M.; De Landtsheer, S.; Huebl, T.; Sauter, T.

10.1101/2025.06.10.658799 — genomics — Posted on 2025-06-14

2972 Swine reporter model for preclinical evaluation and characterization of gene delivery vectors

Campbell, J.; Korpela, D.; Han, H.; Zhao, S.; Webster, D.; Nguyen, Y. A.; Aune, R.; Dagan, H.; Milliken, R.; Watts, J.; Murthy, N.; Carlson, D.

10.1101/2025.06.13.659546 — genetics — Posted on 2025-06-14

2973 Conditions enabling the persistence of cooperating ribozymes without cellular encapsulation

Peng, Z.; Plum, A. M.; Kartha, R.; Jacobson, E. M.; Baum, D. A.

10.1101/2025.06.10.658808 — evolutionary biology — Posted on 2025-06-14

2974 Tagging fluorescent reporter to epinecidin-1 antimicrobial peptide

Kumarasamy, A.; Jeyarajan, S.

10.1101/2025.06.12.659415 — molecular biology — Posted on 2025-06-14

2975 Rapid microbiology instrumentation for high-accuracy quantitative water safety assessments in remote and low-resource locations

Angelescu, D. E.; Abi Saab, D.; Vilana, E.; Haguet, M.; Knoche, F.; Caradot, N.; Seis, W.

10.1101/2025.06.13.659038 — microbiology — Posted on 2025-06-14

2976 Microbial Diversity and Community Shifts in a Petroleum Reservoir under Production: Effects of Water Breakthrough and Anthropogenic Alterations

Alibrandi, A.; Plewka, J.; di Primio, R.; Bartholomaeus, A.; Vuillemin, A.; Probst, A. J.; Kallmeyer, J.

10.1101/2025.06.13.659474 — microbiology — Posted on 2025-06-14

2977 Multi-omics profiling reveals atypical sugar utilization and identifies a key membrane composition regulator in Streptococcus pneumoniae

de Bakker, V.; Liu, X.; Tang, J.; Barbisan, M.; Baker, J. L.; Veening, J.-W.

10.1101/2025.06.13.659575 — microbiology — Posted on 2025-06-14

2978 Vicennial metagenomic time series unveils evolutionary dynamics of giant viruses in a freshwater ecosystem

Vasquez, Y.; Romero-Gutierrez, M. F.; Bower, R.; Rohwer, R. R.; McMahon, K.; Woyke, T.; Schulz, F.

10.1101/2025.06.13.655548 — microbiology — Posted on 2025-06-14

2979 fMRI-Based CSF Flow Quantification Identifies Cardiac Pulsatility as the Dominant Driver Over Respiratory and Slow Vasomotion Cycles

Soderstrom, P.; Bjornfot, C.; Andersson, B. M.; Malm, J.; Eklund, A.; Wahlin, A.

10.1101/2025.06.10.658005 — neuroscience — Posted on 2025-06-14

2980 Mitochondrial calcium influx-driven bioenergetics in the dopaminergic system selectively enable drug reward

Gao, J.; Zhao, H.; Han, X.; Zeng, L.; Liu, G.; Wei, X.; Liu, C.; Wu, W.; Chen, S.; Chen, J.; Li, T.; Yin, J.; Zhou, T.; Zhang, X.-M.; Li, A.-L.; Li, T.; Pan, X.

10.1101/2025.06.10.658191 — neuroscience — Posted on 2025-06-14

2981 P2Y2 receptors are essential for hepatic clearance ofuropathogenic E. coli in a murine sepsis model

Christensen, M. G.; Johnsen, N.; Sparsoe, L. V.; Corydon, T.; Praetorius, H.

10.1101/2025.06.10.658777 — physiology — Posted on 2025-06-14

2982 Micromapping (μMap) of HER2 Across Human Breast Cancers: Photocatalytic Proximity Labeling Identifies Primary Resistance Mechanisms and Functional Interactors

Knutson, S. D.; Boyer, J. A.; Morgan, D. C.; Grosskopf, J. J.; Rabinowitz, J. D.; MacMillan, D.

10.1101/2025.06.10.658685 — cancer biology — Posted on 2025-06-14

2983 MMP release following cartilage injury leads to collagen loss in intact tissue - a computational study

Hamada, M. A.; Eskelinen, A. A.; Kosonen, J. P.; Florea, C.; Grodzinsky, A.; Tanska, P.; Korhonen, R. K.

10.1101/2025.06.10.658780 — biophysics — Posted on 2025-06-14

2984 Emergence of Dual β-lactam and Colistin Resistance via blaFRI-8 and mcr10.2 co-carriage on an IncFII Family Plasmid in Enterobacter vonholyi

Kovarova, A.; Ryan, K.; Tumeo, A.; McDonagh, F.; Clarke, C.; Cormican, M.; Miliotis, G.

10.1101/2025.06.13.659522 — microbiology — Posted on 2025-06-14

2985 Concordance and dissonance: A genome-wide analysis of self-declared versus inferred ancestry in 10,250 participants from the HostSeq cohort

Warren, R. L.; Birol, I.

10.1101/2025.06.10.658783 — genomics — Posted on 2025-06-14

2986 Uncovering Host-Parasite Dynamics: Gene Expression Shifts in Hematodinium-infected Chionoecetes bairdi in Response to Temperature Change

Coyle, A. E.; White, S. J.; Crandall, G.; Jensen, P. C.; Roberts, S.

10.1101/2025.06.05.658092 — molecular biology — Posted on 2025-06-14

2987 Residues Neighboring an SH3-Binding Motif Participate in the Interaction In Vivo

Jordan, D. F.; Dube, A. K.; Dionne, U.; Bradley, D.; Landry, C. R.

10.1101/2024.05.13.593936 — systems biology — Posted on 2025-06-14

2988 AI-Based Antibody Design Targeting Recent H5N1 Avian Influenza Strains

Santolla, N. F.; Ford, C. T.

10.1101/2025.04.24.650061 — synthetic biology — Posted on 2025-06-14

2989 Bacterial metabolism of tryptophan causes toxicity in Caenorhabditis elegans

Gahlot, S.; Subodh, S.; Singh, J.

10.1101/2025.06.09.658597 — physiology — Posted on 2025-06-14

2990 Epigenetic reprogramming of autophagy leads to uncovering a novel therapeutic target for mutant IDH1 astrocytomas

Nunez, F. J.; Banerjee, K.; Mujeeb, A. A.; Mauser, A.; Tronrud, C. E.; Zhu, Z.; Raghuram, S.; Sheth, M. R.; Pena Agudelo, J. A.; Zelaya, J.; Taher, A.; Kadiyala, P.; Carney, S. V.; Garcia-Fabiani, M. B.; Comba, A.; Alghamri, M. S.; McClellan, B. L.; Faisal, S. M.; Nwosu, Z. C.; Hong, H. S.; Sajjakulnukit, P.; Qin, T.; Sartor, M. A.; Ljungman, M.; Welch, J. D.; Cheng, S.-Y.; Lowenstein, P. R.; Lahann, J.; Lyssiotis, C. A.; Castro, M.

10.1101/2024.03.08.584091 — cancer biology — Posted on 2025-06-14

2991 Rhagovelia uses interfacial run-and-tumble locomotionto improve food capture in flowing environments

Tiwari, I.; Nagappan, N.; Harrison, J. S.; Bhamla, S.

10.1101/2025.04.03.647112 — biophysics — Posted on 2025-06-14

2992 xIV-LDDMM Toolkit: A Suite of Image-Varifold Based Technologies for Representing and Mapping 3D Imaging and Spatial-omics Data Simultaneously Across Scales

Stouffer, K.; Chen, X.; Zeng, H.; Charlier, B.; Younes, L.; Trouve, A.; Miller, M. I.

10.1101/2024.11.04.621983 — bioengineering — Posted on 2025-06-14

2993 Lifetime fitness benefits of breeding site fidelity and low costs of inbreeding permit inbreeding tolerance in an avian cooperative breeder

Shah, S.; Diamond, J.; Barve, S.; Cosgrove, E. J.; Bowman, R.; Fitzpatrick, J. W.; Chen, N.

10.1101/2024.09.21.614049 — animal behavior and cognition — Posted on 2025-06-14

2994 Beyond Recombination: Exploring the Impact of Meiotic Frequency on Genome-wide Genetic Diversity

OLLIVIER, L.; Charlesworth, B.; Pouyet, F.

10.1101/2025.03.11.642586 — genetics — Posted on 2025-06-14

2995 Genomic comparisons shed light on the adaptive basis of brain size plasticity and chromosomal instability in the Eurasian common shrew

Thomas, W. R.; Lama, T. M.; Moreno-Santillan, D.; Farre, M.; Baldoni, C.; Abueg, L.; Balacco, J.; Fedrigo, O.; Formenti, G.; Jain, N.; Mountcastle, J.; Tilley, T.; Tracey, A.; Ray, D. A.; Dechmann, D. K. N.; von Elverfeldt, D.; Nieland, J.; Corthals, A. P.; Jarvis, E.; Davalos, L. M.

10.1101/2025.04.11.648246 — evolutionary biology — Posted on 2025-06-14

2996 Stochastic fluctuations of the facultative endosymbiont Wolbachia due to finite host population size

Graham, J. M.; Klobusicky, J.; Hague, M.

10.1101/2025.02.19.638912 — evolutionary biology — Posted on 2025-06-14

2997 Diversity and Community Structure of Collembola (Hexapoda) across sites and microhabitats in the Bula Protected Area, a UNESCO-Listed Hyrcanian Forest at the Crossroads of Two Biodiversity Hotspots (Iran).

Tully, T.; Shayanmehr, M.; Yoosefi Lafooraki, E.; Ghajar Sepanlou, M.; D'Haese, C.

10.1101/2025.05.20.650270 — ecology — Posted on 2025-06-14

2998 Intracellular pH regulates beta-catenin with low pH increasing adhesion and signaling functions

Czowski, B. J.; Marchi, A. N.; White, K. A.

10.1101/2024.03.22.586349 — cell biology — Posted on 2025-06-14

2999 Codon decoding by split-tRNA: revisiting the tRNA selection mechanism

Mureev, S.; Wu, Y.; Cui, Z.; Alexandrov, K.

10.1101/2024.11.24.624523 — molecular biology — Posted on 2025-06-14

3000 A global map of the Zika virus phosphoproteome reveals host-driven regulation of viral budding and cytopathogenicity

Manuelyan, I.; Schmoker, A. M.; Yount, B. L.; Eisenhauer, P.; Keller, J. I.; Gold, C.; Terino, D.; Ziegler, C. M.; Alexander, J.; Driscoll, H. E.; Hutchinson, E.; Bhella, D.; Syme, C. D.; Widman, D. G.; Heise, M. T.; Baric, R. S.; Ballif, B. A.; Botten, J. W.

10.1101/2021.11.24.469793 — microbiology — Posted on 2025-06-14

3001 HIV broadly neutralizing antibody escape dynamics drive the outcome of AAV vectored immunotherapy in humanized mice

Galvez, N. M. S.; Nitido, A. D.; Yoo, S. B.; Cao, Y.; Deal, C. E.; Boutros, C. L.; MacDonald, S. W.; Soto Albrecht, Y. E.; Lam, E. C.; Sheehan, M. L.; Parsons, D.; Lin, A. Z.; Deymier, M. J.; Brady, J. M.; Moon, B.; Bullock, C. B.; Tanno, S.; Pegu, A.; Chen, X.; Liu, C.; Koup, R. A.; Mascola, J. R.; Vrbanac, V. D.; Lingwood, D.; Balazs, A. B.

10.1101/2024.07.11.603156 — microbiology — Posted on 2025-06-14

3002 The Ambiguous Genetic Code of Methanogenic Archaea that Grow on Methylamines

Shalvarjian, K. E.; Chadwick, G.; Perez, P. I.; Woods, P.; Orphan, V. J.; Nayak, D. D.

10.1101/2025.06.11.659114 — microbiology — Posted on 2025-06-14

3003 Clover-like object vector representations support human spatial cognition

Becu, M.; Krasovec, I. M.; Saldanha, P.; Whitlock, J.; Doeller, C. F.

10.1101/2025.04.18.649400 — neuroscience — Posted on 2025-06-14

3004 Neural signatures of automatic letter-speech sound integration in literate adults

Xu, W.; Li, X.; Kolozsvari, O.; Sorsa, A.; Nokia, M.; Hamalainen, J.

10.1101/2025.06.09.658589 — neuroscience — Posted on 2025-06-14

3005 Humanized Caffeine-Inducible Systems for Controlling Cellular Functions

Scheller, L.; Elia, M.; Bonati, L.; Kang, C.; Gainza, P.; Garodia, Y.; Deshpande, P.; Schmidt, J.; Georgeon, S.; Tang, L.; Correia, B.

10.1101/2025.06.13.659463 — synthetic biology — Posted on 2025-06-14

3006 Deciphering the Molecular Mechanisms of BPTF Interactions with Nucleosomes via Molecular Simulations

Hebert, R.; Wereszczynski, J.

10.1101/2025.02.25.640153 — biophysics — Posted on 2025-06-14

3007 Polyphosphate Discriminates Protein Conformational Ensembles More Efficiently than DNA Promoting Diverse Assembly and Maturation Behaviors

Goyal, S.; Rajendran, D.; Mani, A. K.; Naganathan, A. N.

10.1101/2024.10.21.619443 — biophysics — Posted on 2025-06-14

3008 Atomistic Simulation of Voltage Activation of a Truncated BK Channel

Jia, Z.; Chen, J.

10.1101/2025.01.08.631907 — biophysics — Posted on 2025-06-14

3009 Boosting protein graph representations through static-dynamic fusion

Guo, P.; Correia, B.; Vandergheynst, P.; Probst, D.

10.1101/2025.02.04.636233 — bioinformatics — Posted on 2025-06-14

3010 MPAC: a computational framework for inferring pathway activities from multi-omic data

Liu, P.; Page, D.; Ahlquist, P.; Ong, I. M.; Gitter, A.

10.1101/2024.06.15.599113 — bioinformatics — Posted on 2025-06-14

3011 Development and extensive sequencing of a broadly-consented Genome in a Bottle matched tumor-normal pair

McDaniel, J. H.; Patel, V.; Olson, N. D.; He, H.-J.; He, Z.; Cole, K. D.; Gooden, A. A.; Schmitt, A.; Sikkink, K.; Sedlazeck, F.; Doddapaneni, H.; Jhangiani, S. N.; Muzny, D. M.; Gingras, M.-C.; Mehta, H.; Paulin, L. F.; Hastie, A. R.; Yu, H.-C.; Weigman, V.; Rojas, A.; Kennedy, K.; Remington, J.; Salas-Gonzalez, I.; Sudkamp, M.; Wiseman, K.; Lajoie, B. R.; Levy, S.; Jain, M.; Akeson, S.; Narzisi, G.; Steinsnyder, Z.; Reeves, C.; Shelton, J.; Kingan, S. B.; Lambert, C.; Bayabyan, P.; Wenger, A. M.; McLaughlin, I. J.; Adamson, A.; Kingsley, C.; Wescott, M.; Kim, Y.; Paten, B.; Park, J.; Violich

10.1101/2024.09.18.613544 — genomics — Posted on 2025-06-14

3012 Advancing Biogeographical Ancestry Predictions Through Machine Learning

Heinzel, C. S.; Purucker, L.; Hutter, F.; Pfaffelhuber, P.

10.1101/2025.01.31.635898 — genetics — Posted on 2025-06-14

3013 The study of differential expressions of MCPH and Seckel syndrome genes and their paralogues

Mohsin, M.; Riaz, S.; Imran, M.; Cox, J. J.; Khurshid, M.

10.1101/2025.05.21.655339 — genetics — Posted on 2025-06-14

3014 Drought dynamics explain once in a century yellow fever virus outbreak in Brazil with implications for climate change

Caldwell, J. M.; Grenfell, B.; Vecchi, G.; Rosser, J. I.

10.1101/2025.02.25.640139 — ecology — Posted on 2025-06-14

3015 Range geography and temperature variability explain cross-continental convergence in range and phenology shifts in a model insect taxon

Sirois-Delisle, C.; Gordon, S. C. C.; Kerr, J.

10.1101/2024.07.22.604548 — ecology — Posted on 2025-06-14

3016 A high-fidelity in vitro model of the human intestinal epithelium

Fujii, S.; Espenschied, S. T.; Anand, V.; Bettencourt-Silva, J.; Han, Y.; Ito, G.; Koseki, A.; Kosugi, A.; Kozlowski, J.; Matsumoto, R.; Meng, S.; Mulligan, N.; Musich, R. J.; Newhall, K.; Ohshina, E.; Sekiguchi, S.; Wang, Y.; Hu, J.; Ciorba, M. A.; Sibley, L. D.; Okamoto, R.; Stappenbeck, T. S.

10.1101/2024.01.01.573838 — cell biology — Posted on 2025-06-14

3017 A single amino acid variant in the variable region I of AAV capsid confers liver detargeting

Xing, R.; Xu, M.; Reil, D.; Destefano, A.; Cui, M.; Liu, N.; Liang, J.; Xu, G.; Luo, L.; Xu, M.; Zhang, F.; Tai, P. W.; Wei, Y.; Gruntman, A. M.; Flotte, T. R.; Gao, G.; Wang, D.

10.1101/2025.03.04.641478 — molecular biology — Posted on 2025-06-14

3018 Stable states in an unstable landscape: microbial resistance at the front line of climate change

Cronin, D. R.; Holland-Moritz, H.; Smith, D.; Aroney, S. T. N.; Hodgkins, S.; Borton, M.; Li, Y.-F.; Zayed, A.; Healy, K.; IsoGenie Field & Analytic Teams 2010-2017, ; EMERGE Institute Coordinators, ; Tfaily, M. M.; Crill, P. M.; McCalley, C.; Wrighton, K.; Varner, R. K.; Tyson, G. W.; Woodcroft, B.; Bagby, S. C.; Ernakovich, J.; Rich, V. I.

10.1101/2025.02.07.636677 — microbiology — Posted on 2025-06-14

3019 Prefrontal dopamine activity is critical for rapid threat avoidance learning

Zeidler, Z. E.; Gomez, M. F.; Gupta, T.; Shari, M.; Wilke, S. A.; DeNardo, L. A.

10.1101/2024.05.02.592069 — neuroscience — Posted on 2025-06-14

3020 Neurally-informed modelling unravels a single evidence accumulation process for choices and subsequent confidence reports

Grogan, J. P.; Vermeylen, L.; Mannion, S.-L.; McCabe, C.; Monakhovych, D.; Desender, K.; O'Connell, R. G.

10.1101/2025.06.05.658071 — neuroscience — Posted on 2025-06-14

3021 A Brain Reward Circuit Inhibited By Next-Generation Weight Loss Drugs

Godschall, E. N.; Gungul, T. B.; Sajonia, I. R.; Buyukaksakal, A. K.; Li, O. D.-A.; Ogilvie, S.; Keeler, A. B.; Tian, G.; Koita, O.; Shi, Y.; Deutsch, T. C. J.; Crook, M.; Zhang, Y.; Conley, N. J.; Webster, A. N.; Calhan, O. Y.; Liu, W.; Akkoub, A.; Malik, K.; West, K. I.; Michel-Le, S.; Karthikeyan, A.; van Gerven, G.; Beier, K. T.; Zweifel, L. S.; Patel, M. K.; Campbell, J. N.; Deppmann, C. D.; Guler, A. D.

10.1101/2024.12.12.628169 — neuroscience — Posted on 2025-06-14

3022 CrHCF244 is required for psbA translation in Chlamydomonas reinhardtii

Wang, X.; Wang, G.; Cheramie, L. A.; Zhao, C.; Dassanayake, M.; Moroney, J. V.; Vinyard, D. J.

10.1101/2024.05.30.596694 — plant biology — Posted on 2025-06-14

3023 A biphasic trajectory for maize stalk mechanics shaped by genetic, environmental, and biotic factors

Ikiriko, I. I.; Hostetler, A. N.; Reneau, J. W.; Betts, A. K.; Sparks, E. E.

10.1101/2025.03.03.641235 — plant biology — Posted on 2025-06-14

3024 E3 ubiquitin ligase WWP2 regulates stability of the chromatin remodeler ARID1B

Hore, P.; Bambhaniya, S.; Bashyam, M. D.

10.1101/2025.03.01.640953 — cancer biology — Posted on 2025-06-14

3025 GraphVelo allows for accurate inference of multimodal velocities and molecular mechanisms for single cells

Chen, Y.; Zhang, Y.; Gan, J.; Ni, K.; Chen, M.; Bahar, I.; Xing, J.

10.1101/2024.12.03.626638 — bioinformatics — Posted on 2025-06-14

3026 Distinct Cellular Phenotypes of Language and Executive Decline in Amyotrophic Lateral Sclerosis

Petrescu, J.; Roque, C. G.; Jackson, C.; Daly, A.; Kang, K.; Casel, O.; Leung, M.; Reilly, L.; Eschbach, J.; McDade, K.; Gregory, J. M.; Bonneau, R.; Smith, C.; Phatnani, H.

10.1101/2025.02.26.640433 — genomics — Posted on 2025-06-14

3027 Neuronal Autophagy Failure Drives α-Synuclein Transfer to Microglia to Outsource Aggregate Clearance

Chakraborty, R.; Samella, P.; Testa, V.; Montero-Munoz, J.; Nonaka, T.; Hasegawa, M.; Consiglio, A.; Zurzolo, C.

10.1101/2024.04.19.590207 — cell biology — Posted on 2025-06-14

3028 Single cell immunophenotyping identifies CD8+ GZMK+ IFNG+ T cells as a key immune population in cutaneous Lyme disease

Aron, E.; Meng, H.; Filippidis, P.; Belperron, A. A.; Kleinstein, S. H.; Bockenstedt, L. K.

10.1101/2025.06.09.658661 — immunology — Posted on 2025-06-12

3029 The single-particle structures of a Bacterial Cyanide Dihydratase and a Fungal Cyanide Hydratase

Justo Arevalo, S.; Felice, V. V.-R.; Acuna, M. B.; Flores, K. O.; Aguilar, M. Q.; Balan, A.; Farah, C. S.

10.1101/2025.06.11.659212 — biochemistry — Posted on 2025-06-12

3030 An ultrasensitive and modular platform to detect Siglec ligands and control immune cell function

Jame-Chenarboo, Z.; Schmidt, E. N.; Crichton, M.; Takahashi-Yamashiro, K.; Lima, G. M.; Luna-Dulcey, L.; Jung, J.; Ivison, S.; St. Laurent, C. D.; Enterina, J. R.; Lin, S.-Y.; Sarkar, S.; John, R.; Nanjappa, S. G.; Malaker, S. A.; Levings, M. K.; Marth, J. D.; Derda, R.; Macauley, M. S.

10.1101/2025.06.10.658684 — biochemistry — Posted on 2025-06-12

3031 High-resolution cryo-EM analysis of the therapeutic Pseudomonas phage Pa223

Hou, C.-F. D.; Bellis, N.; Lokareddy, R. K.; Branston, S.; Reid, J.; Geier, R.; Soriaga, A.; Sim, L.; Kyme, P.; Birx, D.; Lemire, S.; Cingolani, G.

10.1101/2025.06.11.659172 — biochemistry — Posted on 2025-06-12

3032 Mapping concept and relational semantic representation in the brain using large language models

Bogdan, P. C.; Cabeza, R.; Davis, S. W.

10.1101/2025.06.12.659304 — neuroscience — Posted on 2025-06-13

3033 A theoretically driven calculation for language dominance and degree of multilingualism

Chen, X. J.; Blanco-Elorrieta, E.

10.1101/2025.06.13.659417 — neuroscience — Posted on 2025-06-13

3034 Examining the Effect of Social Determinants of Health on Human Trait Heritability

Risse-Adams, O. S.; Liquori, J. L.; Sinnott-Armstrong, N.; Musharoff, S. A.

10.1101/2025.06.12.659317 — genetics — Posted on 2025-06-13

3035 Species-specific responses to paleoclimatic changes and landscape barriers drive contrasting phylogeography of co-distributed lemur species in northeastern Madagascar

van Elst, T.; Schüssler, D.; Rafamantanantsoa, S. M.; Radriarimanga, T.; Rabemananjara, N. R.; Rasolofoson, D. W.; Randimbiharinirina, R. D.; Hohenlohe, P. A.; Radespiel, U.

10.1101/2025.06.11.658897 — evolutionary biology — Posted on 2025-06-13

3036 Discriminating models of trait evolution

Lozano, J. R.; DeGiorgio, M.; Assis, R.; Adams, R.

10.1101/2025.06.12.659377 — evolutionary biology — Posted on 2025-06-13

3037 Foraging competence and scrounging tolerance enhance social relationships in a socially tolerant wild primate

Karakoc, E.; Vogg, R.; Michele, M.; Petersdorff-Campen, J.; Ecker, A. S.; Kappeler, P. M.; Fichtel, C.

10.1101/2025.06.12.659242 — ecology — Posted on 2025-06-13

3038 Dynamic regulation of the COPII interactome and collagen trafficking by site-specific glycosylation of Sec24D

Hirata, T.; Choudhary, D.; Bisnett, B. J.; Soderblom, E. J.; Knapik, E. W.; Boyce, M.

10.1101/2025.06.13.659590 — cell biology — Posted on 2025-06-13

3039 Credit Assignment via Behavioral Timescale Synaptic Plasticity: Theoretical Frameworks

Cone, I.; Clopath, C.; Costa, R. P.

10.1101/2025.06.12.659336 — neuroscience — Posted on 2025-06-13

3040 Modulation of decodable semantic features of brain activity via selection attention

Okuno, A.; Yamaguchi, H. Q.; Nishimoto, S.; Nakai, T.

10.1101/2025.06.13.659505 — neuroscience — Posted on 2025-06-13

3041 Replay of episodic experience in human infants

Postzich, C.; Finnemann, J.; Skeide, M. A.

10.1101/2025.06.12.659246 — neuroscience — Posted on 2025-06-13

3042 A Waddingtonian description of the dynamics of Turing patterns

Shinde, S.; Raju, A.

10.1101/2025.06.13.659478 — systems biology — Posted on 2025-06-13

3043 The bacterial ESCRT-III PspA rods thin lipid tubules and and increase membrane curvature through helix α0 interactions

Hudina, E.; Schott-Verdugo, S.; Junglas, B.; Kutzner, M.; Ritter, I.; Hellmann, N.; Schneider, D.; Gohlke, H.; Sachse, C.

10.1101/2025.06.13.659447 — biophysics — Posted on 2025-06-13

3044 HiFIseek: gene-specific enrichment of high-impact mutations in associated genomic regions

Riudavets Puig, R.; Brorson, I. S.; O'Mahony, D.; Kristensen, V. N.; Mathelier, A.

10.1101/2025.06.12.659305 — bioinformatics — Posted on 2025-06-13

3045 Human CXCL17 Activates and Binds to Fish GPR25 Orthologs

Hu, W.-F.; Wang, J.-J.; Yu, J.; Yao, J.-J.; Liu, Y.-L.; Xu, Z.-G.; Guo, Z.-Y.

10.1101/2025.06.10.658772 — biochemistry — Posted on 2025-06-13

3046 Spatially-explicit genomics of An. gambiae s.l uncovers fine-scale population structure and mechanisms of insecticide resistance

Nagi, S. C.; Essandoh, J.; Ato-Egyir, N.; Lucas, E. R.; Miles, A.; Desewu, K.; Williams, I.; Egyir-Yawson, A.; Sedda, L.; Weetman, D.; Donnelly, M. J.

10.1101/2025.06.13.655782 — genomics — Posted on 2025-06-13

3047 Trpv4 mediates temperature induced sex change in ricefield eel

Yang, Z.; Luo, T.; Zhang, Y.; Sun, Y.

10.1101/2025.06.09.658756 — developmental biology — Posted on 2025-06-13

3048 Attenuated single neuron and network hyperexcitability following microRNA-134 inhibition in mice with drug-resistant temporal lobe epilepsy

Sarti, P. Q.; Higgins, J.; Heiland, M.; Sanz-Rodriguez, A.; Cunningham, M. O.; Mamad, O.; Henshall, D.

10.1101/2025.06.09.658768 — neuroscience — Posted on 2025-06-13

3049 White matter micro- and macrostructural properties in midlife individuals at risk for Alzheimer's disease: Associations with sex and menopausal status

Raikes, A. C.; Dyke, J. P.; Nerattini, M.; Boneu, C.; Ajila, T.; Fauci, F.; Battista, M.; Pahlajani, S.; Williams, S.; Brinton, R. D.; Mosconi, L.

10.1101/2025.06.09.658686 — neuroscience — Posted on 2025-06-13

3050 Phosphorylation-inducing chimera rewires oncogenic kinase to trigger apoptosis

Merz, M. M.; Shoba, V. M.; Pergu, R.; Severance, Z. C.; Munkanatta Godage, D. N. P.; Deb, A.; Kwok, H. S.; Singh, P.; Singh, S.; Allen, J. B.; Tian, W.; Gosavi, P. M.; Chaudhary, S. K.; Anokhina, V.; Weisberg, E. L.; Payne, N. C.; He, Y.; Osadchey, R.; Shekhar, M.; Mazitschek, R.; Rees, M. G.; Roth, J. A.; Cui, Q.; Griffin, J. D.; Liau, B. B.; Choudhary, A.

10.1101/2025.06.13.659082 — synthetic biology — Posted on 2025-06-13

3051 Humanized Caffeine-Inducible Systems for Controlling Cellular Functions

Scheller, L.; Correia, B.; Elia, M.; Kang, C.; Bonati, L.; Gainza, P.; Garodia, Y.; Deshpande, P.; Schmidt, J.; Georgeon, S.; Tang, L.

10.1101/2025.06.13.659463 — synthetic biology — Posted on 2025-06-13

3052 Titania Nanoparticle Regulate Innate Immunity

Whittaker, J. J.; Eikrem, D.; Seisenbaeva, G. A.; Fromell, K.; Ekdahl, K. N.; Nilsson, B.; Sandgren, M.; Kessler, V. G.

10.1101/2025.06.13.658543 — biochemistry — Posted on 2025-06-13

3053 Nighttime Caffeine Intake Increases Motor Impulsivity

Saldes, E. B.; Sabandal, P. R.; Han, K.-A.

10.1101/2025.06.09.658656 — animal behavior and cognition — Posted on 2025-06-13

3054 Spatiotemporal variation in abundance and genetic structure across the urban-rural landscape gradient: Aedes albopictus (Skuse, 1894) (Diptera: Culicidae) in Wake County, NC

Reed, E. M.; Reiskind, M. H.; Burford Reiskind, M. O.

10.1101/2025.06.12.659333 — genetics — Posted on 2025-06-13

3055 Selective interaction of the protein SMCHD1 with specific chromatin regions is governed by the loading factor LRIF1 and SMCHD1 ATPase activity

Constantinescu, F.; Szczurek, A.; Nesterova, T. B.; Wei, G.; Pustygina, V.; Uphoff, S.; Cawte, A. D.; Brockdorff, N.

10.1101/2025.06.13.659515 — molecular biology — Posted on 2025-06-13

3056 The abscisic acid could reverse the cuproptosis in sepsis-associated acute kidney injury through the inhibition of ferredoxin-1

Ai, T.; Shi, A.; Chen, J.; Ya, M.; Li, H.; Tang, J.; Shi, Z.; Song, Z.; Jiang, Y.; Zhu, M.

10.1101/2025.06.10.658972 — molecular biology — Posted on 2025-06-13

3057 MORC2 directs transcription-dependent CpG methylation of human LINE-1 transposons in early neurodevelopment

10.1101/2025.06.11.658943 — molecular biology — Posted on 2025-06-13

3058 Interactions of Natural Compounds and Biomolecules with Hepatitis C Virus RNA Untranslated Regions: Exploring Structural Modifications to Advance Pathogenesis Understanding and Antiviral Strategy Design

Raskar, D. A.; Mastoli, S. Y.; Dongare, D.; Nayak, A.; Biakmawia, L.; Bhatia, A.; Shrivastava, N.; Saraf, S.; Dey, A.

10.1101/2025.06.13.659499 — molecular biology — Posted on 2025-06-13

3059 The road less travelled: Exploring the genomic characteristics and antimicrobial resistance potential of Acinetobacter baumannii from the indigenous Orang Asli community in Peninsular Malaysia

Lean, S. S.; Morris, D. E.; Anderson, R.; Alattraqchi, A. G.; Cleary, D. W.; Clarke, S.; Yeo, C. C.

10.1101/2025.06.12.659425 — microbiology — Posted on 2025-06-13

3060 Hyphal induction in Candida albicans: Optimizing medium parameters to accelerate hyphal growth enhanced by GlcNAc

A, R.; PV, A.; J, A. B.; Chakraborty, U.; Raval, R.

10.1101/2025.06.12.659427 — microbiology — Posted on 2025-06-13

3061 Toward Essential Oil Stewardship Strain-Resolved Evaluation of Thyme Oil Activity Against Pseudomonas aeruginosa

Brozyna, M.; Stepnicka, Z.; Tyminska, N.; Dudek, B.; Kapczynska, K.; Matkowski, A.; Sun, Y.; Junka, A.

10.1101/2025.06.13.659493 — microbiology — Posted on 2025-06-13

3062 Identifying potential keystone microbes from co-occurrence networks in the Gulf of Alaska

Brauner, M.; Cohen, J.; Briggs, B. R.; Hennon, G. M. M.

10.1101/2025.06.12.659413 — microbiology — Posted on 2025-06-13

3063 Drosophila learn about properties of objects through physical interaction

Iwasaki, K.; Kawano, S.; Cassod, A.; Neuhauser, C.; Rayshubskiy, A.

10.1101/2025.06.09.658381 — neuroscience — Posted on 2025-06-13

3064 The mPFC molecular clock mediates the effects of sleep deprivation on depression-like behavior and regulates sleep consolidation and homeostasis

Gardner, W.; Sarrazin, D. H.; Balzinger, M.; Marchese, C.; Ragno, A.; Ramanathan, C.; Veleanu, M.; Vestring, S.; Normann, C.; Bourgin, P.; Serchov, T.

10.1101/2025.06.09.658701 — neuroscience — Posted on 2025-06-13

3065 Cancer systems immunology reveals myeloid - T cell interactions and B cell activation mediate response to checkpoint inhibition in metastatic breast cancer

Gonzalez, E.; Kreger, J.; Liu, Y.; Wu, X.; Barbetta, A.; Baugh, A.; Al-Zubeidy, B.; Jang, J.; Shin, S. M.; Jacobo, M.; Stearns, V.; Connolly, R. M.; Ho, W.; Emamaullee, J.; MacLean, A. L.; Roussos Torres, E. T.

10.1101/2025.06.09.658361 — cancer biology — Posted on 2025-06-13

3066 Uncovering Functional Gene Regulatory Networks in Bulk and Single-Cell Data through Robust Transcription Factor Activity Estimation and Model-Guided Experimental Validation

Siahpirani, A. F.; McCalla, S. G.; Pyne, S.; Dillingham, C. M.; Sridharan, R.; Roy, S.

10.1101/2025.06.09.658650 — bioinformatics — Posted on 2025-06-13

3067 AbDesign: Database of point mutants of antibodies with associated structures reveals poor generalization of binding predictions from machine learning models.

Janusz, B.; Chomicz, D.; Demharter, S.; Arts, M.; Kanter, J. d.; Wilke, Y.; Britze, H.; Wrobel, S.; Gawlowski, T.; Dudzic, P.; Ukkivi, K.; Peil, L.; Spreafico, R.; Krawczyk, K.

10.1101/2025.06.09.658639 — bioinformatics — Posted on 2025-06-13

3068 cfDNAanalyzer: a comprehensive toolkit for analyzing cell-free DNA genomic sequencing data in liquid biopsy

Zhou, J.; Zhu, K.; Huang, X.; Yuan, J.; Li, Y.

10.1101/2025.06.09.658767 — bioinformatics — Posted on 2025-06-13

3069 Thermally controlled state switches for macrophage immunotherapy

Liu, A.; Farooq, A. S.; Abedi, M. H.; Smith, C. A. B.; Wu, D.; Shapiro, M. G.

10.1101/2025.06.09.658763 — bioengineering — Posted on 2025-06-13

3070 Metabolism of epigenetic ribonucleosides leads to nucleolar stress and cytotoxicity

Sun, X.; Donlic, A.; Boyer, J. A.; Reddy, N.; Brangwynne, C. P.; Rabinowitz, J. D.; Kleiner, R. E.

10.1101/2025.06.11.659152 — biochemistry — Posted on 2025-06-13

3071 Analysis of apo and citraconate-bound hACOD1 (hIRG1) by X-ray crystallography and NMR spectroscopy: structural insights for developing chemotherapeutic agents

Monteiro, D. C. F.; Runge, B.; Fucci, I. J.

10.1101/2025.06.13.659517 — biochemistry — Posted on 2025-06-13

3072 Proteomics- and BRET-screens identify SPRY2 as Ras effector that impacts its membrane organisation

Pavic, K.; Hood, F. E.; Duval, C. J.; Manoharan, G. b.; Laurini, C.; Siddiqui, F. A.; Mo, S. P.; Prior, I. A.; Abankwa, D.

10.1101/2025.06.13.659437 — biochemistry — Posted on 2025-06-13

3073 Loss of meiotic double strand breaks triggers recruitment of recombination-independent pro-crossover factors in C. elegans spermatogenesis

Engebrecht, J.; Calidas, A.; Li, Q.; Ruiz, A.; Padture, P.; Barroso, C.; Martinez-Perez, E.; Silva, N.

10.1101/2025.06.10.658785 — genetics — Posted on 2025-06-13

3074 SARS-CoV-2 envelope protein induces LC3 lipidation via the V-ATPase-ATG16L1 axis

Figueras-Novoa, C.; Timimi, L. J.; Marcassa, E.; Taveira-Marques, R.; Adams, L.; Jiang, M.; Wu, M. Y.; Montaner, B.; Ng, K.; De Lorenzo, G.; Furnon, W.; Cowton, V. M.; Upfold, N.; Kassiotis, G.; Harvey, R.; Patel, A. H.; Howell, M.; Ulferts, R.; Beale, R.

10.1101/2025.06.12.659257 — cell biology — Posted on 2025-06-13

3075 Molecular Mechanisms of DNMT3A-3L-Mediated de novo DNA Methylation on Chromatin

Yan, Y.; Zhou, X. E.; Thomas, S. L.; Liu, M.; Lai, G.-Q.; Worden, E. J.; Jones, P. A.; Xu, T.-H.

10.1101/2025.06.10.658647 — molecular biology — Posted on 2025-06-13

3076 Digital PCR detection of Mycobacterium tuberculosis and HIV-1 co-localization in spinal tuberculosis biopsies

Waters, R.; Martineau, A.; Laubscher, M.; Dunn, R. N.; Held, M.; Abrahams, M.-R.; Coussens, A. K.

10.1101/2025.06.11.659223 — molecular biology — Posted on 2025-06-13

3077 Cellular antibody affinity-based CRISPR Screening identifies JUNB as a broadly acting anti-viral factor

Waild, N.; Ciesla, J.; Schafer, X.; Munger, J.

10.1101/2025.06.12.659131 — molecular biology — Posted on 2025-06-13

3078 Scavenger Receptor class F member 2 is an intracellular receptor for Hepatitis B virus

Li, C.; Wang, Y.; Xiong, R.; Li, Q.; Zhou, Z.; Liu, Q.; Qi, Y.; Gao, Z.; Xu, G.; Fang, L.; Sun, Y.; Farzan, M.; Choe, H.; Sui, J.; Li, W.

10.1101/2025.06.13.659407 — microbiology — Posted on 2025-06-13

3079 Microbial Worlds Apart: Distinct Communities in Crude Oil and Production Waters

Alibrandi, A.; Plewka, J.; Vuillemin, A.; Bartholomaeus, A.; di Primio, R.; Probst, A. J.; Kallmeyer, J.

10.1101/2025.06.13.658281 — microbiology — Posted on 2025-06-13

3080 Genomic adaptations of novel halotolerant bacteria from extreme North Greenland

Salinas-Garcia, M. A.; Prieme, A.

10.1101/2025.06.13.657406 — microbiology — Posted on 2025-06-13

3081 Experience-dependent sharp-wave ripple deficits in an Alzheimer's disease mouse model

Schnur, P.; Byron, N.; Gerasimou, S.; Pascual Clavel, A.; Rohner, V.; Patriarchi, T.; Sakata, S.

10.1101/2025.06.09.658771 — neuroscience — Posted on 2025-06-13

3082 Personalized whole-brain Ising models with heterogeneous nodes capture differences among brain regions

Craig, A. G.; Chen, S.; Tang, Q.-Y.; Zhou, C.

10.1101/2025.06.09.658769 — neuroscience — Posted on 2025-06-13

3083 Lipid droplet dysmetabolism affects cell homeostasis in an in vitro model of Alzheimer disease

Fernandes, T.; Caldeira, M.; Melo, T.; Neves, B. B.; Carvalho, C.; Resende, R.; Filadi, R.; Pizzo, P.; Domingues, M. R.; Pereira, C. F.; Moreira, P. I.

10.1101/2025.06.09.658644 — neuroscience — Posted on 2025-06-13

3084 Caffeine-regulated molecular switches for functional control of CAR T cells in vivo

Sylvander, E.; Salzer, B.; Emminger, D.; Baik, H.; D'Accardio, G.; Schaefer, M.; Mouratidis, K.; Buri, M. C.; Maresch, D.; Urbanetz, A.; Seigner, J.; Marchiori, E.; Munoz-Lopez, A.; Engert, F.; Engels, B.; Mittelstaet, J.; van der Veeken, J.; Rosato, A.; Zuber, J.; Putz, E. M.; Zajc, C. U.; Lehner, M.; Traxlmayr, M. W.

10.1101/2025.06.13.659487 — synthetic biology — Posted on 2025-06-13

3085 Altered kinematics and muscle activities during half squats in people with ankle sprain history

Matsumura, U.; Tsurusaki, T.; Ogusu, R.; Yamamoto, S.; Lee, Y.; Sunagawa, S.; Koseki, H.

10.1101/2025.06.10.658971 — physiology — Posted on 2025-06-13

3086 EndoGenius: Enabling comprehensive identification and quantitation of endogenous peptides

Fields, L.; Dang, T. C.; Gray, M. D.; Protya, S. S.; Li, l.

10.1101/2025.06.12.659347 — bioinformatics — Posted on 2025-06-13

3087 Concordance and dissonance: A genome-wide analysis of self-declared versus inferred ancestry in 10,250 participants from the HostSeq cohort

Warren, R. L.; Birol, I.

10.1101/2025.06.10.658783 — genomics — Posted on 2025-06-13

3088 Passage of human-origin influenza A virus in swine tracheal epithelial cells selects for adaptive mutations in the hemagglutinin gene

Mo, J.; Ferreri, L. M.; Geiger, G.; Perez, D. R.; Rajao, D. S.

10.1101/2025.06.11.659236 — microbiology — Posted on 2025-06-12

3089 Metagenomic enables the first detection of Trypanosoma sp. in Streblidae (Diptera: Hippoboscoidea) parasitizing bats in Sao Paulo, Brazil.

Marcatti, R. d. A.; Franco, L. A. M.; Rocha, E. C.; Nardi, M. S.; Summa, J. L.; da Silva, E. T. B. C.; da Rosa, A. R.; de Oliveira, D. C.; Graciolli, G.; Sabino, E. C.

10.1101/2025.06.12.659397 — microbiology — Posted on 2025-06-12

3090 Fast Evolution of SOS-Independent Multi-Drug Resistance in Bacteria

Zhang, L.; Guan, Y.; Cheng, Y. Y.; Cokcetin, N. N.; Bottomley, A.; Robinson, A.; Harry, E.; van Oijen, A. M.; Su, Q. P.; Jin, D.

10.1101/2022.03.29.486198 — microbiology — Posted on 2025-06-13

3091 HAVEN: Hierarchical Attention for Viral protEin-based host iNference

Antony, B.; Haghani, M.; Lauring, A. S.; Karpatne, A.; Murali, T. M.

10.1101/2025.06.09.658367 — bioinformatics — Posted on 2025-06-13

3092 Inference of single cell profiles from histology stains with the Single-Cell omics from Histology Analysis Framework (SCHAF)

Comiter, C.; Chen, X.; Vaishnav, E. D.; Kobayashi-Kirschvink, K. J.; Ciapmricotti, M.; Zhang, K.; Murray, J.; Monticolo, F.; Qi, J.; Tanaka, R.; Brodowska, S. E.; Li, B.; Yang, Y.; Rodig, S. J.; Karatza, A.; Quintanal Villalonga, A.; Turner, M.; Pfaff, K. L.; Jane-Valbuena, J.; Slyper, M.; Waldman, J.; Vigneau, S.; Wu, J.; Blosser, T. R.; Segerstolpe, A.; Abravanel, D.; Wagle, N.; Demehri, S.; Zhuang, X.; Rudin, C. M.; Klughammer, J.; Rozenblatt-Rosen, O.; Stultz, C. M.; Shu, J.; Regev, A.

10.1101/2023.03.21.533680 — bioinformatics — Posted on 2025-06-13

3093 Generative prediction of real-world prevalent SARS-CoV-2 mutation with in silico virus evolution

Liu, X.; Nie, Z.; Si, H.; Shen, X.; Liu, Y.; Huang, X.; Dong, T.; Xu, F.; Ren, Z.; Zhou, P.; Chen, J.

10.1101/2024.11.28.625962 — evolutionary biology — Posted on 2025-06-13

3094 A Stimulus-Computable Model for Audiovisual Perception and Spatial Orienting in Mammals

Parise, C. V.

10.1101/2023.12.29.573621 — neuroscience — Posted on 2025-06-13

3095 Treating Myotonic Dystrophy with artificial RNA endonucleases to specifically degrade toxic RNA expansions

Wei, T.; Hu, H.; Jiang, X.; Li, Y.; Han, W.; Yang, Y.; Xiao, X.; Mao, M.; Wang, Z.

10.1101/2025.06.10.658795 — synthetic biology — Posted on 2025-06-13

3096 Decoding Cellular Stress States for Toxicology Using Single-Cell Transcriptomics

Shah, I.; Gallegos, D.; Robinette, B.; Chambers, B. A.; Eastburn, D.; Camiolo, S.; White, K.; Martin, N.; Montis, G.; McComb, J.; Seligmann, B.; Chorley, B. N.

10.1101/2025.06.10.657506 — pharmacology and toxicology — Posted on 2025-06-13

3097 Composition of Carotid Plaques Differs Between Chinese and United States Patients: A Histology Study

Cao, J.-L.; Ferguson, M.; Sun, J.; shen, M.; Small, R. C.; Hippe, D. S.; Zhao, X.; Zhang, D.; Watase, H.; Yuan, C.; Gao, P.-y.; Demarco, J. K.; Nicosia, R. F.; Wang, Y.-J.; Li, H.-W.; Li, Z.-R.; Wang, Y.; Kohler, T. R.; Hatsukami, T.; Sui, B.

10.1101/2025.06.10.658993 — pathology — Posted on 2025-06-13

3098 Spatial multi-omics and deep learning reveal fingerprints of immunotherapy response and resistance in hepatocellular carcinoma

Wu, Z.; Boen, J.; Jindal, S.; Basu, S.; Bieniosek, M.; He, S.; LaPelusa, M. B.; Mayer, A. T.; Kaseb, A. O.; Zou, J.; Sharma, P.; Trevino, A. E.

10.1101/2025.06.11.656869 — cancer biology — Posted on 2025-06-13

3099 Rodents as Potential Reservoirs for Toroviruses

Buigues Bisquert, J.; Vinals, A.; Martinez-Recio, R.; Monros, J. S.; Sanjuan, R.; Cuevas, J. M.

10.1101/2025.06.12.659308 — microbiology — Posted on 2025-06-13

3100 A distinct class of eukaryotic demethylases safeguards the positional fidelity of N6-methyladenine (6mA)

Niu, J.; Yu, H.; Liu, Y.; Nie, L.; Nan, B.; Zhang, W.; Song, N.; Gao, S.

10.1101/2025.06.10.658764 — genetics — Posted on 2025-06-13

3101 Clockwork Orangutan: microRNAs, thermoregulatory tradeoffs, and models of brain size evolution.

Sorger, T.; Fromm, B.

10.1101/2024.05.21.595052 — evolutionary biology — Posted on 2025-06-13

3102 Boolean Network Modeling Identifies Cognitive Resilience in the First Murine Model of Asymptomatic Alzheimer Disease

Jati, S.; Taheri, S.; Kal, S.; Sinha, S.; Head, B. P.; Mahata, S. K.; Sahoo, D.

10.1101/2025.06.11.659207 — neuroscience — Posted on 2025-06-13

3103 Larger and polymorphic noctuid moths tend to show less inter-annual abundance variation in the canopy of a temperate forest

Molleman, F.; Wasala, R.; Tambay, A.; Davis, R. B.; Ounap, E.; Walczak, U.

10.1101/2025.03.13.643003 — ecology — Posted on 2025-06-13

3104 Spatial and temporal scale-dependent feedbacks govern dynamics of biocrusts in drylands

Sun, J.; Yu, K.; Rietkerk, M.; Chen, N.; Zhang, H.; Song, G.; Li, X.

10.1101/2025.06.10.658851 — ecology — Posted on 2025-06-13

3105 Structural mechanism of strand exchange by the RAD51 filament.

Joudeh, L.; Appleby, R. E.; Maman, J. D.; Pellegrini, L.

10.1101/2025.03.26.645421 — molecular biology — Posted on 2025-06-13

3106 Dynamic Inference by Model Reduction

Priorelli, M.; Stoianov, I. P.

10.1101/2023.09.10.557043 — neuroscience — Posted on 2025-06-13

3107 GVB-positive neurons are resilient to tau-induced impairment of protein synthesis

Smits, J. F. M.; Ligthart, T. W.; Jorge-Oliva, M.; Middelhoff, S.; Schipper, F.; Pita-Illobre, D.; Li, K. W.; Scheper, W.

10.1101/2025.03.28.645932 — neuroscience — Posted on 2025-06-13

3108 Effects of dibutyl phthalate (DBP) on life history traits and population dynamics of Daphnia magna: comparison of two exposure regimes

Ohanessian, J.; Prud'homme, S. M.; Franklin, E.; Kitzinger, G. K.; Lorgeoux, C.; Billoir, E.; Felten, V.

10.1101/2025.03.05.641620 — physiology — Posted on 2025-06-13

3109 Lung inflammation is associated with lipid deposition

Potashnikova, D. M.; Tvorogova, A. V.; Komissarov, A. A.; Saidova, A. A.; Sotnikova, T. N.; Makarova, V. O.; Arifulin, E. A.; Lipina, T. V.; Shirokova, O. M.; Melnikov, E. S.; Rodina, T. A.; Valyaeva, A. A.; Zharikova, A. A.; Zayratyants, G. O.; Zayratyants, O. V.; Sheval, E. V.; Margolis, L. B.; Vasilieva, E. Y.

10.1101/2022.12.30.522299 — pathology — Posted on 2025-06-13

3110 MDPath: Unraveling Allosteric Communication Paths of Drug Targets through Molecular Dynamics Simulations

Doering, N. P.; Taterra, M.; Bermudez, M.; Wolber, G.

10.1101/2025.03.27.645168 — bioinformatics — Posted on 2025-06-13

3111 RAG-ESM: Improving pretrained protein language models via sequence retrieval

Sgarbossa, D.; Bitbol, A.-F.

10.1101/2025.04.02.646805 — bioinformatics — Posted on 2025-06-13

3112 Using evolution as a tool: Replacing corolla in Drosophila melanogaster with its Drosophila mauritiana ortholog creates a novel hypomorphic allele

Williams, S.; McKown, G.; Yu, Z.; Staber, C.; Gibson, M.; Hawley, R. S.

10.1101/2025.06.11.659179 — genetics — Posted on 2025-06-13

3113 The Role of Environmental Stress in Promoting Mutators Through Evolutionary Rescue: Quantitative Predictions

Tuffaha, M. Z.; Wahl, L. M.

10.1101/2025.02.11.637742 — evolutionary biology — Posted on 2025-06-13

3114 Chiari II brain malformation is secondary to open spina bifida

Clark, M.; Edwards, T. J.; Savery, D.; Galea, G. L.; Samy, N.; Pauws, E.; Kessaris, N.; Greene, N. D.; Copp, A. J.

10.1101/2025.01.06.631442 — developmental biology — Posted on 2025-06-13

3115 The systemic anti-diabetic effect of polyherbal formulation Varanadi Kashayam is mediated through GLP-1 secretion and DPP4 inhibition

Thottappillil, A.; Kouser, S.; Badiger, A. V.; Pinto, P. G.; Ramachandran, S.; Janadri, S.; Mudagal, M. P.; Kukkupuni, S. K.; Mohan S, S.; Chethala N, V.

10.1101/2024.06.29.601306 — cell biology — Posted on 2025-06-13

3116 A new nitrogen biochemical process: Oxidization of ammonium into nitrogen gas using nitrate

lv, x.; zhang, s.; gu, p.; han, x.; li, q.; huang, j.; qu, z.; zhao, d.; wang, z.; li, k.; wang, c.

10.1101/2025.06.12.659240 — microbiology — Posted on 2025-06-13

3117 Age-dependent gut microbiota dynamics and their association with male fitness traits in Drosophila melanogaster

Sultanova, Z.; Dönertas, H. M.; Hita, A.; Aguilar, P.; Dag, B.; Lucas-Lledo, J. I.; Latorre, A.; Carazo, P.

10.1101/2025.05.22.655607 — microbiology — Posted on 2025-06-13

3118 Diffusion MRS tracks distinct trajectories of neuronal development in the cerebellum and thalamus of rat neonates.

Ligneul, C.; Qiu, L.; Clarke, W. T.; Jbabdi, S.; Palombo, M.; Lerch, J.

10.1101/2023.10.16.562599 — neuroscience — Posted on 2025-06-13

3119 Stability vs flexibility: reshaping archaeal membranes in silico

Amaral, M.; Frey, F.; Jiang, X.; Baum, B.; Saric, A.

10.1101/2024.10.18.619072 — biophysics — Posted on 2025-06-13

3120 WITHDRAWN: Romantic Partners with Matching Relationship Satisfaction Showed Greater Interpersonal Neural Synchrony When Co-viewing Emotive Videos: An Exploratory fNIRS Hyperscanning Study

Heng, W. X.; Ng, L. Y.; Goh, Z. Z.; Esposito, G.; Azhari, A.

10.1101/2024.08.30.610475 — neuroscience — Posted on 2025-06-13

3121 Distinct heterozygous TTC7A missense variants lead to different intestinal epithelial phenotypes in pediatric IBD

10.1101/2025.06.11.659065 — genetics — Posted on 2025-06-13

3122 Shouldering the challenge of deciphering avian palate evolution

Benito, J.; Kuo, P.-C.; Torres, C. R.; Navalon, G.; Plateau, O.; Clark, A. D.; Steell, E. M.; Field, D. J.

10.1101/2025.06.10.658509 — evolutionary biology — Posted on 2025-06-13

3123 Deciphering the microbial landscape of lower respiratory tract in health and respiratory diseases

Cheng, C.; Li, Y.; Wang, S.; Wang, H.; Liu, D.; Wang, Q.; Che, Y.; Xue, L.; Chao, N.; He, X.; Li, C.; Tian, H.; Zhou, J.; Wang, X.; Yang, Y.; Zhu, Y.; Xu, R.; Wang, Z.; Li, W.

10.1101/2025.06.11.659233 — microbiology — Posted on 2025-06-13

3124 The Art of Not Knowing: Accommodating Structured Missingness in Biomedical Research

Rehak Buckova, B.; Fraza, C.; Koldbaek, C.; Barthel Flaaten, C.; Sofie Saether, L.; Cattarinussi, G.; Sando Ambrosen, K. M.; Andreassen, O. A.; Westlye, L. T.; Beckmann, C.; Ebdrup, B.; Dazzan, P.; Ueland, T.; Mitra, R.; Marquand, A.

10.1101/2025.06.07.658014 — neuroscience — Posted on 2025-06-13

3125 Multiplex Proteomics of Lewy Body Dementia Reveals Cerebrospinal Fluid Biomarkers of Disease Pathology and Progression

Higginbotham, L.; Shantaraman, A.; Guo, Q.; Fox, E. J.; Bagchi, P.; Wu, F.; Lah, J. J.; Levey, A. I.; Seyfried, N. T.

10.1101/2025.06.10.658994 — systems biology — Posted on 2025-06-13

3126 Are they funny? Associations between instructors humor and student emotions in undergraduate lab courses

Allen, Z. A.; Zajic, C. J.; Leckfor, C. M.; Dolan, E. L.; Tuma, T. T.

10.1101/2025.06.11.659171 — scientific communication and education — Posted on 2025-06-13

3127 Expression of β-catenin, LEF-1, MMP7 and SFRP5 associated with poor outcome in pancreatic cancer

Kong, P.; He, F.; Huifang, L.; Yan, D.

10.1101/2025.06.11.659232 — cancer biology — Posted on 2025-06-13

3128 EFFECTS OF ATTACHMENT DESIGNS ON CLEAR ALIGNER TOOTH MOVEMENT: A FINITE ELEMENT ANALYSIS

Mamboleo, E.; Ouldyerou, A.; Alsharif, K.; Ngan, P.; Guan, G.; Merdji, A.; Mukdadi, O.; Egon Mamboleo, Abdelhak Ouldyerou, Khaled Alsharif, Peter Ngan, Guoqiang Guan, Ali Merdji, and Osama,

10.1101/2025.06.11.659198 — bioengineering — Posted on 2025-06-13

3129 Orchid losers and winners after fire in West Australian urban bushland: A response continuum deeply integrated with other traits

Brundrett, M. C.

10.1101/2024.10.28.620558 — ecology — Posted on 2025-06-13

3130 Rift Valley fever virus dynamics in a transhumant cattle system in The Gambia

Jarra, E.; Ekwem, D.; Cleaveland, S.; Haydon, D. T.

10.1101/2025.06.11.659043 — ecology — Posted on 2025-06-13

3131 Detection of the invasive tomato red spider mite, Tetranychus evansi Baker & Pritchard (Acari: Prostigmata: Tetranychidae) in Australia based on morphological identification and DNA sequence analysis

Knihinicki, D.; Gopurenko, D.; Gillespie, P. S.; Millynn, B.; Dominiak, B.; Rossiter, L.

10.1101/2025.06.11.657326 — ecology — Posted on 2025-06-13

3132 Extracellular vesicles aid in the transfer of long-term associative memory between Caenorhabditis elegans

Bhar, M.; Nandi, T.; Narayanan, H.; Kishore, K.; Babu, K.

10.1101/2025.02.26.640282 — neuroscience — Posted on 2025-06-13

3133 Auditory Gamma-Frequency Entrainment Abolishes Working Memory Deficits in a Rodent Model of Autism

Cardoso, J.; Luis, M.; Mesquita, C.; Lopes, L. V.; Remondes, M.

10.1101/2025.06.12.659284 — neuroscience — Posted on 2025-06-13

3134 Interactions across hemispheres in prefrontal cortex reflect global cognitive processing

McDonnell, M. E.; Umakantha, A.; Williamson, R. C.; Smith, M. A.; Yu, B. M.

10.1101/2025.06.12.659406 — neuroscience — Posted on 2025-06-13

3135 Predicting protein stability changes upon mutations with dual-view ensemble learning from single sequence

Nie, Z.; Ma, Y.; Liu, Y.; Huang, X.; Liu, Z.; Yang, P.; Xu, F.; Yin, F.; Li, Z.; Fu, J.; Ren, Z.; Zhang, W.-B.; Chen, J.

10.1101/2024.04.22.590665 — bioinformatics — Posted on 2025-06-13

3136 Microbiome Data Integration via Shared Dictionary Learning

Yuan, B.; Wang, S.

10.1101/2024.10.04.616752 — bioinformatics — Posted on 2025-06-13

3137 Human Peripheral Nerve-on-a-Chip on a Multiwell Microelectrode Array as a Scalable Preclinical Neurotoxicity Assay

Rountree, C.; Rodriguez, T.; Byrne, E.; Schmidt, E.; Schwarzbach, E.; Dillon, S.; McCrimmon, A.; Terral, M.; Metea, M.; Moore, M. J.; Curley, J. L.

10.1101/2025.06.09.658615 — pharmacology and toxicology — Posted on 2025-06-12

3138 Single-cell Analysis of Intracellular Transport and Expression of Cell Surface Proteins

Mudappathi, R.; Bhardwaj, V.; Liu, L.

10.1101/2025.06.09.658704 — bioinformatics — Posted on 2025-06-12

3139 Contextual modulation and blunted defensive responses to predators in head-fixed and freely moving mice

Ritter, M.; Barreira, L. M. C.; Sach, L.; Hakus, A.; Oektem, S. K.; Bergmann, R.; Voigt, A.; Schmitz, D.; Poirazi, P.; Larkum, M. E.; Sachdev, R.

10.1101/2025.06.09.658679 — animal behavior and cognition — Posted on 2025-06-12

3140 A survey of dietary effects on tRNA abundance and modifications

Liu, S.; Holmes, A. D.; Zhao, R.; Herbert, C.; Limbach, P. A.; Lowe, T. M.; Sharma, U.

10.1101/2025.06.10.658430 — genomics — Posted on 2025-06-12

3141 Direct RNA nanopore sequencing reveals rapid RNA modification changes following glucose stimulation of human pancreatic beta-cell lines

Mulroney, L.; Taylor, H. J.; Lee, A.; Swift, A. J.; Zdravkov, M.; Bonnycastle, L. L.; Brooks, S. Y.; Lee, B. N.; Fitzgerald, T.; Narisu, N.; Biesecker, L. G.; Erdos, M. R.; Nicassio, F.; Birney, E.; Collins, F. S.; Taylor, D. L.

10.1101/2025.06.12.659352 — genomics — Posted on 2025-06-12

3142 Phage-Assisted Evolution of Allosteric Protein Switches

Southern, N. T.; von Bachmann, A.-L.; Hovsepyan, A.; Griebl, M.-L.; Wolf, B.; Lemmen, N.; Kroell, A.-S.; Westermann, S.; Mathony, J.; Niopek, D.

10.1101/2025.06.12.659331 — synthetic biology — Posted on 2025-06-12

3143 Analysis of protein aging reveals rates of subcellular organelle renewal and selective post-translational modification in Arabidopsis

Tivendale, N.; Liu, X.; Millar, A. H.

10.1101/2025.06.09.658759 — plant biology — Posted on 2025-06-12

3144 Accounting for differences between Infinium MethylationEPIC v2 and v1 in DNA methylation-based tools

Zhuang, B. C.; Jude, M. S.; Konwar, C.; Yusupov, N.; Ryan, C. P.; Engelbrecht, H.-R.; Whitehead, J.; Halberstam, A. A.; MacIsaac, J. L.; Dever, K.; Tran, T. K.; Korinek, K.; Zimmer, Z.; Lee, N. R.; McDade, T. W.; Kuzawa, C. W.; Huffman, K. M.; Belsky, D. W.; Binder, E. B.; Czamara, D.; Korthauer, K.; Kobor, M. S.

10.1101/2024.07.02.600461 — genomics — Posted on 2025-06-12

3145 Methanobrevibacter smithii associates with colorectal cancer through trophic control of the cancer bacteriome

Mohammadzadeh, R.; Mahnert, A.; Zurabischvili, T.; Wink, L.; Kumpitsch, C.; Habisch, H.; Sprengel, J.; Filek, K.; Mertelj, P.; Pernitsch, D.; Hingerl, K.; Gorkiewicz, G.; Diener, C.; Loy, A.; Kolb, D.; Trautwein, C.; Madl, T.; Moissl-Eichinger, C.

10.1101/2025.06.12.659283 — microbiology — Posted on 2025-06-12

3146 Planetary-scale metagenomic search reveals new patterns of CRISPR targeting

Roux, S.; Neri, U.; Bushnell, B.; Fremin, B.; George, N.; Gophna, U.; Hug, L. A.; Camargo, A. P.; Wu, D.; Ivanova, N.; Kyrpides, N. C.; Eloe-Fadrosh, E. A.

10.1101/2025.06.12.659409 — microbiology — Posted on 2025-06-12

3147 Prophage regulation of Shewanella fidelis 3313 motility and biofilm formation: implications for gut colonization dynamics in Ciona robusta

Natarajan, O.; Gibboney, S. L.; Young, M. N.; Lim, S. J.; Nguyen, F.; Pluta, N.; Atkinson, C. G. F.; Leigh, B. A.; Liberti, A.; Kees, E. D.; Breitbart, M.; Gralnick, J. A.; Dishaw, L. J.

10.1101/2022.11.23.517592 — microbiology — Posted on 2025-06-12

3148 Assessing the Sylvatic Yellow Fever Vectors in Southern Brazil

Cardoso, S. F.; Kikuti, L. A. O.; Yoshikawa, A. A. G.; Pinheiro, I. C.; Guesser, J. V. C.; Neves, M. S. A. S.; Couto-Lima, D.; Gatti, R. R.; Prophiro, J. S.; Pitaluga, A. N.; Rona, L. D. P.

10.1101/2025.06.12.659296 — microbiology — Posted on 2025-06-12

3149 Pandemic Vibrio parahaemolyticus wave succession by gene loss

Yang, C.; Qiu, H.; Svensson, S. L.; Ni, C.; Gao, S.; Jia, Z.; Wen, H.; Xie, L.; Xu, W.; Qin, Y.; Lin, S.; Wang, J.; Zhang, Y.; Li, Y.; Jiang, M.; Shi, X.; Hu, Q.; Zhou, Z.; Chao, Y.; Yang, R.; Cui, Y.; Martinez-Urtaza, J.; Wang, H.; Falush, D.

10.1101/2024.06.03.596356 — microbiology — Posted on 2025-06-12

3150 A single MHCII neoepitope mRNA vaccine elicits CD4 T- and B- cell responses promoting endogenous CD8 anti-tumor immunity

Capietto, A.-H.; Balanca, C.-C.; Bouziat, R.; Wu, T.; Gober, J.; Carbone, C.; Nissenbaum, A.; Hoshyar, R.; Yadav, M.; Gutierrez, A.; Chestnut, Y.; Javinal, V.; Menon, H.; Darmanis, S.; de Simone, M.; Sun, Y.; Seshasayee, D.; Paluch, M.; Bulutoglu, B.; Jones, T.; Wang, Y.; Liao, L.; Duong, E.; Anand, A.; Antonelli, A.; Oei, Y.; Cheung, J.; Luoh, S.-M.; Ziai, J.; Preston, J.; Hung, J.; Freund, E.; Wichner, S.; Oh, J.; Tahtinen, S.; Sahin, U.; ElSohly, A.; Schartner, J.; Delamarre, L.; Mellman, I.; Linehan, J.

10.1101/2025.06.09.657934 — immunology — Posted on 2025-06-12

3151 Treatment of age-related decreases in GTP levels restores endocytosis and autophagy

Santana, R. A.; McWhirt, J.; Brewer, G. J.

10.1101/2025.06.09.658689 — neuroscience — Posted on 2025-06-12

3152 GABA-independent activation of GABAB receptor by mechanical forces

Hu, Y.; Zhou, Y.; Lin, L.; Yang, F.; He, F.; Zhang, F.; Song, M.; Shen, C.; Liu, Y.; Xu, C.; Xu, S.; Liu, J.

10.1101/2025.06.09.658551 — neuroscience — Posted on 2025-06-12

3153 Striatal output regulates the postnatal maturation of cortical circuits

Janecek, M.; Deemyad, T.; Shih, Y.-C.; Valle, V.; D'Agostino, A.; Matarazzo, M.; Perez, M.; Ketchesin, K.; Silva, S.; Peixoto, R.

10.1101/2024.05.10.593512 — neuroscience — Posted on 2025-06-12

3154 Stroke-Related Changes in Tonic and Phasic Muscle Recruitment During Reaching Reveal Pathway-Specific Motor Deficits

Korol, A. S.; Adcock, A.; Gritsenko, V.

10.1101/2025.05.28.656732 — neuroscience — Posted on 2025-06-12

3155 Transcranial ultrasound stimulation modulates neuronal membrane potentials across broad timescales in the awake mammalian brain

Bortz, E. P.; San Antonio, E.; Sherman, J.; Tseng, H.-a.; Raiff, L.; Han, X.

10.1101/2025.06.09.658675 — neuroscience — Posted on 2025-06-12

3156 Neural Traces of Forgotten Memories Persist in Humans and are Behaviorally Relevant

Willems, T.; Zervas, K.; Rabe, F.; Federspiel, A.; Henke, K.

10.1101/2025.06.02.656652 — neuroscience — Posted on 2025-06-12

3157 Placental Iron Utilisation in Fetal Growth Restriction: Alterations in Mitochondrial Heme Synthesis and Iron-Sulfur Cluster Assembly Pathways

Botha, V. B.; Murray, H. C.; Acharya, S.; Pringle, K. G.; Smith, R.; Fisher, J. J.

10.1101/2025.06.09.658195 — physiology — Posted on 2025-06-12

3158 Lrrc14b is a novel regulator of striated muscle function

Akinborewa, O.; Prabakaran, A. D.; Durumutla, H. B.; Latimer, H.; McFarland, K.; Quattrocelli, M.

10.1101/2025.06.09.658659 — physiology — Posted on 2025-06-12

3159 The metabolic and molecular mechanisms underlying running-induced energy compensation

Sanchis, P.; Baech-laursen, C.; Vizueta, J.; Haytural, H.; Kurgan, N.; Persson, K. W.; Groenning, A.; Salinas, R.; Samodova-Sommer, D.; Guo, J.; Jensen, T. E.; Deshmukh, A. S.; Pedersen, B. K.; Brandt, C.

10.1101/2025.06.09.658628 — physiology — Posted on 2025-06-12

3160 Targeted inhibition of colorectal carcinoma using a designed CEA-binding protein to deliver TCF/LEF transcription factor decoy DNA and p53 protein

Wang, W.; Sun, X.; Wu, G.

10.1101/2025.06.09.658751 — cancer biology — Posted on 2025-06-12

3161 Analysis of 3'-seq data from multiple E. coli studies identifies diverging results sets and raw data characteristics despite similar collection conditions

Furumo, Q.; Meyer, M. M.

10.1101/2025.06.12.658996 — bioinformatics — Posted on 2025-06-12

3162 Integrating structural homology with deep learning to achieve highly accurate protein-protein interface prediction for the human interactome

Xiong, D.; Torres, M.; Murray, D.; Li, L.; Naravane, A. C.; Fragoza, R.; Honig, B.; Yu, H.

10.1101/2025.06.09.658393 — bioinformatics — Posted on 2025-06-12

3163 An injectable granular hydrogel stabilized by electrostatic interactions between hyaluronic acid-based microparticles and soluble gelatin exhibits poroelasticity and strain-stiffening

Tumbic, J.; Highley, C. B.

10.1101/2025.06.09.658744 — bioengineering — Posted on 2025-06-12

3164 Fiber-based hydrogels for designing viscoelastic responses in particle-based biomaterials that support embedded 3D printing

Grewal, M. G.; Porter, L.; Helein, G.; Highley, C. B.

10.1101/2025.06.09.658654 — bioengineering — Posted on 2025-06-12

3165 Micro-aeration-enhanced Anaerobic Digestion for the Stabilization of Coffee-Processing Wastewater

Taiwo, K. J.; Ogundipe, S. O.; Kerr, W. L.; Pegg, R. B.; Suh, J. H.; Usack, J. G.

10.1101/2025.06.09.658626 — bioengineering — Posted on 2025-06-12

3166 M. tuberculosis meets European Lead Factory - identification and structural characterization of novel Rv0183 inhibitors using X-ray crystallography

Riegler-Berket, L.; Goedl, L.; Polidori, N.; Aschauer, P.; Grininger, C.; Prosser, G.; Lichtenegger, J.; Sagmeister, T.; Parigger, L.; Gruber, C. C.; Reiling, N.; Oberer, M.

10.1101/2025.06.12.659322 — biochemistry — Posted on 2025-06-12

3167 Structural basis for NONO specific modification by the α-chloroacetamide compound (R)-SKBG-1

Fribourg, S.; Bure, C.; Florio, A. V.

10.1101/2025.06.10.658868 — biochemistry — Posted on 2025-06-12

3168 Tracking polygenic adaptation: phenotypic stasis after rapid adaptation in large populations of Drosophila

Ramirez-Lanzas, C.; Dolezal, M.; Signor, S.; Schlötterer, C.; Barghi, N.

10.1101/2025.06.09.658643 — evolutionary biology — Posted on 2025-06-12

3169 Generative epigenetic landscapes map the topology and topography of cell fates

Mochulska, V.; Francois, P.

10.1101/2025.06.09.658705 — developmental biology — Posted on 2025-06-12

3170 WAVE complex forms linear arrays at negative membrane curvature to instruct lamellipodia formation.

Wu, M.; Sadhu, R. K.; Meyer, K.; Tang, Z.; Marchando, P.; Woolfson, D. N.; Gov, N. S.; Weiner, O. D.

10.1101/2024.07.08.600855 — cell biology — Posted on 2025-06-12

3171 Age-Related Patterns of DNA Methylation Changes

Chen, K. Y.; Wang, W.; Suryadevara, H. N. S. K.; Peng, G.

10.1101/2024.12.10.627727 — molecular biology — Posted on 2025-06-12

3172 Structural Basis for Cas9-Directed Spacer Acquisition in Type II-A CRISPR-Cas Systems

Li, Z.; Li, Y.; Kong, J.; Wu, Q.; Huang, P.; Zhang, Y.; Wu, W.; Chen, M.; Liu, Y.; Lin, H.; Hou, L.; Liu, G.; Zeng, T.; He, Y.; Hu, C.; Yang, Z.; Lu, M.; Min, L.; Xiao, Y.

10.1101/2025.06.12.659315 — molecular biology — Posted on 2025-06-12

3173 Ralstonia pseudosolanacearum LOV domain protein regulates environmental stress tolerance, iron homeostasis, and bacterial wilt virulence

O'Banion, B.; Carter, M. D.; Sanchez-Gallego, J. A.; Li, H.; Hayes, S. S.; Strysick, M.; Holcomb, J.; Allen, C.

10.1101/2025.06.11.659228 — microbiology — Posted on 2025-06-12

3174 Enzymatic Activity of PBP1B Compensates for β-lactam Mediated Inhibition of PBP2 in Cells Overproducing ppGpp

Anderson, S. E.; Mack, I. E.; Levin, P. A.

10.1101/2025.06.12.659302 — microbiology — Posted on 2025-06-12

3175 Chenodeoxycholic Acid Modulation via Bacteroides intestinalis AM1 underscores a Novel Approach in Acute Liver Failure

PANDEY, S.; Sharma, N.; Sharma, N.; Bhat, S. H.; Sharma, V.; Kushwaha, M.; Kumar, A.; Magar, Y.; Gupta, A.; Mathew, B.; Tripathi, G.; Bindal, V.; Yadav, S.; Yadav, M.; Parasar, A.; Sharma, S.; Bihari, C.; Katyal, A.; Maiwall, R.; Sarin, S. K.; Maras, J. S.

10.1101/2025.06.11.659225 — microbiology — Posted on 2025-06-12

3176 Bacterial species and surface structures shape gene transfer and the transcriptional landscape during early conjugation

Williams, G. C.; Danne, J. C.; Crawford, S.; Homman-Ludiye, J.; Kostoulias, X.; Islam, T.; Heron, B.; Yong, M.; Gan, Y.-H.; Srikhanta, Y.; Lyras, D.

10.1101/2025.06.12.659224 — microbiology — Posted on 2025-06-12

3177 Modular integration of neural connectomics, dynamics and biomechanics for identification of behavioral sensorimotor pathways in Caenorhabditis elegans

Kim, J.; Florman, J. T.; Santos, J. A.; Alkema, M. J.; Shlizerman, E.

10.1101/724328 — neuroscience — Posted on 2025-06-12

3178 Full inter-hemispheric integration sustained by a fraction of posterior callosal fibers

Santander, T.; Bekir, S.; Paul, T.; Simonson, J. M.; Wiemer, V. M.; Skinner, H. E.; Hopf, J. L.; Rada, A.; Woermann, F. G.; Kalbhenn, T.; Giesbrecht, B.; Bien, C. G.; Sporns, O.; Gazzaniga, M. S.; Volz, L. J.; Miller, M. B.

10.1101/2025.02.14.638327 — neuroscience — Posted on 2025-06-12

3179 Hyperpolarization-activated cation channel mediated intrinsic plasticity changes underlie the malleability of with-in cell-type electrophysiological heterogeneity

Chameh, H. M.; Falby, M.; Yang, Y.; Movahed, M.; Arbabi, K.; Sarathy, C.; Tripathy, S. J.; Zhang, L.; Lefebvre, J.; Valiante, T. A.

10.1101/2025.06.09.658517 — neuroscience — Posted on 2025-06-12

3180 Human brain cell types shape host-rabies virus transcriptional interactions revealing a preexisting pro-viral astrocyte subpopulation

Feige, L.; Young, K.; Cerapio, J. P.; Kozaki, T.; Kergoat, L.; Libri, V.; Ginhoux, F.; Hasan, M.; Ben Ameur, L.; Chin, G.; Goode, Z.; Bourhy, H.; Saunders, A.

10.1101/2024.12.18.629263 — neuroscience — Posted on 2025-06-12

3181 Linker Length and Composition within Disordered Binding Motifs modulates the Avidity and Reversibility of a Multivalent Protein Interaction Switch

Chatterjee, K. S.; Martinez-Yamout, M. A.; Dyson, J.; Wright, P. E.

10.1101/2025.06.06.658374 — biophysics — Posted on 2025-06-12

3182 A fast TMT-based proteomic workflow reveals neural enrichment in neurospheres of hiPSC-derived neural stem cells

Muniz, P. d. L.; Souza, L. R. Q.; Martins, M. R.; Valadares, W.; Nogueira, F. C. S.; Rehen, S.; Nugue, G.; Junqueira, M.

10.1101/2025.06.09.658417 — bioinformatics — Posted on 2025-06-12

3183 Structural insights into Cas9-mediated prespacer selection in CRISPR-Cas adaptation

Gaizauskaite, U.; Tamulaitiene, G.; Silanskas, A.; Gasiunas, G.; Siksnys, V.; Sasnauskas, G.

10.1101/2025.06.12.659244 — microbiology — Posted on 2025-06-12

3184 A new nitrogen biochemical process: Oxidization of ammonium into nitrogen gas using nitrate

lv, x.; zhang, s.; gu, p.; han, x.; li, q.; huang, j.; qu, z.; zhao, d.; wang, z.; li, k.; wang, c.

10.1101/2025.06.12.659240 — microbiology — Posted on 2025-06-12

3185 Stereotypy is strongly linked to multiple biomarkers of oxidative stress--a potential common etiology for Abnormal Repetitive Behaviors

Coden, K. M.; Beacham, K.; Stix-Brunell, B.; Moorhead, R.; Byrd, K.; Baker, J.; Geronimo, J.; Parker, K. J.; Garner, J. P.

10.1101/2025.06.09.658735 — animal behavior and cognition — Posted on 2025-06-12

3186 Comparative Analysis of Test Tube and Volumetric Drinking Monitor Methods in Voluntary Ethanol Consumption in Female Mice for Prenatal Alcohol Exposure

Rodriguez, A. M.; Bauer, K. C.; Cunningham, L. A.

10.1101/2025.06.10.658718 — neuroscience — Posted on 2025-06-12

3187 Species-specific oculomotor control tolerances predict saccadic suppression strength in macaques and zebrafish

Soto, G.; Dehmelt, F. A.; Baumann, M. P.; Tunc, I.; Yu, Y.; Malevich, T.; Hafed, Z. M.; Arrenberg, A. B.

10.1101/2025.06.09.658731 — neuroscience — Posted on 2025-06-12

3188 Organellar data sets confirm overall angiosperm relationships if problematic RNA-edit sites are accounted for in mitochondrial genomes

Gerelle, W. K.; Jost, M.; Marques, I.; Les, D.; Vallejos, R.; Little, S.; Sinn, B. T.; Sokoloff, D. D.; Macfarlane, T. D.; Iles, W.; Feild, T.; Mathews, S.; Moore, M.; Couvreur, T. L. P.; Sauquet, H.; Wanke, S.; Graham, S. W.

10.1101/2025.06.09.658674 — plant biology — Posted on 2025-06-12

3189 Anti-isoDGR Antibody Inhibits Atherosclerosis Induced by Western Diet in ApoE-/- mice

Kalailingam, P.; Ngan, S. C.; Gallart-Palau, X.; Serra, A.; Datta, A.; Ch'ng, T. H.; Tsiani, E. L.; Klentrou, P.; Kalaria, R. N.; McCarthy, N. E.; De Kleijn, D.; Sze, S. K.

10.1101/2025.06.09.658749 — pharmacology and toxicology — Posted on 2025-06-12

3190 Spatial Transcriptomics Expression Prediction from Histopathology Based on Cross-Modal Mask Reconstruction and Contrastive Learning

Liu, J.; Eckstein, M.; Wang, Z.; Feuerhake, F.; Merhof, D.

10.1101/2025.06.10.657985 — pathology — Posted on 2025-06-12

3191 Autocrine TGFβ2 enforces a transcriptionally hybrid cell state in Ewing sarcoma

Wrenn, E. D.; Harris, J. C.; Apfelbaum, A.; Valenti, J. R.; Lipson, P. A.; Walter, S. I.; Garcia, N. M.; Miyaki, A.; Chen, S. C.; Olson, J. M.; Price, J. S.; Bailey, K. M.; Lawlor, E. R.

10.1101/2025.06.11.653876 — cancer biology — Posted on 2025-06-12

3192 Biophysics of the Coronavirus-Membrane Interaction: Role of Nonequilibrium Binding Energy

Udema, I. I.

10.1101/2025.06.10.658990 — biophysics — Posted on 2025-06-12

3193 Polyanionic Non-Collagenous Proteins and Their Analogues Promote Artificial Mineralization of Embryonic Mouse Bone

Wisnugroho, M.; Laidlaw, F. H. J.; Gromov, A. V.; Farquharson, C.; Nudelman, F.

10.1101/2025.06.10.658745 — biophysics — Posted on 2025-06-12

3194 CSLAN: Cross-Species Latent Alignment Network for Trauma-Related Cell-Type Classification

Wu, R.; Shi, A.; Liu, Y.; Duprey, A.; Chen, T.; Li, R.; Cao, S.

10.1101/2025.06.09.655966 — bioinformatics — Posted on 2025-06-12

3195 Biologically Guided Variational Inference for Interpretable Multimodal Single-Cell Integration and Mechanistic Discovery

Arnoldt, L.; Upmeier zu Belzen, J.; Herrmann, L.; Nguyen, K.; Theis, F. J.; Wild, B.; Eils, R.

10.1101/2025.06.10.657924 — bioinformatics — Posted on 2025-06-12

3196 Deacon: fast sequence filtering and contaminant depletion

Constantinides, B.; Lees, J.; Crook, D. W.

10.1101/2025.06.09.658732 — bioinformatics — Posted on 2025-06-12

3197 Multiplets in scRNA-seq data: extent of the problem and efficacy of methods for removal

Ttoouli, D.; Hoffmann, D.

10.1101/2025.06.09.658708 — bioinformatics — Posted on 2025-06-12

3198 Microglia surveillance is directed toward neuron activation during sustained intracortical microstimulation

Preslzer, C.; Stieger, K.; Chen, K.; Zhang, G.; Kozai, T. D. Y.

10.1101/2025.06.09.658722 — bioengineering — Posted on 2025-06-12

3199 Ensemble quantitation of absolute metabolite concentrations in T cells reveals conserved features of immunometabolism

O'Keeffe, S.; Sim, H.; McCue, E.; Park, J. O.

10.1101/2025.06.09.658709 — biochemistry — Posted on 2025-06-12

3200 Vocal Interactions Between Singing Humpback Whales (Megaptera novaeangliae)

Bruno, J. H.; Mercado, E.; Tietjen, N.; Levin, I.; Ryan, M.

10.1101/2025.06.12.658025 — animal behavior and cognition — Posted on 2025-06-12

3201 A Thiopurine-like Mutagenic Process Defines TGCT Subtypes

Brown, K. M.; Zhong, J.; Miranda, A. M.; Zhang, M.; Williams, J.; Williams, J.; Zhang, H.; Liang, C.; Li, W.; Zhu, B.; Chanock, S. J.; Nathanson, K. L.; Zhang, T.

10.1101/2025.06.12.655573 — genomics — Posted on 2025-06-12

3202 Unbiased recording of clonal potency reveals species-specific regulation of mammalian intestine

Islam, M.; Bechard, M. E.; Yang, Y.; Simmons, A. J.; Xu, Y.; Higginbotham, J. N.; Zhao, P.; Cao, Z.; Tasneem, N.; Glass, S. E.; Markham, N. O.; Revetta, F.; Ramirez-Solano, M. A.; Liu, Q.; Franklin, J. L.; Lau, K.; Coffey, R. J.

10.1101/2025.06.10.658707 — genomics — Posted on 2025-06-12

3203 Convergence and conflict among telomere specialized transposons across 60 million years of Drosophilid evolution

Son, J. H.; Lawlor, M. A.; Virani, M.; Cao, W.; Levine, M. T.; Ellison, C.

10.1101/2025.06.09.658640 — genomics — Posted on 2025-06-12

3204 Juvenile hormone degradation enzymes have shared and unique requirements in Drosophila development

Siegel, H.; Healy, C.; Goyins, K.; Jumamyradova, A.; Ying, J.; Soshnev, A. A.; Spokony, R. F.; Barton, L. J.

10.1101/2025.06.09.657647 — genetics — Posted on 2025-06-12

3205 Elevated mitochondrial superoxide promotes longevity through a mitochondria-to-nucleus kinase signaling pathway

Anglas, U.; Tamez Gonzalez, A. A.; Promi, M. M.; AlOkda, A.; Pacis, A.; Van Raamsdonk, J.

10.1101/2025.06.09.658743 — genetics — Posted on 2025-06-12

3206 Genetic Novelty and Short-Term Evolutionary Dynamics in Drosophila yakuba mayottensis

Turner, B. A.; McQuillan, J. E. T.; Yassin, A. A.; Rogers, R. L.

10.1101/2025.06.10.658671 — evolutionary biology — Posted on 2025-06-12

3207 Population genomics of incipient allochronic divergence in the Pine Processionary Moth

Muller, T.; Gautier, M.; Lombaert, E.; Leblois, R.; Saune, L.; Branco, M.; Kerdelhue, C.; Perrier, C.

10.1101/2025.06.09.657100 — evolutionary biology — Posted on 2025-06-12

3208 Functional and compositional diversity display a maximum at intermediate levels of fire frequency when modeling the plant-fire feedback

Torrassa, M.; Vissio, G.; Diaz Sierra, R.; Magnani, M.; Eppinga, M.; Baudena, M.

10.1101/2025.06.10.656287 — ecology — Posted on 2025-06-12

3209 Spatial Biodiversity Indicators and a Composite Index for Conservation Prioritization in Switzerland

Adde, A.; Boussange, V.; Chauvier, Y.; Dahito, M.-A.; Fruh, J.; Gross, A.; Stofer, S.; Rey, E.; Sieber, P.; Fopp, F.; Schouten, R.; Van Moorter, B.; Guisan, A.; Graham, C.; Pellissier, L.; Zimmermann, N. E.; Altermatt, F.

10.1101/2025.06.10.657334 — ecology — Posted on 2025-06-12

3210 Pathway diversity: a resilience metric sensitive to agency applied to a lake eutrophication problem

Sanches, V. H.; Guillaume, J.; Iwanaga, T.; Clement, S.; Lade, S. J.

10.1101/2025.06.09.658728 — ecology — Posted on 2025-06-12

3211 Garlic-Derived Allicin Modulates Expression of the SARS-CoV-2 Spike Receptor-Binding Domain in Human Splenic Fibroblasts

Kaur, A.; Assogba, B. D.

10.1101/2025.06.10.659002 — cell biology — Posted on 2025-06-12

3212 A single-cell fixed RNA profiling of liver fibrosis progression and regression reveals SEMA4D and LMCD1 as key mediators of fibrogenesis

Pham, D. M.; Thuy, L. T. T.; Hoang, H.; Nguyen, H. T.; Pham, A. T.; Ikenaga, H.; Fuji, H.; Yuasa, H.; Matsubara, T.; Vu, H. T.; Yi, C.; Yamagishi, R.; Ohtani, N.; Oikawa, D.; Tokunaga, F.; Kisseleva, T.; Brenner, D.; Iwakiri, Y.; Sancho, J. G.; Kawada, N.

10.1101/2025.06.12.657772 — cell biology — Posted on 2025-06-12

3213 Estimating individual-level changes in functional brain connectivity and correspondence with topology changes

Bottenhorn, K. L.; Corbett, J. D.; Ahmadi, H.; Herting, M.

10.1101/2025.06.12.639125 — neuroscience — Posted on 2025-06-12

3214 Novel plasmalogen derivative KIT-13 restores neurological function in a mouse model of Rett syndrome by reducing neuroinflammation and restoring mitochondrial function

Matsuda, A.; Nakashima, H.; Fujino, T.; Okauchi, T.; Hossain, M. S.; Sakai, Y.; Ohga, S.; Nakashima, K.; Honsho, M.

10.1101/2025.06.11.656246 — neuroscience — Posted on 2025-06-12

3215 Shaping a Collaborative, Sustainable, Accessible, and Reproducible Future for Computational Modeling

Guidon, M.; Kaiser, D.; Iavarone, E.; Anderegg, S.; Bisgaard, M.; Bujard, C.; Cassara, A.; Crespo-Valero, P.; Drobuliak, M.; Fasse, A.; Hrytsuk, Y.; Karimi, F.; Maiz, O.; Neagu, A.; Newton, T.; Ordonez, J.; Oetiker, T.; Pascual, I.; Querido, J.; Regel, S.; Steiner, M.; Van Geit, W.; Zhuang, K.; Weitz, A.; Chavannes, N.; Kuster, N.; Neufeld, E.

10.1101/2025.06.12.656959 — neuroscience — Posted on 2025-06-12

3216 Validation of a combined cylindrical shield and partial-coverage mobile OPM system for detecting neuromagnetic sensorimotor responses in humans

Bailey, L. M.; Bardouille, T.

10.1101/2025.06.10.657831 — neuroscience — Posted on 2025-06-12

3217 Oncogenic and tumor-suppressive forces converge on a progenitor-orchestrated niche to shape early tumorigenesis

Reyes, J.; Del Priore, I.; Chaikovsky, A. C.; Pasnuri, N.; Elhossiny, A. M.; Krause, T.; Moorman, A.; Snopkowski, C.; Takizawa, M.; Burdziak, C.; Ratnayeke, N.; Masillioni, I.; Ho, Y.-J.; Chaligne, R.; Romesser, P. B.; Filliol, A.; Nawy, T.; Morris, J. P.; Zhao, Z.; Di Magliano, M. P.; Alonso-Curbelo, D.; Pe'er, D.; Lowe, S. W.

10.1101/2025.06.10.656791 — cancer biology — Posted on 2025-06-12

3218 Reducing Supply Chain Dependencies for Viral Genomic Surveillance: Get by with a Little HELP from Commercial Enzymes already in your Lab Freezer

Kovalenko, G.; Hosmillo, M.; Kent, C.; Rowe, K.; Rambaut, A.; Loman, N. J.; Quick, J.; Goodfellow, I.

10.1101/2025.06.11.658579 — genomics — Posted on 2025-06-12

3219 Advancing Fair and Explainable Machine Learning for Neuroimaging Dementia Pattern Classification in Multi-Ethnic Populations

Ho, N.-H.; Charisis, S.; Honnorat, N.; Brandigampala, S. R.; Wang, D.; Heckbert, S. R.; Fox, P. T.; Martinez, D.; Wang, D. H.; Hughes, T. M.; Archer, D. B.; Hohman, T. J.; Seshadri, S.; Davatzikos, C.; Habes, M.

10.1101/2025.06.09.658375 — neuroscience — Posted on 2025-06-12

3220 DR5 CAR-T cells target solid tumors and suppress MDSCs with minimal toxicity

Wang, H.; Liu, S.; Sinha, P.; Liu, F.; Zhang, X.; Guo, Y.; Goncalves, B.; Zheng, Q.; Mou, H.; Yang, J.; Huang, L.; Scholler, J.; Miao, F.; Zeng, T.; Karakousis, G.; Huang, A. C.; Mitchell, T.; Amaravadi, R.; Schuchter, L.; Milone, M.; Guo, W.; June, C. H.; Herlyn, M.; Fan, Y.; Xu, X.

10.1101/2025.06.09.658618 — cancer biology — Posted on 2025-06-12

3221 VIProDesign: Viral Protein Panel Design for Highly Variable Viruses to Evaluate Immune Responses and Identify Broadly Neutralizing Antibodies

Bylund, T.; El Anbari, M.; Schaub, A.; Zhou, T.; Rawi, R.

10.1101/2025.05.21.654924 — bioinformatics — Posted on 2025-06-12

3222 Knowledge Graph-Based Framework for Detecting Horizontal Gene Transfer Events Driving Antimicrobial Resistance

Islam, M. R.; Summers, A. O.; Arpinar, I. B.

10.1101/2025.06.09.658534 — bioinformatics — Posted on 2025-06-12

3223 PPIKB: A Comprehensive Knowledge Base and Analysis Platform for Protein Peptide Interactions Based on Literature and Patents

Zhu, N.; Ming, Y.; Zhang, C.; Sen, C.; Li, C.; Guo, J.; Duan, H.

10.1101/2025.06.09.658607 — bioinformatics — Posted on 2025-06-12

3224 Single-nucleus analysis reveals oxidative stress in Down syndrome basal forebrain neurons at birth

West, N. R.; Arachchilage, K. H.; Knaack, S.; MacGregor, S.; Hosseini, M.; Risgaard, R. D.; Kumarage, P.; Martinez, J. L.; Zhang, S.-C.; Wang, D.; Sousa, A. M. M.; Bhattacharyya, A.

10.1101/2025.02.05.636750 — neuroscience — Posted on 2025-06-12

3225 Alterations of the composition and spatial organization of the microenvironment following non-dysplastic Barrett's esophagus through progression to cancer

Lin, M.-L.; Hickey, J. W.; Passman, A.; Carlotti, E.; Devkumar, S.; Derwa, Y. H.; ChinAleong, J.; Hackett, R. J.; Evans, J. A.; Sangwan, V.; Novelli, M. R.; Rodriguez-Justo, M.; Wright, N. A.; Jansen, M.; Underwood, T. J.; Huang, S.; Gascard, P.; McLean, M. H.; Schurch, C. M.; Tlsty, T. M.; Ferri, L.; Nolan, G. P.; McDonald, S. A.

10.1101/2025.06.09.657642 — cancer biology — Posted on 2025-06-12

3226 Dimerization and dynamics of angiotensin-I converting enzyme revealed by cryo-EM and MD simulations

mancl, j. M.; Wu, X.; Zhao, M.; Tang, W.-J.

10.1101/2025.01.09.632263 — biophysics — Posted on 2025-06-12

3227 Ecology and sexual conflict drive the macroevolutionary dynamics of female-limited colour polymorphisms

Willink, B.; Ho, T. A. T.; Svensson, E. I.

10.1101/2025.02.15.637939 — evolutionary biology — Posted on 2025-06-12

3228 Cross-Platform Omics Pipeline for Integrated Transcriptomics

Gao, L.; Hao, J.; Xin, Z.; Le, H.

10.1101/2025.06.11.659031 — bioinformatics — Posted on 2025-06-12

3229 Insights into the Contribution of Type VI Secretion Towards AHPND Pathogenesis

Cavanagh, D.; Martinez Lopez, K.; Sprinkel, K.; Froelich, B.

10.1101/2024.06.03.597196 — microbiology — Posted on 2025-06-12

3230 A critical role of sux cistron-mediated sucrose uptake for virulence of the rice blight pathogen Xanthomonas oryzae pv. oryzae

Zoellner, N.; Long, J. Y.; Song, C.; Sharkey, J.; Wudick, M. M.; Loo, E. P.; Sadoine, M.; Applegate, V.; Port, A.; Smits, S.; Yang, B.; Frommer, W. B.

10.1101/2025.06.02.657373 — microbiology — Posted on 2025-06-12

3231 Interleukin 10 controls the balance between tolerance, pathogen elimination and immunopathology in birds.

Meunier, D.; Corona-Torres, R.; Boulton, K.; Wu, Z.; Ballantyne, M.; Glendinning, L.; Ahmad, A. A.; Borowska, D.; Taylor, L.; Vervelde, L.; del Pozo, J.; Vasilogianni, M.; Jaramillo-Ortiz, J.; Sanchez-Arsuaga, G.; Psifidi, A.; Tomley, F.; Watson, K. A.; McGrew, M. J.; Stevens, M. P.; Blake, D. P.; Hume, D. A.

10.1101/2025.01.10.632125 — immunology — Posted on 2025-06-12

3232 Atypical weighting of sensory evidence and priors in causality perception along the autism-schizotypy continuum

Marsicano, G.; Melcher, D.

10.1101/2025.06.11.659079 — neuroscience — Posted on 2025-06-12

3233 Male and female mice may respectively form stronger social aversive memories with same and different sex conspecifics

Beaver, J. N.; Nicodemus, M. M.; Spalding, I. R.; Scrimshaw, L. R.; Dutta, S.; Jasnow, A. M.; Gilman, L. M.

10.1101/2024.08.12.607663 — neuroscience — Posted on 2025-06-12

3234 Balance between autophagy and apoptosis determines anoikis resistance: a mathematical model on cell fate

Maiti, S.; Chedere, A.; Jolly, M. K.; Chandra, N.; Rangarajan, A.

10.1101/2025.06.09.658583 — systems biology — Posted on 2025-06-12

3235 ASXL1 truncating mutations drive leukemic resistance to T cell attack

McCurry, D. B.; Ge, Z.; Lee, J.; Pasumarthi, R.; Leng, X.; Koehnke, T.; Pasvolsky, O.; Raparla, P.; Nguyen, V.; Maurer, K.; Li, S.; Livak, K. J.; Danson, E.; Thakkar, B.; Azizi, E.; Soiffer, R. J.; Shukla, S. A.; Majeti, R.; Ritz, J.; Wu, C. J.; Molldrem, J. J.; Bachireddy, P.

10.1101/2025.05.29.656798 — cancer biology — Posted on 2025-06-12

3236 Targeting SCD in SCD-amplified prostate cancer inhibits growth in bone by modulating cellular stress, mTOR, and DNA damage pathways

Wilson, A.; Herroon, M. K.; Mecca, S.; Garmo, L.; Lindquist, J.; Rajendran, S.; Patrick, S. M.; PODGORSKI, I.

10.1101/2025.06.09.658523 — cancer biology — Posted on 2025-06-12

3237 Mechanistic insights into Down syndrome comorbidities via convergent RNA-seq and TWAS signals

Subirana-Granes, M.; Zhang, H.; Gupta, P.; Pividori, M.

10.1101/2025.06.05.658129 — bioinformatics — Posted on 2025-06-12

3238 Effects of Extruder Dynamics and Noise on Simulated Chromatin Contact Probability Curves

Konstantinov, V.; Artem, S.; Lagunov, T.

10.1101/2025.06.09.658566 — genomics — Posted on 2025-06-12

3239 The complete mitochondrial genome of Tunga penetrans and insights into flea phylogeny

Bartilol, B.; Mburu, M. W.; Owaret, J.; Andisi, C.; Oyier, I.; Muriu, S.; Elson, L.; Maia, M.; Mwangangi, J.; Githinji, G.; Rono, M.

10.1101/2025.06.09.658575 — genomics — Posted on 2025-06-12

3240 Integrating three genetic dimensions relating to piglet birth weight: direct and maternal effects on the mean and genetic control of residual variance

Sell-Kubiak, E.; Kasper, C.; Lepori, A.; Gutierrez, J. P.; Formoso-Rafferty, N.; Khayatzadeh, N.; Cervantes, I.

10.1101/2025.06.10.658284 — genetics — Posted on 2025-06-12

3241 Measuring renal cortical cell-specific mitochondrial metabolism

Feola, K.; Venable, A. H.; Rasouli, M.; Do, J.; McCoy, T.; Llamas, C. B.; Straus, D.; Mishra, P.; Najafian, B.; Huen, S.

10.1101/2024.11.24.622516 — molecular biology — Posted on 2025-06-12

3242 Single-cell transcriptomics yield insights into the stress-immune interplay and inform disease risk

Benavides, S.; Kosyk, O.; Carpenter, L.; Georgiou, C.; Miller, B. C.; Stanley, N.; Zannas, A. S.

10.1101/2025.06.05.658150 — immunology — Posted on 2025-06-12

3243 DEVELOPMENT OF A POTENT MONOCLONAL ANTIBODY FOR TREATMENT OF HUMAN METAPNEUMOVIRUS INFECTIONS

Harris, E. D.; McGovern, M.; Pernikoff, S.; Ikeda, R.; Kipnis, L.; Hannon, W.; Sobolik, E. B.; Gray, M.; Greninger, A. L.; He, S.; Chin, C.-N.; Fu, T.-M.; Pancera, M.; Boonyaratanakornkit, J.

10.1101/2025.06.09.657676 — immunology — Posted on 2025-06-12

3244 Investigating the repeatability and behavioral relationships of acuity, contrast sensitivity, form, and motion perception measurements using a novel tablet-based vision test tool

Green, J.; Skerswetat, J.; Bex, P. J.; Schmidtmann, G.

10.1101/2025.06.09.658584 — neuroscience — Posted on 2025-06-12

3245 Reduced susceptibility to experimentally-induced complex visual hallucinations with age

Shenyan, O.; Haye, L.; Milne, G. A.; Lisi, M.; Greenwood, J. A.; Skipper, J. I.; Dekker, T. M.

10.1101/2025.05.27.656359 — neuroscience — Posted on 2025-06-12

3246 FERONIA defines intact tissue boundaries through cuticle development

Kim, G.; Choi, J.; Kim, R. J.; Oh, E.; Shin, S. Y.; Kim, H.-S.; Cho, H. S.; Suh, M. C.; Lee, H.-J.

10.1101/2025.06.09.658546 — plant biology — Posted on 2025-06-12

3247 Alterations of the composition and spatial organization of the microenvironment following non-dysplastic Barrett's esophagus through progression to cancer

10.1101/2025.06.09.657642 — cancer biology — Posted on 2025-06-12

3248 SAMP-Score: A morphology-based machine learning classification method for screening pro-senescence compounds in p16 positive cancer cells

Wallis, R.; Hughes, B. K.; Moore, M.; O'Sullivan, E. A.; McIlvenna, L. C.; Gammon, L.; Hope, A.; Bellany, F.; Mackenzie, C.; Green, C.; Gray, D.; Bishop, C. L.

10.1101/2025.06.09.658585 — cancer biology — Posted on 2025-06-12

3249 gorder: Comprehensive tool for calculating lipid orderparameters from molecular simulations

Bartos, L.; Pajtinka, P.; Vacha, R.

10.1101/2025.05.07.652627 — biophysics — Posted on 2025-06-12

3250 Application and Characterization of the Multiple Instance Learning Framework in Flow Cytometry

Ding, Z.; Baras, A.

10.1101/2025.06.10.658646 — bioinformatics — Posted on 2025-06-12

3251 Regularized Deep Neural Networks for Combining Heterogeneous Features of Peptides in Data Independent Acquisition Mass Spectrometry

Lee, N.; Yoo, H.; Han, D.; Yang, H.

10.1101/2025.06.09.658564 — bioinformatics — Posted on 2025-06-12

3252 COX6B1 secures a redox-sensitive step in early cytochrome c oxidase assembly

Cunatova, K.; Vrbacky, M.; Knezu, M.; Pecinova, A.; Alan, L.; Houstek, J.; Fernandez-Vizarra, E.; Mracek, T.; Pecina, P.

10.1101/2025.03.25.645161 — biochemistry — Posted on 2025-06-12

3253 A novel reusable transcriptome-wide association study workflow used to map key genes linked to important cattle traits

Jayaraman, S.; Chitneedi, P. K.; Kadri, N. K.; Costa-Monteiro-Moreira, G.; Salavati, M.; Charlier, C.; Boichard, D.; Sanchez, M.-P.; Pausch, H.; Kuehn, C.; Prendergast, J. G.; Clark, E. L.

10.1101/2025.06.10.658680 — genomics — Posted on 2025-06-12

3254 Evaluating Large Language Models for Gene-to-Phenotype Mapping: The Critical Role of Full-Text Database Access

Suhardi, N. M.; Oktarina, A.; Dhillon, D.; Ninan, D.; Retzky, J.; Bostrom, M.; Yang, X.; Suhardi, V. J.

10.1101/2025.06.11.659165 — genetics — Posted on 2025-06-12

3255 Biological causes and impacts of rugged tree landscapes in phylodynamic inference

Gao, J.; Brusselmans, M.; Carvalho, L. M.; Suchard, M. A.; Baele, G.; Matsen, F. A.

10.1101/2025.06.10.657742 — evolutionary biology — Posted on 2025-06-12

3256 The Green Band: Using Production and Catch to Judge Distortive Pressure on an Ecosystem

Fulton, E. A.; Sainsbury, K.; Bulman, C.; Novaglio, C.; Porobic, J.; Hayes, D.; van Putten, E. I.; Dutra, L. X. C.; Thomas, L.; Norris, W.; Pert, C.; Willock, A.; Montenegro, S. C.; Garay-Narvaez, L.; Hernandez, S.; Hernandez Saso, A.; Mohamed, K. S.; Sathianandan, T. V.; Kuriakose, S.; Varghese, E.; Najmudeen, T. M.; Vasudevan, S.; Anish, M. K. G.; Salim, S.; Mandro, I.; Zador, S.; Ortiz, I.; Whitehouse, A.; Aydin, K.; Tweit, B.; Evans, D.

10.1101/2025.06.09.658403 — ecology — Posted on 2025-06-12

3257 An optimized rabies vaccine vehicle for orotopical administration to wild vampire bats.

Knuese, C.; Cardenas-Canales, E. M.; McDevitt-Galles, T.; Ramirez-Martinez, M. M.; Limonta, D.; Powers, L. E.; Walsh, D. P.; Streicker, D. G.; Osorio, J. E.; Zamanian, M.; Rocke, T. E.

10.1101/2025.06.03.657068 — ecology — Posted on 2025-06-12

3258 Near-infrared spectroscopy-based models correctly classify Abies alba seed origin and predict germination properties

Poughon, J.; Lepoittevin, C.; Vicente, E.; Carme, M.; Mihai, G.; Lario Leza, F.; Piotti, A.; Avanzi, C.; Marchi, M.; Vendramin, G. G.; Scotti-Saintagne, C.; Fady, B.; Teyssier, C.; Benito Garzon, M.

10.1101/2025.06.09.658572 — ecology — Posted on 2025-06-12

3259 Timely excision of prophage {Phi}13 is essential for the Staphylococcus aureus infectious process

Poupel, O.; Kenanian, G.; Touqui, L.; Abrial, C.; Msadek, T.; Dubrac, S.

10.1101/2025.02.04.636441 — microbiology — Posted on 2025-06-12

3260 Dynamics of cortico-subthalamic neuronal patterns during dyskinesia in Parkinsons disease

Habets, J. G.; Merk, T.; Mathiopoulou, V.; Lofredi, R.; Binns, T. S.; Busch, J. L.; Koehler, R. M.; Memarpouri, A.; Faust, K.; Krause, P.; Schneider, G.-H.; Neumann, W.-J.; Tovote, P.; Kuehn, A. A.

10.1101/2025.06.09.658641 — neuroscience — Posted on 2025-06-12

3261 Ablation of hepatocyte derived-FGL1 does not aggravate metabolic dysfunction-associated steatotic liver disease and hepatocellular carcinoma

Personnaz, J.; Cannizzo, L.; Martin, C. M. P.; Desquesnes, A.; Sotin, M.; DaSilva, J.; Perrier, P.; Guillou, H.; Kautz, L.

10.1101/2024.12.23.628701 — pathology — Posted on 2025-06-12

3262 Early postnatal resting-state structural-functional coupling in the perisylvian region

Namiranian, R.; Abrishami Moghaddam, H.; Khadem, A.; Jafari, R.; Chalechale, A.

10.1101/2023.10.26.564007 — bioengineering — Posted on 2025-06-12

3263 Personalized models of Disorders of Consciousness revealcomplementary roles of connectivity and local parameters in diagnosis and prognosis

Zonca, L.; Escrichs, A.; Patow, G. A.; Manasova, D.; Sanz Perl, Y.; Annen, J.; Gosseries, O.; Laureys, S.; Sitt, J.; Deco, G.

10.1101/2024.09.03.610819 — neuroscience — Posted on 2025-06-12

3264 A network model for patient-derived drug response in breast cancer integrating multi-omics datasets.

Bose, B.; Stranger, B. E.; Bozdag, S.

10.1101/2025.06.09.658757 — cancer biology — Posted on 2025-06-12

3265 Ultra-fast variant effect prediction using biophysical transcription factor binding models

Hosseini, R.; Balci, A. T.; Kostka, D.; Clark, N.; Chikina, M.

10.1101/2024.06.26.600873 — bioinformatics — Posted on 2025-06-12

3266 Heightened subcortical reactivity to uncertain-threat is associated with future internalizing symptoms, conditional on stress exposure

Grogans, S. E.; DeYoung, K. A.; Hur, J.; Anderson, A. S.; Islam, S.; Kim, H. C.; Wedlock, J.; Craig, L. E.; Tillman, R. M.; Das, S.; Kuhn, M.; Conway, C. C.; Fox, A. F.; Smith, J. F.; Shackman, A. J.

10.1101/2025.06.11.659182 — neuroscience — Posted on 2025-06-12

3267 Therapeutic splice modulation of COL4A5 reinstates collagen IV assembly in an organoid model of X-linked Alport syndrome

Saei, H.; Estebe, B.; Goudin, N.; Esmailpour, M.; Haure, J.; Gribouval, O.; Arrondel, C.; Moriniere, V.; Tian, P.; Lennon, R.; Antignac, C.; Mollet, G.; Dorval, G.

10.1101/2025.06.10.658776 — genetics — Posted on 2025-06-12

3268 Integration of Audiovisual Motion in Dorsolateral Prefrontal Cortical Neurons

Karimi, A.; Mozumder, R.; Schoenhaut, A.; Rausis, O.; Wallace, M.; Ramachandran, R.; Constantinidis, C.

10.1101/2025.06.11.656227 — neuroscience — Posted on 2025-06-12

3269 The selective dynamics of interruptions at short tandem repeats

Goldberg, M. E.; Dashnow, H.; Harris, K.; Quinlan, A. R.

10.1101/2025.06.09.658724 — evolutionary biology — Posted on 2025-06-12

3270 Valuing conservation and natural wealth: The blue economy of manta ray watching in the Maldives

Moloney, H. M.; Rojas, M. I. G.; Rothe, N.; Armstrong, A. O.; Ballard, K.; Barraud, F.; Hamdan, F.; Richardson, A. J.; Mohamed Riyad, E.; Sawers, T. J.; Townsend, K. A.; Stevens, G. M. W.

10.1101/2025.06.05.658185 — ecology — Posted on 2025-06-12

3271 Robotics-assisted acoustic surveys could deliver reliable, landscape-level biodiversity insights

Bevan, P.; Banks-Leite, C.; Kovac, M.; Lawson, J.; Picinali, L.; Sethi, S. S.

10.1101/2025.06.02.657416 — ecology — Posted on 2025-06-12

3272 The unique molecular recognition features of Siglec-10: structural insights into sialoglycan and antibody interactions

Sobczak, K.; Antonana-Vildosola, A.; Valverde, P.; Travecedo, M. A.; Jame-Chernaboo, Z.; Schmidt, E. N.; DAndrea, S.; Valdaliso-Diez, E.; Oyenarte, I.; Laugieri, M. E.; Joe, M.; Mozaneh, F.; Lin, S.-Y.; Bosch, A.; Moure, M. J.; Franconetti, A.; Lee, S. Y.; Etxaniz-Diaz de Durana, J.; Perez-Gutierrez, L.; Palazon, A.; Marcelo, F.; Fadda, E.; Corzana, F.; Gimeno, A.; Macauley, M. S.; Jimenez-Barbero, J.; Ereno-Orbea, J.

10.1101/2025.06.10.658867 — molecular biology — Posted on 2025-06-12

3273 A SHERLOCK toolbox for eco-epidemiological surveillance of African trypanosomes in domestic pigs from Western Africa.

Eloiflin, R.-J.; Perez-Anton, E.; Camara, A.; Dujeancourt-Henry, A.; Boiro, S.; N Djetchi, M.; Traore, M.; Koffi, M.; Kaba, D.; Le Pennec, Y.; Doukoure, B.; Camara, A. D.; Kagbadouno, M.; Campagne, P.; Camara, M.; Jamonneau, V.; Thevenon, S.; Bart, J.-M.; Glover, L.; Rotureau, B.

10.1101/2025.03.14.643090 — microbiology — Posted on 2025-06-12

3274 MitoTracker transfers from astrocytes to neurons independently of mitochondria

Hole, K. L.; Norkett, R.; Russell, E.; Strom, M.; Howden, J. H.; Corbett, N. J.; Brownlees, J.; Devine, M. J.

10.1101/2025.05.27.655523 — neuroscience — Posted on 2025-06-12

3275 Shared and Distinct Lipid Profiles in amygdala from Sporadic and GBA-associated Parkinson's Diseases

Munoz, S. S.; Marlet, F. R.; Dreier, J. E.; Bilgin, M.; Schott, K.; Neergaard, K. B. S.; Bezard, E.; DEHAY, B.; Jaunmuktane, Z.; Maeda, K.; Galvagnion, C.

10.1101/2024.10.11.617800 — neuroscience — Posted on 2025-06-12

3276 No evidence in favour of the existence of 'intentional' binding

Kong, G.; Aberkane, C.; Desoche, C.; Farne, A.; Vernet, M.

10.1101/2023.02.06.526214 — neuroscience — Posted on 2025-06-12

3277 Local and distributed information coding in the ventral stream

Bogdan, P. C.; Howard, C.; Gillette, K.; Cabeza, R.; Davis, S. W.

10.1101/2025.03.09.642235 — neuroscience — Posted on 2025-06-12

3278 The development of visual acuity and crowding: Balancing fine detail and 'gist' processing

Greenwood, J. A.; Kyprianou, M.; Dekker, T. M.

10.1101/2025.03.27.645750 — neuroscience — Posted on 2025-06-12

3279 Employing the intravesical delivery route to target on the kidney

Wang, X.; Hu, H.; Wang, Q.; Li, L.; Shen, X.

10.1101/2025.06.09.656495 — physiology — Posted on 2025-06-12

3280 Optimising Chemotherapy for Advanced High-Grade Serous Ovarian Cancer via Delay-Differential Equations

Koprinski, C.; Hawi, G.; Kim, P. S.

10.1101/2025.06.05.658173 — cancer biology — Posted on 2025-06-12

3281 NDR kinase SAX-1 controls dendrite branch-specific elimination during neuronal remodeling in C. elegans

Figueroa-Delgado, P. V.; Yogev, S.

10.1101/2025.06.09.658633 — neuroscience — Posted on 2025-06-12

3282 ATF4 activates a transcriptional program that chronically suppresses mTOR activity promoting neurodegeneration in Parkinson's disease models

Demmings, M. D.; Kane, E.; Tennyson, E.; Hurley, K.; Zhao, J.; Cruickshanks, N.; Ciz, V.; Krupa, J.; Pasternak, S.; Cregan, S.

10.1101/2025.06.09.658667 — neuroscience — Posted on 2025-06-12

3283 Pervanadate-induced oxidation relieves autoinhibition of SRC protein tyrosine kinase

Mulholland, K. E.; Bourguet, M.; Cheng, N.; Rahman, O.; Ezerina, D.; Daly, L. A.; Lai, T.; Casanova, S. A.; Creixell, P.; Eyers, C.; Eyers, P.; Messens, J.; Byrne, D.; Sharpe, H.

10.1101/2025.04.27.650842 — molecular biology — Posted on 2025-06-12

3284 Reductive dechlorination of 2,3-dichloroaniline by Dehalobacter in an anaerobic enrichment culture

Wang, S.; Araujo, S. P.; Lomheim, L.; Mack, E. E.; Edwards, E. A.; Passeport, E.

10.1101/2025.02.21.639126 — microbiology — Posted on 2025-06-12

3285 PDCD1 expression increases at elevated temperatures.

Toma-Jonik, A.; Janus, P.; Mrowiec, K.; Vydra, N.; Sarkowicz, K.; Bar, M.; Mirek, J.; Olbryt, M.; Fidyk, W.; Widlak, W.

10.1101/2025.05.22.652424 — immunology — Posted on 2025-06-12

3286 The Comet Toolbox: Improving Robustness in Network Neuroscience Through Multiverse Analysis

Burkhardt, M.; Giessing, C.

10.1101/2024.01.21.576546 — neuroscience — Posted on 2025-06-12

3287 Identification of dynamic models of microbial communities

Paredes-Vazquez, A.; Balsa-Canto, E.; Banga, J. R.

10.1101/2025.06.09.658565 — systems biology — Posted on 2025-06-12

3288 Why is there so much variability in crop multi-model studies?

Wallach, D.; Palosuo, T.; Mielenz, H.; Buis, S.; Thorburn, P.; Asseng, S.; Dumont, B.; Ferrise, R.; Gayler, S.; Ghahramani, A.; Harrison, M. T.; Hochman, Z.; Hoogenboom, G.; Huang, M.; Jing, Q.; Justes, E.; Kersebaum, K. C.; Launay, M.; Lewan, E.; Liu, K.; Luo, Q.; Mequanint, F.; Nendel, C.; Padovan, G.; Olesen, J. E.; Pullens, J. W. M.; Qian, B.; Seserman, D.-M.; Shelia, V.; Souissi, A.; Specka, X.; Wang, J.; Weber, T. K. D.; Weihermuller, L.; Seidel, S.

10.1101/2023.02.03.526931 — plant biology — Posted on 2025-06-12

3289 Reconstructing the diversity dynamics of paleo-grasslands using deep learning on superresolution images of fossil Poaceae pollen

Adaime, M.-E.; Kong, S.; Urban, M. A.; Street-Perrott, F. A.; Verschuren, D.; Punyasena, S. W.

10.1101/2024.09.23.612957 — plant biology — Posted on 2025-06-12

3290 In Vitro Characterization of Extracellular Vesicles from the Medicinal Plant Centella asiatica for Aesthetic Applications

Chang, T.-M.; Wu, C.-C.; Huang, H.-C.; Wang, S.-S.; Chuang, C.-H.; Kao, P.-L.; Tang, W.-H.; Liu, L. T.-C.; Qiu, W.-Y.; Percec, I.; Chen, C.; Kuo, T.-Y.

10.1101/2024.12.03.624435 — pharmacology and toxicology — Posted on 2025-06-12

3291 Breast cancer cell-derived extracellular vesicles accelerate collagen fibrillogenesis and integrate into the matrix

Tam, N. W.; Dimova, R.; Cipitria, A.

10.1101/2024.08.08.607183 — biophysics — Posted on 2025-06-12

3292 All-optical Diamond Heater-Thermometer enables versatile and reliable thermal modulation of ion channels at the single-cell level

Rougier, J.-S.; Glushkov, E.; Guichard, S.; Kucera, J.; Zeeb, V.; Abriel, H.

10.1101/2025.06.03.657561 — biophysics — Posted on 2025-06-12

3293 Novel tensor decomposition-based approach for cell type deconvolution in Visium datasets when reference scRNA-seqs include multiple minor cell types

Taguchi, Y.-h.; Turki, T.

10.1101/2025.04.18.649484 — bioinformatics — Posted on 2025-06-12

3294 De novo peptide databases enable protein-based stable isotope probing of microbial communities with up to species-level resolution

Klaes, S.; White, C.; Alvarez-Cohen, L.; Adrian, L.; Ding, C.

10.1101/2024.11.25.625156 — bioinformatics — Posted on 2025-06-12

3295 Social Context Restructures Behavioral Syntax in Mice

Ritter, M.; Shipley, H.; Deiana, S.; Hengerer, B.; Wotjak, C. T.; Brecht, M.; Bogadhi, A. R.

10.1101/2025.04.17.648924 — animal behavior and cognition — Posted on 2025-06-12

3296 The gene regulatory landscape driving mouse gonadal supporting cell differentiation

Stevant, I.; Abberbock, E.; Ridnik, M.; Weiss, R.; Swisa, L.; Futtner, C.; Maatouk, D.; Lovell-Badge, R.; Malysheva, V.; Gonen, N.

10.1101/2024.12.09.627451 — developmental biology — Posted on 2025-06-12

3297 Einstein from Noise: Statistical Analysis

Balanov, A.; Huleihel, W.; Bendory, T.

10.1101/2024.07.06.602366 — molecular biology — Posted on 2025-06-12

3298 Neural coding of choice and outcome are modulated by uncertainty in orbitofrontal but not secondary motor cortex

Romero-Sosa, J. L.; Yeghikian, A.; Wikenheiser, A. M.; Blair, H. T.; Izquierdo, A.

10.1101/2024.11.05.622092 — neuroscience — Posted on 2025-06-12

3299 Afadin-deficient retinas exhibit severe neuronal lamination defects but preserve visual functions

Ueno, A.; Sakuta, K.; Ono, H.; Hashio, A.; Tokumoto, H.; Watanabe, M.; Nishimoto, T.; Konishi, T.; Emori, Y.; Mizuno, S.; Hiratsuka, M.; Miyoshi, J.; Takai, Y.; Tachibana, M.; Koike, C.

10.1101/2024.12.24.630271 — neuroscience — Posted on 2025-06-12

3300 The mechanism of ribosomal recruitment during translation initiation on Type 2 IRESs

Bhattacharjee, S.; Abaeva, I.; Brown, Z.; Arhab, Y.; Fallah, H.; Hellen, C. U. T.; Frank, J.; Pestova, T.

10.1101/2025.06.11.659010 — molecular biology — Posted on 2025-06-11

3301 MITF maintains genome stability in non-melanocytic cell lineages and suppresses Hippo pathway signaling

Gudmundsdottir, D. H.; de Lomana, A. L. G.; Venkatesh, T. B.; Kirty, K.; Sigurdsson, S.; Vidarsdottir, L.; Dilshat, R.; Sveinbjornsdottir, E.; Ragnarsdottir, S.; Magnusson, D. H.; Bustos, M. R.; Steingrimsson, E.; Gudjonsson, T.; Sigurdsson, S.

10.1101/2025.06.09.658599 — molecular biology — Posted on 2025-06-11

3302 Nucleus Basalis of Meynert as a DBS target

Levichkina, E.; Vidyasagar, T. R.; French, C.

10.1101/2025.06.11.659014 — neuroscience — Posted on 2025-06-11

3303 Functional connectivity in infants' visual cortex: Links to motion processing and autism

Hardiansyah, I.; Bussu, G.; Bolte, S.; Jones, E. J. H.; Falck-Ytter, T.

10.1101/2025.06.11.658898 — neuroscience — Posted on 2025-06-11

3304 Disentangling Prediction and Feedback in Social Brain Networks: A Predictive Processing Approach

Wang, Y.; Davidow, J. Y.; Lane, R. D.; Satpute, A. B.

10.1101/2025.06.10.658968 — neuroscience — Posted on 2025-06-11

3305 Multiple-level organizational logic of the locus coeruleus-norepinephrine system in structure and function

Zhang, C.-M.; Yang, Y.-X.; Li, F.-N.; Zhang, H.; Sun, L.; Li, J.; Yang, C.; Yue, Z.-F.; Feng, J.-S.; Li, Y.-L.; Zhang, R.-W.; He, J.; Du, X.-F.; Du, J.-L.

10.1101/2025.06.11.659024 — neuroscience — Posted on 2025-06-11

3306 Cognition-centric brain activity across diverse imaging tasks constrains the representation of mental health in task-evoked brain function

Korponay, C.; Cohen-Gilbert, J. E.; Kumar, P.; Harnett, N. G.; Medina, A. A.; Cheng, Y.; Forester, B. P.; Ressler, K. J.; Demsar, J.; Frederick, B. B.; Beckmann, C. F.; Harper, D. G.; Nickerson, L. D.

10.1101/2025.06.11.659091 — neuroscience — Posted on 2025-06-11

3307 Mapping functional, structural, and transcriptomic correlates of homotopic connectivity

Bryant, A. G.; Shine, J. M.; Fulcher, B. D.

10.1101/2025.06.10.657943 — neuroscience — Posted on 2025-06-11

3308 Hippocampal Commissural Circuitry Shows Asymmetric cAMP-Dependent Synaptic Plasticity

Faiss, L.; Salivara, A.; Oldani, S.; Breustedt, J.-M.; Schmitz, D.; Rost, B.

10.1101/2025.06.11.659103 — neuroscience — Posted on 2025-06-11

3309 A cortical code emerges in Layer5a of S1 through temporal integration of thalamic inputs

Quetu, T.; Shulz, D. E.; Goldin, M. A.

10.1101/2025.06.11.658272 — neuroscience — Posted on 2025-06-11

3310 Atypical weighting of sensory evidence and priors in causality perception along the autism-schizotypy continuum

Marsicano, G.; Melcher, D.

10.1101/2025.06.11.659079 — neuroscience — Posted on 2025-06-11

3311 Cross-species comparative connectomics reveals the evolution of an olfactory circuit

Roberts, R.; Giez, C.; Dhawan, S.; Pang, S.; Randel, N.; Zhiyuan, L.; Gong, H.; Dekens, L.; DiFrisco, J.; Xu, C. S.; Hess, H.; Zlatic, M.; Cardona, A.; Prieto-Godino, L. L.

10.1101/2025.06.11.659158 — neuroscience — Posted on 2025-06-11

3312 Toward Granular Brain Intrinsic Connectivity Networks and Insights into Schizophrenia

Mirzaeian, S.; Jensen, K. M.; Ballem, R.; Andres Camazon, P.; Chen, J.; Calhoun, V.; Iraji, A.

10.1101/2025.06.11.659084 — neuroscience — Posted on 2025-06-11

3313 FEDRANN: effective overlap graph construction based on dimensionality reduction and approximate nearest neighbors

Zhang, J.-Y.; Miao, C.; Qiu, T.; Xia, X.; He, L.; He, J.; Sun, Y.; Zeng, T.; Li, Y.; Xu, X.; Ruan, Y.; Dong, Y.

10.1101/2025.05.30.656979 — bioinformatics — Posted on 2025-06-11

3314 Structural basis of RNA-guided transcription by a dCas12f-σE-RNAP complex

Xiao, R.; Hoffmann, F. T.; Xie, D.; Wiegand, T.; Palmieri, A. I.; Sternberg, S. H.; Chang, L.

10.1101/2025.06.10.658880 — biochemistry — Posted on 2025-06-11

3315 Predicting cell type-specific coverage profiles from DNA sequence

Linder, J.; Yuan, H.; Kelley, D. R.

10.1101/2025.06.10.658961 — genomics — Posted on 2025-06-11

3316 A Reproducibility Focused Meta-Analysis Method for Single-Cell Transcriptomic Case-Control Studies Uncovers Robust Differentially Expressed Genes

Nakatsuka, N. J.; Adler, D.; Jiang, L.; Hartman, A.; Cheng, E.; Klann, E.; Satija, R.

10.1101/2024.10.15.618577 — genomics — Posted on 2025-06-11

3317 Telomeric Repeat-Containing RNA Increases in Aged Human Cells

Chu, H.-P. C.; Hsieh, Y.-H.; Tai, C.-H.; Yeh, M.-T.; Yang, P.-C.; Chen, Y.-C.; Yen, C.-P.; Han, D.-S.; Shen, H.-J.; Yeh, C.-H.

10.1101/2024.11.14.623513 — genomics — Posted on 2025-06-11

3318 Toward a genetic signature of resistance to activity-based anorexia in striatal projecting cortical neurons

Huang, K.; Magateshvaren Saras, M. A.; Conn, K.; Greaves, E.; Reed, F.; Tyagi, S.; Munguba, H.; Foldi, C. J.

10.1101/2025.03.09.642272 — neuroscience — Posted on 2025-06-11

3319 Lycopene Suppresses Lung Cancer Progression via PI3K/AKT Pathway Inhibition and Apoptosis Induction: Mechanistic and Safety Insights from Preclinical Models

Gu, H.; Pan, C. D.; Xu, Q. D.; Lu, J. D.; Zhao, T. D.; Fu, K. D.; Yan, X. D.; Xu, Y. D.; Ye, J. D.

10.1101/2025.06.07.658457 — cancer biology — Posted on 2025-06-11

3320 Identification of Novel Marine-based Inhibitors against Tetracycline Destructase in Acinetobacter Baumannii using Computational Approaches

Marimuthu, S. K.; Chockalingam, P.; Nagarajan, V.; Subbiah, T.; Ramakrishnan, V.

10.1101/2025.06.08.658539 — bioinformatics — Posted on 2025-06-11

3321 Targeting Listeria virulence-regulon glutathion-cavity by evolutecas

Coll, J.

10.1101/2025.06.09.658548 — bioinformatics — Posted on 2025-06-11

3322 Probing mycelium mechanics and taste: The moist and fibrous signature of fungi steak

Vervenne, T.; St. Pierre, S. R.; Famaey, N.; Kuhl, E.

10.1101/2025.04.17.649423 — bioengineering — Posted on 2025-06-11

3323 Biochemical engineering of 5hmdC-DNA using a Tet3 double-mutant

Sahin, H.; Islam, S.; Lee, A. H.; Ponzo, I.; Reichl, A.; Carell, T.; Giehr, P.

10.1101/2025.06.11.658802 — biochemistry — Posted on 2025-06-11

3324 Random survival forests identify myocardial gene signatures associated with survival in heart failure with preserved ejection fraction

Kannan, S.; Knutsdottir, H.; Vaishnav, J.; Bader, J. S.; Kass, D. A.; Sharma, K.; Hahn, V. S.

10.1101/2025.06.08.658488 — genomics — Posted on 2025-06-11

3325 Hybridization during the adaptive radiation of Oxera (Lamiaceae) in New Caledonia: Is flower shape shift driven by introgression?

Ikeda, R.; Kawai, R.; Gateble, G.; Suyama, Y.; Hirota, S. K.; Terauchi, M.; Noguchi, H.; Isagi, Y.

10.1101/2025.06.07.658409 — evolutionary biology — Posted on 2025-06-11

3326 Stalled translation on transcripts cleaved by RNase L activates signaling important for innate immunity

Karasik, A.; Jones, G. D.; Guydosh, N. R.

10.1101/2025.06.10.658914 — molecular biology — Posted on 2025-06-11

3327 HSV-1 orchestrates host RAP80 ubiquitination by ICP0 and UL36USP to promote viral survival

Wang, J.; Deng, Y.; Zhu, D.; Chi, Y.; Liu, F.; Zheng, C.; Xing, D.; Zheng, X.

10.1101/2025.06.10.658793 — molecular biology — Posted on 2025-06-11

3328 DNA extracted from boiled archival fish bones yields high quality whole genome sequencing data

Niu, J.; Vasemägi, A.; Lopez, M. E.; Pukk, L.; Huss, M.; Gardmark, A.

10.1101/2025.06.10.658604 — molecular biology — Posted on 2025-06-11

3329 Structures reveal how the Cas1-2/3 integrase captures, delivers, and integrates foreign DNA into CRISPR loci

Henriques, W. S.; Bowman, J.; Hall, L. N.; Gauvin, C. C.; Wei, H.; Kuang, H.; Zimanyi, C. M.; Eng, E. T.; Santiago-Frangos, A.; Wiedenheft, B.

10.1101/2025.06.10.658980 — molecular biology — Posted on 2025-06-11

3330 Evaluating Stock Status and Biological Reference Points for a Data-Limited Brown Shrimp Fishery in the Gulf of California

Arreguin-Sanchez, F.; Perez-Quinonez, C. I.; Hernandez-Lopez, A.; Chavez-Herrera, D.

10.1101/2025.06.07.658454 — ecology — Posted on 2025-06-11

3331 Recovering historical fish eDNA from museum-preserved Antarctic filter feeders via non-destructive metabarcoding.

Jeunen, G.-J.; Mills, S.; Bailie, M.; Mauvisseau, Q.; Lamare, M.; Mariani, S.; Pearman, W.; Zavodna, M.; Treece, J.; Ferreira, S.; Gemmell, N.

10.1101/2025.06.07.656140 — ecology — Posted on 2025-06-11

3332 Multimodal Evidence for Hippocampal Engagement and Modulation by Functional Connectivity-Guided Parietal TMS

Li, Z.; Trapp, N. T.; Bruss, J.; Liu, X.; Wu, K.; Chen, Z.; Etkin, A.; Howard, M. A.; Boes, A. D.; Jiang, J.

10.1101/2025.06.08.658503 — neuroscience — Posted on 2025-06-11

3333 A Numerical Alternative to MR Thermometry for Safety Validation of Multi-Channel RF Transmit Coils

Sadeghi-Tarakameh, A.; Schmidt, S.; Waks, M.; Lagore, R. L.; Grant, A.; Auerbach, E.; DelaBarre, L.; Knudsen, L.; Lenglet, C.; Vizioli, L.; Yacoub, E.; Adriany, G.; Metzger, G. J.; Ugurbil, K.; Eryaman, Y.

10.1101/2025.06.07.657475 — neuroscience — Posted on 2025-06-11

3334 Geometric Quantum Coherence Protection inFibonacci-Structured Microtubules: A Quantum Solution tothe Cognitive Paradox of Acute HIV-associatedNeuroinflammation

Demidont, DO, A. C.

10.1101/2025.06.08.658222 — neuroscience — Posted on 2025-06-11

3335 Test-retest reliability of multi-metabolite edited MRS at 3T using PRESS and sLASER

Archibald, J.; Bouchard, A. E.; Noeske, R.; Shungu, D. C.; Mikkelsen, M.

10.1101/2025.06.07.657685 — neuroscience — Posted on 2025-06-11

3336 Heterologous expression of microbial nitroreductases for TNT degradation in transgenic animals

Perusse, D.; Tepper, K.; Sychla, A.; Beach, S.; Smanski, M.; Maselko, M.

10.1101/2025.06.11.659045 — synthetic biology — Posted on 2025-06-11

3337 Mapping Environmental Discourses: A Bibliometric and Critical Analysis of Eco-Discourses in Scopus

Chaligha, M. P.

10.1101/2025.06.07.658453 — scientific communication and education — Posted on 2025-06-11

3338 Spectroscopic and morphological study of sinusoidal mechanical vibration exposed human RBC in vitro

Ghodake, D. V.; Hinge, D. S.; Banpurkar, D. A.; Kulkarni, D. G.

10.1101/2025.06.08.658542 — physiology — Posted on 2025-06-11

3339 Human fibrosarcoma cells selected for very-high doxorubicin resistance, acquire trabectedin and eribulin cross-resistance, remain sensitive to recombinant methioninase, and have increased c-MYC expression

Morinaga, S.; Han, Q.; Mizuta, K.; Kang, B. M.; Bouvet, M.; Yamamoto, N.; Hayashi, K.; Kimura, H.; Miwa, S.; Igarashi, K.; Higuchi, T.; Tsuchiya, H.; Demura, S.; Hoffman, R. M.

10.1101/2025.06.07.658455 — cancer biology — Posted on 2025-06-11

3340 Better antibodies engineered with a GLIMPSE of human data

Hepler, N. L.; Hill, A. J.; Jaffe, D. B.; Gibbons, M. C.; Pfeiffer, K. A.; Hilton, D. M.; Freeman, M.; McDonnell, W. J.

10.1101/2025.06.08.658113 — bioinformatics — Posted on 2025-06-11

3341 In Vitro Maturation of Bone Marrow-Derived Dendritic Cells via STING Activation for T Cell Priming

Buyuk, B.; Ye, K.

10.1101/2025.06.11.659197 — bioengineering — Posted on 2025-06-11

3342 Particle-based hydrogel inks and support matrices for biofabricating structural complexity, soluble gradients, and cell-lined channels in fully granular bioprinted systems

Tumbic, J.; Ferrarese, E.; Martinez, R.; Ackleson, T.; Delgado, D.; Highley, C. B.

10.1101/2025.06.07.658428 — bioengineering — Posted on 2025-06-11

3343 Controlling Payload Heterogeneity in Lipid Nanoparticles for RNA-Based Therapeutics

Pial, T. H.; Li, S.; Lin, J.; Wang, T.-H.; Mao, H.-Q.; Curk, T.

10.1101/2025.06.11.659145 — bioengineering — Posted on 2025-06-11

3344 Structural and functional characterisation of isolated puff adder (B. arietans) serine proteases

Wilkinson, M. C.; Modahl, C.; Saviola, A.; Tianyi, F.; Harrison, R. A.; Casewell, N. R.

10.1101/2025.06.11.659063 — biochemistry — Posted on 2025-06-11

3345 Architecture of the bundle-shaped phycobilisome from Gloeobacter violaceus

Burtseva, A.; Slonimskiy, Y.; Baymukhametov, T.; Sinetova, M.; Maksimov, E. G.; Popov, V. O.; Boyko, K. M.; Sluchanko, N. N.

10.1101/2025.06.10.658930 — biochemistry — Posted on 2025-06-11

3346 Structural and mechanistic analysis of covalent ligands targeting the RNA-binding protein NONO

Lindsey, G. L.; Hockley, T. K.; Gomez, A. V.; Marshall, A. C.; Brothers, W. R.; Finney, C. T.; Gross, J.; Fox, A. C.; Yeo, G. W.; Melillo, B.; Bond, C. S. S.; Cravatt, B. F.

10.1101/2025.06.10.658857 — biochemistry — Posted on 2025-06-11

3347 STOCHASTIC ECO-EVOLUTIONARY DYNAMICS OF MULTIVARIATE TRAITS: A Framework for Modeling Population Processes Illustrated by the Study of Drifting G-Matrices

Week, B.

10.1101/2025.06.07.658444 — evolutionary biology — Posted on 2025-06-11

3348 Recombinant Expression and Purification of Plasmodium Heme Detoxification Protein in E. coli: Challenges and Discoveries

Singh, R.; Makde, R. D.

10.1101/2025.06.11.659033 — molecular biology — Posted on 2025-06-11

3349 STING is a key driver of Japanese encephalitis virus induced inflammatory response

Chhabra, S.; Patel, D.; Sharma, K. B.; Sah, V.; Harshan, K.; Chauhan, S.; Kalia, M.

10.1101/2025.06.11.659027 — microbiology — Posted on 2025-06-11

3350 Sphingomonas nivalis sp. nov., a novel psychrophilic bacteria isolated from a permanent snowfield in Glacier Peaks Wilderness Area, Washington State, USA

Brown, S.; Odeh, A.

10.1101/2025.06.11.659111 — microbiology — Posted on 2025-06-11

3351 The Ambiguous Genetic Code of Methanogenic Archaea that Grow on Methylamines

Shalvarjian, K. E.; Chadwick, G.; Perez, P. I.; Woods, P.; Orphan, V. J.; Nayak, D. D.

10.1101/2025.06.11.659114 — microbiology — Posted on 2025-06-11

3352 Gentamicin induction of the gonococcal hicAB toxin-antitoxin encoding system and 2 impact on gene expression influencing biofilm formation and in vivo fitness in a strain specific manner

Holley, C. L.; Dhulipala, V.; Le Van, A.; Balthazar, J. T.; Oliver, V. J.; Jerse, A. E.; Shafer, W. M.

10.1101/2025.06.11.659166 — microbiology — Posted on 2025-06-11

3353 Cultivating microbial communities from the serpentinite-hosted Prony Bay Hydrothermal Field on different carbon sources in hydrogen-fed bioreactors

Popall, R. M.; Roland, A.; Davidson, S.; Combet-Blanc, Y.; Price, R. E.; Postec, A.; Erauso, G.

10.1101/2025.06.11.659039 — microbiology — Posted on 2025-06-11

3354 Altered susceptibility of rare yeast species causing vulvovaginal candidiasis at acidic vaginal environment

Liu, F.; Sun, Y.; Zhao, R.; Zhang, L.; Deng, S.

10.1101/2025.06.10.659005 — microbiology — Posted on 2025-06-11

3355 Diel cycle of lanthanide-dependent methylotrophy by TMED127/Methylaecorales bacteria in oligotrophic surface seawater

Glass, J. B.; Warters, L.; Alajlan, A.

10.1101/2025.06.11.659106 — microbiology — Posted on 2025-06-11

3356 Mutation or deletion of the Avr6 avirulence effector gene of Fulvia fulva leads to breakdown of the Cf-6 leaf mold resistance locus in tomato

Schol, C. R.; Fokkens, L.; Hu, A.; Jia, R.; de la Rosa, S.; Ökmen, B.; Hilgers, A. M.; van Zwoll, S. L.; Veenendaal, L. D. H.; Turner, M.; Monot, C.; Maeda, K.; Iida, Y.; de Wit, P. J. G. M.; Esselink, D.; Wolters, A.-M. A.; Bai, Y.; Joosten, M. H. A. J.; Mesarich, C. H.

10.1101/2025.06.11.659170 — microbiology — Posted on 2025-06-11

3357 Increased basal ganglia volume in older adults with tinnitus

San Martin, S. P.; Medel, V.; Breinbauer, H.; Delgado, C.; Delano, P. H.

10.1101/2025.06.08.658513 — neuroscience — Posted on 2025-06-11

3358 On the relationship between neuronal heterogeneity and entropy

Valiante, T. A.

10.1101/2025.06.07.658464 — neuroscience — Posted on 2025-06-11

3359 Changes in Ocular Fixation Characteristics Over Time during Reading

Friedman, L.; Komogortsev, O.

10.1101/2025.06.09.658738 — neuroscience — Posted on 2025-06-11

3360 High-Throughput Targeted Drug Screening for NF1-associated High-Grade Gliomas with ATRX Deficiency

Dubey, S.; Rai, S.; Guillen, F.; Iyer, A.; Aung, S.; Yuan, M.; Eberhart, C. G.; Rodriguez, F. J.

10.1101/2024.12.14.628525 — cancer biology — Posted on 2025-06-11

3361 Fine-Tuning Protein Language Models Unlocks the Potential of Underrepresented Viral Proteomes

Sawhney, R.; Ferrell, B. D.; Dejean, T.; Schreiber, Z.; Harrigan, W.; Polson, S. W.; Wommack, K. E.; Belcaid, M.

10.1101/2025.04.17.649224 — bioinformatics — Posted on 2025-06-11

3362 Distinct Transcriptomic Biomarkers and Pathways Associated with Cardiovascular and Neurovascular Dysregulation in Long COVID-19 Brain Fog

Ashfaque, O.; Kumar, H.; Mazumder, M.

10.1101/2025.06.10.656785 — bioinformatics — Posted on 2025-06-11

3363 SARS-CoV-2-induced dysregulation in ADAR editing patterns persists post viral clearance in individuals with mild COVID-19

Nair, A. M.; Piontkivska, H.

10.1101/2025.06.09.658648 — bioinformatics — Posted on 2025-06-11

3364 Photoreceptor network-modulated opto-biomanufacturing of bioactives from green lineage simply by illumination

Singh, R.; Arfin, H. U.; Sharma, A.; KATERIYA, S.

10.1101/2025.05.22.655495 — biochemistry — Posted on 2025-06-11

3365 STbayes: An R package for creating, fitting and understanding Bayesian models of social transmission

Chimento, M.; Hoppitt, W.

10.1101/2025.06.07.658152 — animal behavior and cognition — Posted on 2025-06-11

3366 The Sleep-Mood Connection: Temperament Modulates Neuroinflammation, Clock Genes, and Dopaminergic Receptors Expression in Rats

Carvalho, C.; Silva, F. E.; Carvalho, M.; Lima, J. E. C.; Chaves Filho, A. J.; Fries, G.; Sobreira-Neto, M.; Costa, D.; Fonteles, M.; Macedo, D. S.

10.1101/2025.06.09.658634 — animal behavior and cognition — Posted on 2025-06-11

3367 Dehalobacter dechlorinates dichloroanilines and contributes to the natural attenuation of dichloronitrobenzenes at a complex industrial site

Araujo, S. P.; Lomheim, L.; Kraus, S. P. Q.; Mack, E. E.; Spain, J. C.; Gavazza, S.; Edwards, E. A.

10.1101/2025.02.13.638192 — microbiology — Posted on 2025-06-11

3368 Eco-evolutionary feedbacks drive the co-occurrence of restriction-modification systems and antimicrobial resistance genes

Westley, J.; Bedekar, P.; Pursey, E.; Szczelkun, M. D.; Recker, M.; van Houte, S.; Westra, E.

10.1101/2025.06.11.659087 — microbiology — Posted on 2025-06-11

3369 The Susceptibility of Airborne SARS-CoV-2 to Far-UVC Irradiation

Angel, D. M.; Luhung, I.; Santos Guedes de Sa, K.; Peccia, J.

10.1101/2025.06.09.658611 — microbiology — Posted on 2025-06-11

3370 American mink as an animal model to study SARS-CoV-2 and vaccine response

Aaltonen, K.; Virtanen, J.; Kegler, K.; Venkat, V.; Kareinen, L.; Korhonen, E. M.; Niamsap, T.; Malmgren, R.; Korpela, J.; Naves, R. A.; Iso-Oja, M.; Svenns, S.; Haggvik, T.; Ojala, E.; Vapalahti, O.; Peura, J.; Sukura, A.; Ritvos, O.; Pasternack, A.; Nordgren, H.; Kant, R.; Sironen, T.

10.1101/2025.06.10.658224 — microbiology — Posted on 2025-06-11

3371 Adaptive suppression of threat-history stimuli

Nian, J.; Zhang, Y.; Luo, Y.

10.1101/2025.06.09.658555 — neuroscience — Posted on 2025-06-11

3372 Motor Neurons Decode Cholinergic Inputs via Spatially Distinct nAChR Subunits to Drive Locomotion in Drosophila larvae

Sitaula, A.; Olsen, L.; Mogharrabi, A.; Zarin, A. A.

10.1101/2025.06.07.658461 — neuroscience — Posted on 2025-06-11

3373 Connectivity Is All You Need: Inferring Neuronal Types with NTAC

Schwartzman, G.; Jourdan, B.; Garcia-Soriano, D.; Matsliah, A.

10.1101/2025.06.11.659184 — neuroscience — Posted on 2025-06-11

3374 Neural and behavioral consequences of bilateral maps in primary somatosensory cortex

Chokshi, V. B.; Chang, Y.-T.; Ra, D. M.; Erzurumlu, R. S.; O'Connor, D. H.

10.1101/2025.06.10.658919 — neuroscience — Posted on 2025-06-11

3375 EXTENDING PROTEIN LANGUAGE MODELS TO A VIRAL GENOMIC SCALE USING BIOLOGICALLY INDUCED SPARSE ATTENTION

Dejean, T. L.; Sawhney, R.; Harrigan, W.; Ferrell, B. D.; Schreiber, Z.; Polson, S. W.; Wommack, K. E.; Belcaid, M.

10.1101/2025.05.29.656907 — bioinformatics — Posted on 2025-06-11

3376 Optimizing Tissue Clearing Methods for Improved Imaging of Whole-Mount Retinas

Mutschler, A.; Malechka, V. V.; Baranov, P.; Soucy, J. R.

10.1101/2025.04.14.648787 — bioengineering — Posted on 2025-06-11

3377 Reducing flight time during running decreases tibial-fibular strains: a finite element analysis

Khassetarash, A.; Nigg, B.; Edwards, B.

10.1101/2024.10.17.618929 — bioengineering — Posted on 2025-06-11

3378 Optimization of Genome-wide CRISPR Screens using dual-guide RNA Infection with Cas9 Electroporation (DICE)

Purman, C.; Lu, C.; Modi, A.; Vijaykumar, V.; Flister, M.; den Hollander, A.; Kadri, S.; Stender, J. D.

10.1101/2025.06.09.658313 — genomics — Posted on 2025-06-11

3379 Translation Accuracy in E. coli

Stikeleather, R.; Ali, F.; Ho, W.-C.; Licknack, T.; Lynch, M.

10.1101/2025.04.18.649569 — evolutionary biology — Posted on 2025-06-11

3380 Single-cell transcriptional dynamics in a living vertebrate

Eck, E.; Moretti, B.; Schlomann, B. H.; Bragantini, J.; Lange, M.; Zhao, X.; VijayKumar, S.; Valentin, G.; Loureiro, C.; Franco, P. P.; Jollivet, C.; Motomochi, B.; Royer, L. A.; Oates, A. C.; Garcia, H. G.

10.1101/2024.01.03.574108 — developmental biology — Posted on 2025-06-11

3381 GRPhIN: Graphlet Characterization of Regulatory and Physical Interaction Networks

Barelvi, A.; Anderson, O.; Ritz, A.

10.1101/2025.02.19.639099 — systems biology — Posted on 2025-06-11

3382 Anterior cingulate cortex mixes retrospective cognitive signals and ongoing movement signatures during decision-making

Oesch, L. T.; Thomas, M. C.; Sandberg, D.; Couto, J.; Churchland, A. K.

10.1101/2025.04.11.648398 — neuroscience — Posted on 2025-06-11

3383 Ultra-wide-field, deep, adaptive two-photon microscopy

Yang, M.; Zhou, Z.-Q.; Lang, S.; Zheng, H.; Chen, S.; Li, T.; Stas, E.; Zhang, L.; Zhang, Z.; Uzungil, V.; Liu, Q.; Huang, Y.; Jing, L.; Li, Y.; Jia, H.; Li, M.; Li, X.; Li, J.; Tan, Y.; Yan, G.; Schultz, S. R.

10.1101/2025.06.07.658419 — neuroscience — Posted on 2025-06-11

3384 Computational enzyme design by catalytic motif scaffolding

Braun, M.; Tripp, A.; Chakatok, M.; Kaltenbrunner, S.; Fischer, C.; Totaro, M. G.; Moser, M.; Stoll, D.; Bijelic, A.; Elaily, W.; Hoch, S. Y. Y.; Lechner, H.; Rossi, F.; Aleotti, M.; Hall, M.; Oberdorfer, G.

10.1101/2024.08.02.606416 — biochemistry — Posted on 2025-06-11

3385 On the potential sources of a low-frequency sound percept only a few can hear

Baumann, B.; Voss, A.; Jurado, C.; Drexl, M.

10.1101/2025.06.07.658448 — biophysics — Posted on 2025-06-11

3386 Magellon - an extensible platform for cryo-EM data visualization, management, and processing

Khoshbin, B.; Damodar, P.; Garje, R. R.; Schotanus, F. H.; Nair, N.; Wei, L.; Schaefer, J.-H.; Lander, G. C.; Cianfrocco, M. A.; Stagg, S. M.

10.1101/2025.06.09.658726 — biophysics — Posted on 2025-06-11

3387 A reversible feedback mechanism regulating mitochondrial heme synthesis

Chitrakar, I.; Roberson, A. B.; Ayres-Galhardo, P. H.; Brown, B. L.

10.1101/2025.06.09.658730 — biochemistry — Posted on 2025-06-11

3388 DAPL1 deficiency impairs autophagy in retinal pigment epithelium to drive age-dependent retinal pathologies

Chen, H.; Tan, Q.; Hu, Y.; Liu, L.; Liang, X.; Hou, L.

10.1101/2025.06.09.658638 — molecular biology — Posted on 2025-06-11

3389 Fibrillin-Related Proteins Control Calcium Homeostasis in Dystrophic Muscle Across Species

Marchiafava, D.; Vidal-Gadea, A. G.

10.1101/2025.06.09.658655 — molecular biology — Posted on 2025-06-11

3390 Measles vaccine attenuation comprises innate immune cell infection and interferon responses

Andres, F. G.; Parusel, S.; Siering, O.; Acosta, F. M.; Skeele, D. A.; Ayasoufi, K.; Cattaneo, R.; Sawatsky, B.; Pfaller, C. K.

10.1101/2025.06.09.657851 — immunology — Posted on 2025-06-11

3391 Selective targeting of IL-1RAP-dependent eosinophilic inflammation in allergic fungal airway disease

Williams, T. J.; Griffiths, J. S.; Gonzales-Huerta, L. E.; Bell, D.; Reed, A. K.; Shah, A.; Naglik, J. R.; Armstrong-James, D.

10.1101/2025.06.09.658569 — immunology — Posted on 2025-06-11

3392 ALOX12B overexpression in the skin drives inflammasome/Th17 signaling axis to promote inflammation in the mouse model and human patients

Singh, S.; Ahmed, F.; Fatima, N.; Cholleti Sai, N.; Bhuktar, H.; Khan, R. A.; Afroz, S.; Battu, S.; Reddy, K. K.; Jagadeb, M.; Naz, S.; Sharma, N.; Philips, A. M.; Priscilla, T.; Vindal, V.; Kumar, M. J. M.; Oruganti, S.; Pal, M.; Reddanna, P.; Khan, N.

10.1101/2025.06.09.658245 — immunology — Posted on 2025-06-11

3393 Depletion of extracellular asparagine impairs self-reactive T cells and ameliorates autoimmunity in a murine model of multiple sclerosis

Georgiev, P.; Johnson, S.; Kurmi, K.; Hu, S.-H.; Han, S.; Patterson, D.; Nguyen, T.; Huang, L.; Liang, D.; Goldman, N.; Conway, T.; Creasey, H.; Rowe, J.; Haigis, M. C.; Sharpe, A. H.

10.1101/2025.06.09.658561 — immunology — Posted on 2025-06-11

3394 Bacterial metabolism of tryptophan causes toxicity in Caenorhabditis elegans

Gahlot, S.; Subodh, S.; Singh, J.

10.1101/2025.06.09.658597 — physiology — Posted on 2025-06-11

3395 Oblique Thick Light-Sheet Microscopy with Spatiotemporal 3D Localization for RNA Imaging in Intact 50 μm-Thick Sections

Cai, L.; Song, Q.; Cao, D.; Li, Q.; Wu, W.; Xiao, Y.; Chen, X.; Huang, S.; Yang, J.; Zhang, Y.; Huang, Z.-L.

10.1101/2025.06.09.658547 — biophysics — Posted on 2025-06-11

3396 Two peas in a pod: retroviral RNA dimers organize Gag-RNA nanoclusters with novel biophysical properties

Lambert, G. S.; Siedlecki, C. A.; Parent, L. J.

10.1101/2025.06.09.658653 — biophysics — Posted on 2025-06-11

3397 Heterologous expression of carbonic anhydrase in Acinetobacter sp. Tol 5 for whole-cell biocatalysis

Yoshimoto, S.; Oka, H.; Ohara, Y.; Chen, Y.-Y.; Ishikawa, M.; Hori, K.

10.1101/2025.06.09.658560 — bioengineering — Posted on 2025-06-11

3398 Establishing a standardized genetic toolkit for the radiation-resistant extremophile Deinococcus radiodurans

Simmons, T. R.; Cordova, A.; Grismore, K. B.; Moline, L. C.; Stankes, A. C.; Johnson, J.; Bok, C.; Contreras, L. M.

10.1101/2025.06.09.658681 — bioengineering — Posted on 2025-06-11

3399 A new FKBP51-GR-p23-Hsp902 multi-cochaperone complex identified and characterized by site-specific in-cell photocrosslinking

Taubert, M. C.; Kuehn, A.; Baischew, A.; Kaeseberg, Y.; Betschinske, J.; Hausch, F.

10.1101/2025.06.09.658717 — biochemistry — Posted on 2025-06-11

3400 Optimization of Genome-wide CRISPR Screens using dual-guide RNA Infection with Cas9 Electroporation (DICE)

Stender, J. D.; Purman, C.; Lu, C.; Modi, A.; Vijaykumar, V.; Flister, M.; den Hollander, A.; Kadri, S.

10.1101/2025.06.09.658313 — genomics — Posted on 2025-06-11

3401 Defective plasticity in dermatomyositis patients muscle stem cells is associated with sustained intrinsic inflammatory signaling and disruption of the histone H3.3 chromatin loading pathway

Bouchereau, W.; Chenane, L.; Lessard, L.; Weiss-Gayet, M.; Cardona, Y.; Mounier, R.; Gallay, L.; Allenbach, Y.; Benveniste, O.; Corpet, A.; Chazaud, B.; Lomonte, P.

10.1101/2025.06.09.658580 — molecular biology — Posted on 2025-06-11

3402 Unlocking River Biofilm Microbial Diversity: A Comparative Analysis of Sequencing Technologies

Anderson, M. A. J.; Thorpe, A. C.; Busi, S. B.; Gweon, H. S.; Warren, J.; Walsh, K.; Read, D. S.

10.1101/2025.06.09.658576 — molecular biology — Posted on 2025-06-11

3403 Dendritic cell-intrinsic TLR/MyD88 signaling promotes the clearance of a live-attenuated oral vaccine

He, Y.; Abdelsalam, A. M.; Li, C.; Liu, Z.; Fan, H.; Zhong, G.

10.1101/2025.06.09.658568 — immunology — Posted on 2025-06-11

3404 Kmo restricts Salmonella in a whole organism infection model by promoting macrophage lysosomal acidification through kainate receptor antagonism.

Goering, E. R.; Clatworthy, A. E.; Parada-Kusz, M.; Bagnall, J.; Hung, D. T.

10.1101/2025.06.09.658567 — immunology — Posted on 2025-06-11

3405 How Ikaros and Aiolos homo- and heterodimers drive gene expression to ensure B cell development

Deau, M.-C.; Heizmann, B.; Aukenova, A.; Heydt, Q.; Marchal, P.; Charvet, C.; le Gras, S.; Billas, I. M. L.; van Essen, D.; Saccani, S.; Kastner, P.; Chan, S.

10.1101/2025.06.09.658591 — immunology — Posted on 2025-06-11

3406 Impact of serum versus anticoagulant-containing plasma on influenza virusneuraminidase-based serological assays

Do, T.; Kent, S. J.; Wheatley, A. K.; Koutsakos, M.

10.1101/2025.06.07.658460 — immunology — Posted on 2025-06-11

3407 DEVELOPMENT OF A POTENT MONOCLONAL ANTIBODY FOR TREATMENT OF HUMAN METAPNEUMOVIRUS INFECTIONS

Harris, E. D.; McGovern, M.; Pernikoff, S.; Ikeda, R.; Kipnis, L.; Hannon, W.; Sobolik, E. B.; Gray, M.; Greninger, A. L.; He, S.; Chin, C.-N.; Fu, T.-M.; Pancera, M.; Boonyaratanakornkit, J.

10.1101/2025.06.09.657676 — immunology — Posted on 2025-06-11

3408 Melanopsin-mediated signals in natural and human-made environments

Barrionuevo, P. A.; Diaz Barrancas, F.

10.1101/2025.06.07.658429 — neuroscience — Posted on 2025-06-11

3409 Identification of dynamic models of microbial communities

Paredes-Vazquez, A.; Balsa-Canto, E.; Banga, J. R.

10.1101/2025.06.09.658565 — systems biology — Posted on 2025-06-11

3410 Undermining the cry for help: The phytopathogenic fungus Verticillium dahliae secretes an antimicrobial effector protein to undermine host recruitment of antagonistic Pseudomonas bacteria

Kraege, A.; Punt, W.; Doddi, A.; Zhu, J.; Schmitz, N.; Snelders, N.; Thomma, B.

10.1101/2025.06.09.658588 — plant biology — Posted on 2025-06-11

3411 Cholesterol-Responsive Interaction of NFE2L1-INSIG1 Controls VLDL Secretion and MASH Pathogenesis

Deng, S.; Freed, J.; Lee, G. Y.; Askin, G.; Cao, Z.; Cakici, O.; Yuan, B.; Hui, S. T.; Graupera, I.; Hotamisligil, G. S.

10.1101/2025.06.09.657856 — physiology — Posted on 2025-06-11

3412 Highly accurate protein structure prediction-based virtual docking pipeline accelerating the identification of anti-schistosomal compounds

Cheng, W.; Gu, M.; Wang, Y.; Wang, J.; Li, S.; Chen, G.; Chen, X.; Oyeyemi, O. T.; Hong, Y.; Hu, W.; WANG, J.

10.1101/2025.06.09.658570 — pathology — Posted on 2025-06-11

3413 De novo acyl carrier proteins display structure-independent modification and sequence novelty

Herrera, M. A.; Ozols, Z.; Charkoudian, L. K.; Campopiano, D. J.

10.1101/2025.06.07.658270 — bioengineering — Posted on 2025-06-11

3414 Development of Emerin mRNA Lipid Nanoparticles to Rescue Myogenic Differentiation

Marano, N.; Guner, L. E.; Riley, R. S.; Holaska, J. M.

10.1101/2025.06.11.659076 — cell biology — Posted on 2025-06-11

3415 Loss of B cell tolerance at the T2/T3a B cell transition is a convergent pathogenic mechanism in common variable immunodeficiency

Hillier, K.; Yuen, G.; Hui, A.; Kumar, S.; Roy, P. G.; McColgan, J.; Zaldana, K.; Premo, K.; Kaneko, N.; Ingram, N.; Barmettler, S.; Ghebremichael, M.; Walter, J. E.; Perugino, C. A.; Das, J.; Farmer, J. R.; Pillai, S.

10.1101/2025.06.07.658167 — immunology — Posted on 2025-06-11

3416 EGR3 Deletion Rescues Developmental and Epileptic Encephalopathy in Kcna1-null Mice

Mazumder, A. G.; Karedia, S.; Adhyapak, N.; Bass, J. S.; Kamen, J. L.; Jankovic, M.; Miao, Q.; Gallitano, A. L.; Saltzman, A. B.; Jain, A.; Malovannaya, A.; Glasscock, E.; Aiba, I.; Noebels, J. L.; Krishnan, V.

10.1101/2025.06.07.658422 — neuroscience — Posted on 2025-06-11

3417 Inflammatory Crosstalk Between Rotator Cuff Tissues is Altered with Age and Sex

Kalco, H.; Pajevic, P. D.; Thompson, L. V.; Connizzo, B. K.

10.1101/2025.06.10.658924 — bioengineering — Posted on 2025-06-11

3418 Mechanostimulatory cues determine intestinal fibroblast fate and profibrotic remodeling in a physiodynamic human gut-on-a-chip

Min, S.; Than, N.; Shin, Y. C.; Ertugral, E. G.; Kothapalli, C.; Awoniyi, M.; Kim, H. J.

10.1101/2025.06.07.658434 — bioengineering — Posted on 2025-06-11

3419 Bioinspired Oxidized mRNA Lipid Nanoparticles for Ex Vivo Engineering of Chimeric Antigen Receptor Macrophages Targeting Solid Tumors

Mukalel, A. J.; Tylek, T.; O'Brien, E.; Frazee, C.; Geisler, H. C.; Li, J.; Thatte, A. S.; Safford, H. C.; Figueroa-Espada, C. G.; Alameh, M.-G.; Hamilton, A. G.; Mai, D.; Sheppard, N. C.; June, C. H.; Weissman, D.; Spiller, K. L.; Mitchell, M. J.

10.1101/2025.06.07.658363 — bioengineering — Posted on 2025-06-11

3420 Structural Identification of Major Molecular Determinants for Phosphotyrosine Recognition in Tyrosine Kinases Reveals Tumour Promoting and Suppressive Functions

Cheng, N.; Millan-Barea, L. R.; Creixell, M.; Barr, A. R.; Kong, Y. W.; Joughin, B. A.; Lopez, C. K.; Lengefeld, J.; Clarke, J.; Liu, C.; Sriram, G.; Gonzalez-Robles, T. J.; van de Kooij, B.; Savickas, S.; Schoof, E. M.; Johnson, J. L.; Bakal, C.; Cantley, L. C.; Chiarle, R.; Pritchard, J.; Hubbard, S.; Huntly, B. J. P.; Hemann, M.; Creixell, P.; Yaffe, M. B.

10.1101/2025.06.10.658871 — biochemistry — Posted on 2025-06-11

3421 Electroporation-Based Gene Delivery and Whole-Organoid Imaging in Human Retinal Organoids

Flohr, K.; Janecek, M.; Wang, L.; Valle, V.; Pi, S.; Peixoto, R.; da Silva, S.

10.1101/2025.06.07.658463 — developmental biology — Posted on 2025-06-11

3422 Ring canals in the larval adipose of Drosophila buffer stress response

Nandakumar, S.; Vasudevan, D.

10.1101/2025.06.11.658881 — cell biology — Posted on 2025-06-11

3423 MAFA Phosphorylation Controls Beta-Cell Identity and Sex-Specific Pancreatic Disease Outcomes

Ka, M.; Druillennec, S.; Chabi, S.; Roulle, C.; NG, D. Y.; PECHOUX, C.; Messaoudi, C.; Walczak, C.; Soler, M.-N.; Besse, L.; Lecoin, L.; Majo, S.; Gradwohl, G.; Eychene, A.; Terris, B.; Pouponnot, C.; DUVILLIE, B.

10.1101/2025.06.11.659123 — cell biology — Posted on 2025-06-11

3424 Neural basis of cognitive control signals in anterior cingulate cortex during delay discounting

Seamans, J. K.; Emberly, E.; White, S. M.; Morningstar, M.; Linsenbardt, D. N.; Ma, B.; Czachowski, C. L.; Lapish, C.

10.1101/2024.06.07.597894 — neuroscience — Posted on 2025-06-11

3425 Dimerization and dynamics of angiotensin-I converting enzyme revealed by cryo-EM and MD simulations

mancl, j. M.; Wu, X.; Zhao, M.; Tang, W.-J.

10.1101/2025.01.09.632263 — biophysics — Posted on 2025-06-11

3426 Insilico investigation of novel Plasmodium Falciparum Glycogen Synthase Kinase(pfGSk3β) inhibitors for the treatment of malaria infection

Adebambo, K. F.; Ottify, S.

10.1101/2025.06.07.658456 — bioinformatics — Posted on 2025-06-11

3427 Single-cell multi-omic analysis of mesenchymal cells reveals molecular signatures and putative regulators of lung allograft fibrosis

Lu, L.; McLinden, A. P.; Walker, N. M.; Vittal, R.; Wang, Y.; Russell, S. T.; Combs, M. P.; Welch, J. D.; Lama, V. N.

10.1101/2024.11.27.625698 — bioinformatics — Posted on 2025-06-11

3428 Dogme: A nextflow pipeline for reprocessing nanopore RNA and DNA modifications

Abdollahzadeh, E.; Mortazavi, A.

10.1101/2025.06.04.657941 — genomics — Posted on 2025-06-11

3429 VNC-Dist: A machine learning-based semi-automated pipeline for quantification of neuronal positioning in the C. elegans ventral nerve cord

Saharkhiz, S.; Chan, W.; Kirezi, C. B.; Petite, M.; Roenspies, T.; Perkins, T. J.; Colavita, A.

10.1101/2024.11.16.623955 — developmental biology — Posted on 2025-06-11

3430 Cross-species Standardised Cortico-Subcortical Tractography

Assimopoulos, S.; Warrington, S.; Folloni, D.; Bryant, K.; Tang, W.; Jbabdi, S.; Heilbronner, S.; Mars, R. B.; Sotiropoulos, S. N.

10.1101/2025.04.29.651254 — neuroscience — Posted on 2025-06-11

3431 Afadin-deficient retinas exhibit severe neuronal lamination defects but preserve visual functions

Ueno, A.; Sakuta, K.; Ono, H.; Hashio, A.; Tokumoto, H.; Watanabe, M.; Nishimoto, T.; Konishi, T.; Emori, Y.; Mizuno, S.; Hiratsuka, M.; Miyoshi, J.; Takai, Y.; Tachibana, M.; Koike, C.

10.1101/2024.12.24.630271 — neuroscience — Posted on 2025-06-11

3432 Internalized α-synuclein fibrils become truncated and resist degradation in neurons while glial cells rapidly degrade α-synuclein fibrils.

Karim, M. R.; Tiegs, E.; Gasparini, E.; Schlichte, R.; Vermilyea, S. C.; Lee, M. K.

10.1101/2024.06.05.597615 — neuroscience — Posted on 2025-06-11

3433 Neuro-musculoskeletal modeling reveals muscle-level neural dynamics of adaptive learning in sensorimotor cortex

DeWolf, T.; Schneider, S.; Soubiran, P.; Roggenbach, A.; Muratore, P.; Mathis, M.

10.1101/2024.09.11.612513 — neuroscience — Posted on 2025-06-11

3434 PRESYNAPTIC MUSCARINIC-NICOTINIC MODULATION of GABAergic INPUTS to NEURONS in the REM SLEEP (REM-S) EXECUTIVE AREA of the ROSTRAL PONS

Pino, E.; Kunizawa, H. T.; Borde, M.

10.1101/2025.06.09.658683 — neuroscience — Posted on 2025-06-11

3435 Morphology and ultrastructure of pharyngeal sense organs of Drosophila larvae

Richter, V.; Triphan, T.; Cardona, A.; Thum, A. S.

10.1101/2025.06.07.657386 — neuroscience — Posted on 2025-06-11

3436 Ultra-wide-field, deep, adaptive two-photon microscopy

10.1101/2025.06.07.658419 — neuroscience — Posted on 2025-06-11

3437 SLAB: Simultaneous Labeling And Binding affinity prediction for protein-ligand structures

Ranganath, A.; Kim, H.; Shim, H.; Allen, J. E.

10.1101/2025.06.03.657720 — pharmacology and toxicology — Posted on 2025-06-11

3438 Multiple modes of cholesterol translocation in the human Smoothened receptor

Bansal, P. D.; Kinnebrew, M.; Rohatgi, R.; Shukla, D.

10.1101/2024.11.25.625241 — biochemistry — Posted on 2025-06-11

3439 Evaluating transportability of in-vitro cellular models to in-vivo human phenotypes using gene perturbation data

Howe, L. J.; Aulchenko, Y.; Davey Smith, G.; Davies, N. M.; Esparza Gordillo, J.; Johnson, T.; Liu, J. Z.; Richardson, T. G.; Sanseau, P.; Scott, R. A.; Seaton, D. D.; Sharma, A.; Cortes, A.

10.1101/2024.10.17.618648 — genetics — Posted on 2025-06-11

3440 Genetic parallels in biomineralization of the calcareous sponge Sycon ciliatum and stony corals

Voigt, O.; Wilde, M. V.; Fröhlich, T.; Fradusco, B.; Vargas, S.; Wörheide, G.

10.1101/2025.02.06.636789 — evolutionary biology — Posted on 2025-06-11

3441 A Molecular, Spatial, and Regulatory Atlas of the Hydra vulgaris Nervous System

Morris Little, H.; Primack, A. S.; Tsverov, J.; Mühlbauer, S.; Cox, B. D.; Busse, C.; Schneid, S.; Louwagie, A.; Cazet, J. F.; David, C. N.; Farrell, J. A.; Juliano, C.

10.1101/2023.03.15.531610 — developmental biology — Posted on 2025-06-11

3442 Failed Cellular Surveillance Enables Pathogenic Matrix Deposition in a COL2A1-Related Osteoarthritis

Yammine, K. M.; Abularach, S. M.; Xiong, M.; Kim, S.-y.; Bikovtseva, A. A.; Butty, V.; Schiavoni, R. P.; Bateman, J. F.; Lamande, S. R.; Shoulders, M. D.

10.1101/2024.11.07.622468 — cell biology — Posted on 2025-06-11

3443 Microglia Adopt Temporally Specific States after Irradiation, Correlating with Neuronal Asynchrony

Lastra Romero, A.; Preka, E.; Pizzirusso, G.; Arroyo-Garcia, L. E.; Zisiadis, G. A.; Oliva-Vilarnau, N.; Ruchiy, Y.; Seitz, T.; Zhou, K.; Gonzalez Isla, A.; Friess, L.; Sun, Y.; Querol Canut, M.; Shamikh, A.; Xu, Y.; Zhu, C.; Rodrigues, C.; Fisahn, A.; Joseph, B.; Carlson, L.-M.; Fragkopoulou, A.; Lauschke, V.; Betsholtz, C.; Osman, A.; Blomgren, K.

10.1101/2025.02.15.638339 — neuroscience — Posted on 2025-06-11

3444 A single computational objective can produce specialization of streams in visual cortex

Finzi, D.; Margalit, E.; Kay, K.; Yamins, D. L. K.; Grill-Spector, K.

10.1101/2023.12.19.572460 — neuroscience — Posted on 2025-06-11

3445 Single-cell multiomics identifies both shared and unique features of immune dysfunction in Parkinson's disease and inflammatory bowel disease colon, plasma and stool

Bolen, M. L.; Buendia, M.; Shi, J.; Staley, H.; Kachergus, J. M.; Efron, P. A.; Park, G.; Nagpal, R.; Alvarez, S. D.; Xue, Q.-S.; McFarland, N. R.; Zimmermann, E. M.; Forsmark, C. E.; Menees, K. B.; Salas, A.; Thompson, E. A.; Tansey, M. G.

10.1101/2025.04.29.651228 — neuroscience — Posted on 2025-06-11

3446 Metabolic constraints modulate the likelihood and predictability of global epistasis

Venkataraman, P.; Saini, S.

10.1101/2025.02.04.636564 — evolutionary biology — Posted on 2025-06-11

3447 Variation in a microbial mutualist has transcriptional and phenotypic consequences for host-parasite interactions

Buxton-Martin, A.; Gluck-Thaler, E.; Yi, E.; Stinchcombe, J. R.; Wood, C. W.

10.1101/2024.07.15.603596 — ecology — Posted on 2025-06-11

3448 Multi-task benchmarking of single-cell multimodal omics integration methods

Liu, C.; Ding, S.; Kim, J. H.; Long, S.; Xiao, D.; Ghazanfar, S.; Yang, P.

10.1101/2024.09.15.613149 — bioinformatics — Posted on 2025-06-11

3449 Genomic Insights into a Versatile Deep-Sea Methanotroph Constituting the Rare Biosphere of a Brazilian Carbonate Mound Complex

Butarelli, A. C.; Nakamura, F. M.; Vilela Peres, F.; Modolon da Silva, F.; Bendia, A.; Basti, R.; Mahiques, M.; Sumida, P.; Pellizari, V. H.

10.1101/2025.06.09.658676 — microbiology — Posted on 2025-06-11

3450 Small tau aggregates exhibit disease-specific molecular profiles across tauopathies

Böken, D.; Huang, M.; Wu, Y.; Fertan, E.; Lam, J. Y. L.; Meisl, G.; Baig, S.; Rowe, J.; Smith, C.; Quaegebeur, A.; Cox, D.; McEwan, W. A.; Klenerman, D.

10.1101/2025.06.10.658934 — neuroscience — Posted on 2025-06-11

3451 Large-scale bidirectional arrayed genetic screens identify OXR1 and EMC4 as modifiers of α-synuclein aggregation

Neupane, S.; Nikolic, L.; Maraio, L.; Goiran, T.; Karpilovsky, N.; Sellitto, S.; Bouris, V.; Yin, J.-A.; Melki, R.; Fon, E. A.; De Cecco, E.; Aguzzi, A.

10.1101/2025.06.10.658866 — neuroscience — Posted on 2025-06-11

3452 Lowering the HTT1a transcript as an effective therapy for Huntingtons disease

Papadopoulou, A. S.; Alterman, J.; Landles, C.; Smith, E. J.; Conroy, F.; Phillips, J.; Canibano-Pico, M.; Nita, I. M.; Osborne, G. F.; Iqbal, A.; Aldous, S. G.; Bondulich, M. K.; Gomez-Paredes, C.; Sathasivam, K.; O'Reilly, D.; Echeverria, D.; Bobkov, K.; Greene, J. R.; Aronin, N.; Khvorova, A.; Bates, G. P.

10.1101/2025.06.10.658804 — neuroscience — Posted on 2025-06-11

3453 Metadimensional simulation for biochemistry and pharmacology learning

Liguori, M. A. S.; Aparicio, A. F.; Rocha e Silva, T. A.

10.1101/2025.06.10.658848 — pharmacology and toxicology — Posted on 2025-06-11

3454 Small Extracellular Vesicles from Radioresistant H3K27M-Pediatric Diffuse Midline Glioma Cells Modulate Tumor Phenotypes and Radiation Response

Oza, V. D.; Flores, K. A.; Chernyavskaya, Y.; Al Hamaly, M. A.; Smith, C. B.; Bruntz, R. C.; Blackburn, J. S.

10.1101/2025.04.14.648723 — cancer biology — Posted on 2025-06-11

3455 Gender-specific MetS prediction using pathophysiological determinants: Beyond diagnostic constraints

Desai, K.; Kundu, I.; Verma, V.; S, A. M.; Sudhakar, M.; Menon, J.; Idicula-Thomas, S.

10.1101/2025.06.10.658812 — bioinformatics — Posted on 2025-06-11

3456 Detect de novo expressed ORFs in transcriptomes withDESwoMAN

Grandchamp, A.; Lebherz, M. K.; Dohmen, E.

10.1101/2025.06.10.658796 — bioinformatics — Posted on 2025-06-11

3457 Comparative Analysis of Deep Learning Models for Predicting Causative Regulatory Variants

Manzo, G.; Borkowski, K.; Ovcharenko, I.

10.1101/2025.05.19.654920 — bioinformatics — Posted on 2025-06-11

3458 Scalable 3D Bioprinting of Human Islets in a Pancreatic Decellularized Extracellular Matrix-Enriched Bioink for Beta-Cell Replacement Therapy

Jeong, W.; Perrier, Q.; Rengaraj, A.; Byers, L.; Gonzalez, G. C.; Peveri, E.; Miller, J.; Bottino, R.; Mikhailov, A. V.; Fraker, C.; Opara, E. C.; Tomei, A. A.; Lee, S. J.; Orlando, G.; Asthana, A.

10.1101/2025.06.06.658360 — bioengineering — Posted on 2025-06-11

3459 Collaboration between two conserved sequence motifs drives ATPase stimulation of Hsp90 by Aha1

Amoah, D. P.; Mercier, R.; Alyousef, G.; Johnson, J. L.; LaPointe, P.

10.1101/2025.06.10.658861 — biochemistry — Posted on 2025-06-11

3460 The assembly of the membrane arm of mitochondrial complex I follows evolutionarily distinct routes

Parlar, S.; Marofke, M.; Kühn, K.; Gawryluk, R.; Meyer, E.

10.1101/2025.06.10.658862 — biochemistry — Posted on 2025-06-11

3461 Unsupervised discovery and predictive sensorimotor transformation of spider prey capture through active vibration sensing

Hung, H.-Y.; Corver, A.; Gordus, A. G.

10.1101/2025.06.08.658484 — animal behavior and cognition — Posted on 2025-06-11

3462 Start right to end right: authentic open reading frame selection matters

Bagherian, M.; Harris, G.; Sathishkumar, P.; Lloyd, J. P. B.

10.1101/2025.06.10.658836 — genomics — Posted on 2025-06-11

3463 The genome of the charismatic sea star Linckia laevigata

Trimble, C. J.; Laumer, C. E.; Lamare, M.; Carter, H. F.; Byrne, M.; Fellner, M.; Williams, S. T.; Kenny, N. J.

10.1101/2025.06.09.658723 — genetics — Posted on 2025-06-11

3464 Universal bacterial clade dynamics dominate under predation despite altered phenotypes and mutation targets

Kiciatovas, D.; Cairns, J.; Partanen, V.; Hoffmann, J.; Becks, L.; Hiltunen, T.; Mustonen, V.

10.1101/2025.02.04.636436 — evolutionary biology — Posted on 2025-06-11

3465 MuRF1 partners with TRIM72 to impair insulin signalling in skeletal muscle cells

Musa, I.; Seabright, A. P.; Nishimura, Y.

10.1101/2025.06.08.658491 — molecular biology — Posted on 2025-06-11

3466 GPT-4V shows human-like social perceptual capabilities at phenomenological and neural levels

Santavirta, S.; Wu, Y.; Suominen, L.; Nummenmaa, L.

10.1101/2024.08.20.608741 — neuroscience — Posted on 2025-06-11

3467 Introducing PIGMO, a novel PIGmented MOuse model of Parkinson's disease

Chocarro, J.; Marana, S.; Espelosin, M.; Rico, A. J.; Ariznabarreta, G.; Lorenzo-Ramos, E.; Ilarduya, M. M.; Hernandez-Alcoceba, R.; Chillon, M.; Vila, M.; Kordower, J.; Schapira, A. H. V.; Garcia-Osta, A.; Cuadrado-Tejedor, M.; Lanciego, J. L.

10.1101/2025.05.09.653000 — neuroscience — Posted on 2025-06-11

3468 OligoSeq: Rapid nanopore-sequencing of single-stranded oligonucleotides

Ramirez Garcia, R.; Heinis, T.

10.1101/2025.06.10.658886 — synthetic biology — Posted on 2025-06-11

3469 Multi-agent AI System for High Quality Metadata Curation at Scale

Mondal, R.; Dhruw, N. K.; Sen, M.; Sengupta, S.; Maity, W.; Palapetta, S.; Jha, A.

10.1101/2025.06.10.658658 — scientific communication and education — Posted on 2025-06-11

3470 Tissue-Specific Iron Levels Modulate Lipid Peroxidation and the FLASH Radiotherapy Effect

Vilaplana Lopera, N.; Kim, J.; Nam, G.; Tullis, I. D. C.; Paillas, S.; Ruan, J.-L.; Lee, P. J.; Jiang, Y.; Park, S.; Hou, T.; Nasir, A.; Charlesworth, E.; Walker, E.; Abu-Halawa, A.; Hill, M. A.; Choi, C.; Lee, I. J.; Jeong, Y.; Lakhal-Littleton, S.; Then, C. K.; Shen, S.-C.; Giaccia, A.; Petersson, K.; Moon, E. J.

10.1101/2025.05.14.653978 — cancer biology — Posted on 2025-06-11

3471 ChemBERTaDDI: Transformer Driven Molecular Structures and Clinical Data for predicting drug-drug interactions

Gromova, A. A.; Maida, A. S.

10.1101/2025.01.22.634309 — bioinformatics — Posted on 2025-06-11

3472 Lipid interactions are important for the Tol-Pal complex in maintaining outer membrane lipid homeostasis

Lim, N. Z.-L.; Carey, R. A.; Poh, W.-C.; Stansfeld, P. J.; Chng, S.-S.

10.1101/2025.06.10.658765 — biochemistry — Posted on 2025-06-11

3473 ATP2B1 expression identifies human hematopoietic stem cells across ontogeny with superior repopulation and self-renewal capacity

Varesi, A.; Nagree, M.; Di Biasio, I.; Zeng, A. G. X.; Shah, S.; Kim, H.; Zhang, M.; Murison, A.; Dick, J. E.; Xie, S. Z.

10.1101/2025.06.11.659017 — cell biology — Posted on 2025-06-11

3474 ATXN3 regulates lysosome regeneration after damage by targeting K48-K63-branched ubiquitin chains

Reinders, M.; Kravic, B.; Gahlot, P.; van den Boom, J.; Schulze, N.; Levantovsky, S.; Kleine, S.; Kaiser, M.; Kulathu, Y.; Behrends, C.; Meyer, H.

10.1101/2025.06.10.656592 — cell biology — Posted on 2025-06-11

3475 Human meibomian gland organoids to study epithelial homeostasis and dysfunction

Yu, C.; Wan, X.; Wei, J.; Wu, X.; Xu, Z.; Wang, X.; Mi, Y.; Zhang, Y.; Wu, D.; Zhou, X.; Le, Q.; Xu, J.; Zhao, C.; Sun, X.; Zhou, X.; Hong, J.; Zhao, B.

10.1101/2025.06.10.658800 — cell biology — Posted on 2025-06-11

3476 The microcephaly-associated protein YIPF5 differentially regulates ER-export

Bruno, F.; Anitei, M.; Di Fraia, D.; Durso, W.; Dau, T.; Cirri, E.; Sannai, M.; Valkova, C.; Maldutyte, J.; Miller, E. A.; Rubio, I.; Garloff, V.; Kersten, N.; Farias, G. G.; Ori, A.; Mestres, I.; Calegari, F.; Kaether, C.

10.1101/2025.06.11.659036 — cell biology — Posted on 2025-06-11

3477 The mitochondrial unfolded protein response and metabolic reprogramming promote PASMC proliferation in response to sphingosine kinase-1/sphingosine-1-phosphate signaling

Lockett, A. D.; Snow, A.; Adogamhe, P.; Sysol, J.; Yadav, M.; Mubuuke, T.; Gomes, M. T.; Cook, T.; Fisher, A.; Aldred, M.; Machado, R. F.

10.1101/2025.06.10.658872 — cell biology — Posted on 2025-06-11

3478 KRT6A and KRT17 mark distinct stem cell populations in the adult palpebral conjunctiva and Meibomian gland

Zhu, X.; Xu, M.; Owens, D. M.; Millar, S. E.

10.1101/2025.06.10.658923 — cell biology — Posted on 2025-06-11

3479 Complex I Governs Iron Levels in Bat Mitochondria to Couple Respiration with Lipid Metabolism

Zeng, W.; Peng, P.; Chen, C.; Wang, D.; Cao, L.; Wang, Z.; Xia, Y.; Qiu, J.

10.1101/2025.06.10.658522 — cell biology — Posted on 2025-06-11

3480 Dynamic regulation of origin firing factors links CDK activity to dormant origin activation

Hossain, M. S.; Sansam, C. G.; Wittig, K. A.; Noble, T. D.; Boyd, K. A.; Sansam, C. L.

10.1101/2025.06.10.657920 — cell biology — Posted on 2025-06-11

3481 TrAEL-seq captures DNA replication dynamics in mammalian cells

Kara, N.; Biggins, L.; Grinkevich, V.; Whale, A.; Garran Garcia, P.; Srinivasan, J.; Rugg-Gunn, P.; Andrews, S.; Parry, A.; Robinson, H. M. R.; Houseley, J.

10.1101/2025.06.09.658559 — molecular biology — Posted on 2025-06-11

3482 Mycobacterium tuberculosis effector protein PE5 hijacks the host CRL2 ubiquitin ligase complex

Madduri, B. T. S. A.; Vehra, O.; Han, A.; Radeny, J.; Resstel, C.; Bell, S. L.

10.1101/2025.06.11.659056 — microbiology — Posted on 2025-06-11

3483 Maintenance of chronic neuroinflammation in multiple sclerosis via interferon signaling and CD8 T cell-mediated cytotoxicity

Raza, S. A.; Enose-Akahata, Y.; Blazier, A.; Guerra, L. M.; Beck, E. S.; Gaitan, M. I.; Ngouth, N.; Drijvers, J. M.; Dammer, E. B.; Moodley, D.; Johnson, K. R.; Absinta, M.; TURNER, T. J.; Ransohoff, R. M. J.; Jacobson, S.; Ofengeim, D.; Cahir-McFarland, E.; Reich, D. S.

10.1101/2025.06.09.658729 — immunology — Posted on 2025-06-11

3484 Target configuration determines how and what we learn during sensorimotor adaptation

Villavicencio, P.; Tsay, J. S.; de la Malla, C.

10.1101/2025.06.10.658797 — neuroscience — Posted on 2025-06-11

3485 Circadian Variation in Salivary Oxytocin in young adult women

Teixeira de Almeida, M.; Quattrocchi, L.; Perroud, N.; Aboulafia Brakha, T.

10.1101/2025.03.26.645423 — neuroscience — Posted on 2025-06-11

3486 Neural responses underlying ITD discrimination as a function of sensory reliability in the barn owl

Fischer, B. J.; Shadron, K.; Keller, C. H.; Bala, A. D. S.; Cazettes, F.; Ferger, R.; Pena, J. L.

10.1101/2025.06.10.658945 — neuroscience — Posted on 2025-06-11

3487 Interdependency between oxytocin and dopamine in trust-based learning in mice

Budniok, S.; Callaerts-Vegh, Z.; Bakermans-Kranenburg, M.; Bosmans, G.; D'Hooge, R.

10.1101/2025.06.11.659016 — neuroscience — Posted on 2025-06-11

3488 Brain cholesterol metabolites cause significant neurodegeneration in human iPSC-derived neurons

Feng, Y.; Mazumder, B.; Konno, T.; Hui, E.; Brockhoff, M.; Davi, V.; Lu, M.; Ward, E. N.; Stephens, A.; Dai, W.; Fernandez-Villegas, A.; Fusco, G.; Ali Asgari, M.; Avezov, E.; De Simone, A.; Wang, Y.; Griffiths, W. J.; Kaminski, C. F.; Kaminski Schierle, G. S.

10.1101/2025.06.10.656594 — neuroscience — Posted on 2025-06-11

3489 Dynamic regulation of mRNA acetylation at synapses by spatial memory in mouse hippocampus

Zhou, H.-Q.; Zhu, Z.; Zhang, J.-W.; Lin, W.-P.; Jin, H.-J.; Ding, Y.-Y.; Liu, S.; Yin, D.-M.

10.1101/2024.06.01.596932 — neuroscience — Posted on 2025-06-11

3490 Evidence for systematic - yet task- and motor-contingent - rhythmicity of auditory perceptual judgements

Fabio, C.; Kayser, C.

10.1101/2024.12.17.628892 — neuroscience — Posted on 2025-06-11

3491 Dissecting the genetic architecture of flowering and maturity time in almond (Prunus dulcis): heritability estimates and breeding value predictions from historical data

GOMEZ ABAJO, M. D. M.; Dicenta, F.; Martinez-Garcia, P. J.

10.1101/2025.06.06.658198 — plant biology — Posted on 2025-06-11

3492 Phosphodiesterase 1A physically interacts with YTHDF2 and reinforces the progression of non-small cell lung cancer

Zhang, C.; Zhang, Z.; Wu, Y.; Wu, Y.; Cheng, J.; Luo, K.; Li, Z.; Zhang, M.; Wang, J.; Zhang, X.; Li, Y.

10.1101/2024.05.21.595220 — cancer biology — Posted on 2025-06-11

3493 All-optical Diamond Heater-Thermometer enables versatile and reliable thermal modulation of ion channels at the single-cell level

Rougier, J.-S.; Glushkov, E.; Guichard, S.; Kucera, J.; Zeeb, V.; Abriel, H.

10.1101/2025.06.03.657561 — biophysics — Posted on 2025-06-11

3494 Embodiment of a functionally altered virtual arm in adults and children

Johannsen, L.; Pi, Y.; Thurlbeck, S.; Gillies, M.; Pan, X.; Cowie, D.

10.1101/2025.01.03.631079 — animal behavior and cognition — Posted on 2025-06-11

3495 Future climate and land use change will equally impact global terrestrial vertebrate diversity

Hari, C.; Hickler, T.; Hof, C.; Reyer, C. P. O.; Vanderkelen, I.; Voskamp, A.; Biber, M. F.; Fischer, M.; Davin, E. L.

10.1101/2024.12.13.627895 — ecology — Posted on 2025-06-11

3496 A globally influential area-condition metric is a poor proxy for invertebrate biodiversity

Duffus, N. E.; Atkins, T. B.; zu Ermgassen, S. O. S. E.; Grenyer, R.; Bull, J. W.; Castell, D. A.; Stone, B.; Tooher, N.; Milner-Gulland, E. J.; Lewis, O. T.

10.1101/2024.10.02.616290 — ecology — Posted on 2025-06-11

3497 Nephron segmentation and patterning in kidney organoids can be modulated by distinct FGF subfamily members

Zylberberg, A. K.; Scully, E. I.; Er, P. X.; Baric, H.; Scurr, M.; Xie, M.; Peiris, T.; Howden, S. E.; Lawlor, K. T.; Little, M. H.

10.1101/2025.06.10.658766 — developmental biology — Posted on 2025-06-11

3498 Cross-species insemination reveals mouse sperm ability to locate and cross the fish micropyle

Garibova, S.; Stickler, E.; AlAli, F.; Abdulla, M. A.; Sathappan, A.; Da'as, S.; Ghanem, L.; Djekidel, M. N.; Portman, R.; Avella, M.

10.1101/2025.03.29.646094 — developmental biology — Posted on 2025-06-11

3499 Transcriptional Dynamics Uncover the Role of BNIP3 in Mitophagy during Muscle Remodeling in Drosophila

Taoka, H.; Murakawa, T.; Kawaguchi, K.; Koizumi, M.; Kaminishi, T.; Sakamaki, Y.; Tanaka, K.; Harada, A.; Inoue, K.; Kanki, T.; Ohkawa, Y.; Fujita, N.

10.1101/2024.12.30.630714 — cell biology — Posted on 2025-06-11

3500 Functional characterisation of neuropeptides that act as ligands for both calcitonin-type and pigment-dispersing factor-type receptors in a deuterostome

Cong, X.; Liu, H.; Egertova, M.; Elphick, M. R.; Chen, M.

10.1101/2024.08.29.610391 — neuroscience — Posted on 2025-06-11

3501 Multi-timescale neural adaptation underlying long-term musculoskeletal reorganization.

philipp, R.; Hara, Y.; Uchida, N.; Ota, N.; Oya, T.; Funato, T.; Seki, K.

10.1101/2024.10.18.618983 — neuroscience — Posted on 2025-06-11

3502 Causality-aware graph neural networks for functional stratification and phenotype prediction at scale

Triantafyllidis, C.; Aguas, R.

10.1101/2024.12.28.630070 — systems biology — Posted on 2025-06-11

3503 Biophysical fitness landscape design traps viral evolution

Mohanty, V.; Shakhnovich, E. I.

10.1101/2025.03.30.646233 — biophysics — Posted on 2025-06-10

3504 A spatial long-read approach at near-single-cell resolution reveals developmental regulation of splicing and polyadenylation sites in distinct cortical layers and cell types.

Foord, C.; Prjibelski, A. D.; Hu, W.; Michielsen, L.; Vandelli, A.; Narykov, O.; Evans, B.; Hsu, J.; Belchikov, N.; Jarroux, J.; He, Y.; Ross, M. E.; Hajirasouliha, I.; Tartaglia, G. G.; Korkin, D.; Tomescu, A. I.; Tilgner, H. U.

10.1101/2025.06.10.658877 — genomics — Posted on 2025-06-10

3505 Quantitative trait loci mapping of gene expression and chromatin accessibility in primary fibroblast reveals shared allelic effects between Latin American and European ancestries

Boltz, T.; Bot, M.; Lapinska, S.; Schwarz, T.; Hou, K.; Garske, K. M.; Freund, M. K.; Bearden, C. E.; Macaya, G.; Lopez-Jaramillo, C.; Freimer, N. B.; Boks, M. P.; Kahn, R. S.; Pasaniuc, B.; Ophoff, R. A.

10.1101/2025.06.09.658613 — genomics — Posted on 2025-06-10

3506 Deciphering the dynamic proteome of multiciliated cells

Boutin, C.; Rosnet, O.; Touret, M.; Audebert, S.; Camoin, L.; Dussert, S.; Brouilly, N.; Thome, V.; Fortun, D.; Borg, J.-P.; Kodjabachian, L.

10.1101/2025.06.10.658933 — cell biology — Posted on 2025-06-10

3507 A Foraging-Theory-Based Model Captures the Spectrum of Human Behavioral Diversity in Sequential Decision Making

Harrell, D.; Zid, M.; Laurie, V.-J.; Chen, C.; Grissom, N.; Darrow, D. P.; Ebitz, B. R.; Herman, A. B.

10.1101/2025.05.06.652482 — neuroscience — Posted on 2025-06-10

3508 Robust Input Disentanglement Through Dendritic Calcium-Mediated Action Potentials

Hashemi, S.; Shafiee, S.; Tetzlaff, C.

10.1101/2025.06.10.658823 — neuroscience — Posted on 2025-06-10

3509 CRISPR-mediated knockdown of oxytocin receptor in extended amygdala reduces stress-induced social avoidance and vigilance

Salazar, V. C.; Boender, A.; Seelke, A.; Gaard, L.; Mederos, S.; Rogers, S.; Gutierrez, X.; Bales, K.; Young, L.; Trainor, B. C.

10.1101/2025.06.10.658921 — neuroscience — Posted on 2025-06-10

3510 fMRI BOLD signals in the left angular gyrus and hippocampus are associated with memory precision

Hou, M.; Hill, P. F.; Pezanko, L. R.; Aktas, A. N. Z.; Ekstrom, A. D.; Rugg, M. D.

10.1101/2025.06.10.658942 — neuroscience — Posted on 2025-06-10

3511 Essentialome-Wide Multigenerational Imaging Reveals Mechanistic Origins of Cell Growth Laws

Eaton, D. S.; Sanchez, C.; Gutierrez-Lopez, L.; Shenker, J. Q.; Goulev, Y.; Watson, B. R.; Henriot, V.; Garner, E. C.; Justman, Q. A.; Moffitt, J. R.; Paulsson, J.

10.1101/2025.06.10.658525 — systems biology — Posted on 2025-06-10

3512 Sex Differences in the Cancer Proteome

Zhu, C.; Zeltser, N.; Oh, J.; Li, C. H.; Boutros, P. C.

10.1101/2025.03.14.643396 — cancer biology — Posted on 2025-06-10

3513 Senescent human fibroblasts have increased FasL expression and impair the tumor immune response

Cruz, M.; Dulong, J.; Mansour Nehmo, G.; Sonn, A.; Moquin-Beaudry, G.; Benabdallah, B.; Le, O.; Beausejour, C.

10.1101/2024.06.10.598270 — cancer biology — Posted on 2025-06-10

3514 Fine-Tuning Protein Language Models Unlocks the Potential of Underrepresented Viral Proteomes

Dejean, T.; Sawhney, R.; Ferrell, B. D.; Schreiber, Z.; Harrigan, W.; Polson, S. W.; Wommack, K. E.; Belcaid, M.

10.1101/2025.04.17.649224 — bioinformatics — Posted on 2025-06-10

3515 Tracing the function expansion for a primordial protein fold in the era of fold-based function prediction: beta-trefoil

Srinivasan, S.; Goswami, M.

10.1101/2025.02.18.638835 — bioinformatics — Posted on 2025-06-10

3516 Intervertebral disc impairments in a mouse model of Alzheimer's Disease

Gonzalez, C. C.; Schurman, C. A.; Wilson, K. A.; Schilling, B.; Ellerby, L. M.; Tang, S. Y.

10.1101/2025.05.24.655931 — bioengineering — Posted on 2025-06-10

3517 Genetic differences in plasticity across environmental scales determine fitness along an ecological gradient

Walter, G. M.; Emma, G.; Terranova, D.; Clark, J.; Cozzolino, S.; Hiscock, S.; Cristaudo, A.; Bridle, J.

10.1101/2025.03.19.644087 — evolutionary biology — Posted on 2025-06-10

3518 A Critical Role for the Fascin Family of Actin Bundling Proteins in Axon Development, Brain Wiring and Function

Hardin, K. R.; Penas, A.; Joubert, S.; Ye, C.; Myers, K. R.; Zheng, J.

10.1101/2025.02.21.639554 — cell biology — Posted on 2025-06-10

3519 Concurrent multimodal imaging demonstrates that EEG-based excitation/inhibition balance reflects glutamate and GABA concentrations

Cochrane, A.; Rosedahl, L.; Tamaki, M.; Watanabe, T.; Sasaki, Y.

10.1101/2025.03.31.646339 — neuroscience — Posted on 2025-06-10

3520 Immune-mediated inflammation modulates the thalamostriatal circuitry regulating depression-like behaviour in both mice and humans

Sharma, D.; Andrianova, L.; McGonigal, R.; Gardner-Stephen, K.; al Fadhel, H.; Sunzini, F.; Stefanov, K.; Barrie, J. A.; Hohne, R.; Saathoff, M.; Karabalci, Y.; Montes Gomez, A.; Bourgognon, J.-M.; Thornton, P.; Basu, N.; Cole, J. J.; Craig, M. T.; Cavanagh, J. T.

10.1101/2024.06.26.600791 — neuroscience — Posted on 2025-06-10

3521 The Temporal Stability of Visual Cortical Processing in Humans Depends on Early Experience

Sourav, S.; Feucht, M. E.; Kekunnaya, R.; Röder, B.

10.1101/2025.03.25.645249 — neuroscience — Posted on 2025-06-10

3522 A Tiered Approach to Human Synapse Proteomics: Optimized LC-MS/MS Analysis of Whole-Tissue and Synaptosome Preparations from Frozen Post-Mortem Brain Samples

Roig Kuhn, F. C.; Klaassen, R. V.; Koopmans, F. T. W.; Koolman, T. S. Z.; Smit, A. B.; Spijker, S.

10.1101/2025.06.04.657790 — neuroscience — Posted on 2025-06-10

3523 Asymmetric neural entrainment at resonance frequencies underlies unilateral spatial neglect

Okazaki, Y. O.; Noriaki, H.; Teiji, K.; Megumi, H.; Ichiro, M.; Kitajo, K.

10.1101/2024.10.22.619765 — neuroscience — Posted on 2025-06-10

3524 Neuronal Detection Triggers Systemic Digestive Shutdown in Response to Adverse Food Sources

Liu, Y.; Tian, G.; Wang, Z.; Zheng, J.; Liu, H.; Zhu, S.; Shan, Z.; Qi, B.

10.1101/2024.11.01.621469 — physiology — Posted on 2025-06-10

3525 Identification of a new inhibitor of Ran GTPase with therapeutic value in epithelial ovarian cancer

Boudhraa, Z.; Tian, X.; Gam, R.; Ritch, S.; Kendall-Dupont, J.; Carmona, E.; Provencher, D.; Wu, J. H.; Mes-Masson, A.-M.

10.1101/2025.03.02.641080 — cancer biology — Posted on 2025-06-10

3526 A functional comparison of two transplantable syngeneic mouse models of melanoma: B16F0 and YUMM1.7

Klinke, D. J.; Gould, A.; Pirkey, A.; Razazan, A.; Deng, W.

10.1101/2025.05.09.652938 — cancer biology — Posted on 2025-06-10

3527 SpaceBF: Spatial coexpression analysis using Bayesian Fused approaches in spatial omics datasets

Seal, S.; Neelon, B.

10.1101/2025.03.29.646124 — bioinformatics — Posted on 2025-06-10

3528 mRNArchitect: sequence design of mRNA medicines

Budzinska, M. A.; Zardbani, M.; Sidharta, M. P.; Waterhouse, J.; Leonard, T. E.; Ghodasara, A.; Lakshman Das, S.; Chang, R. Y.; Chaudhary, N.; Cheetham, S. W.; Mercer, T. R.; Gunter, H. M.

10.1101/2024.12.03.626696 — bioinformatics — Posted on 2025-06-10

3529 Listen, who is it? A novel method for studying the nightly and annual phenologies of cave bat communities in data deficient areas of the world.

Labadie, M.; Morand, S.; Caron, A.; De Nys, H. M.; Niama, F. R.; Nguilili, F.; TOBI, N.-; Bourgarel, M.; Bas, Y.; Roemer, C.

10.1101/2025.02.22.639615 — ecology — Posted on 2025-06-10

3530 Nephron segmentation and patterning in kidney organoids can be modulated by distinct FGF subfamily members

Zylberberg, A. K.; Scully, E. I.; Er, P. X.; Baric, H.; Scurr, M.; Xie, M.; Peiris, T.; Howden, S. E.; Lawlor, K. T.; Little, M. H.

10.1101/2025.06.10.658766 — developmental biology — Posted on 2025-06-10

3531 Neural crest induction requires SALL4-mediated BAF recruitment to lineage specific enhancers

Demurtas, M.; Barnada, S. M.; Van Domselaar, E.; Mitchell, Z. H.; Deelen, L. L.; Trizzino, M.

10.1101/2025.06.10.658805 — developmental biology — Posted on 2025-06-10

3532 Parameterization of cell-free systems with time-series data using KETCHUP

Hu, M.; Jilani, S. B.; Maranas, C. D.; Olson, D. G.

10.1101/2025.06.06.658289 — systems biology — Posted on 2025-06-10

3533 Cytokinin overcomes spikelet-driven inhibition of tillering in wheat and barley by delaying meristem development

Wakeman, A.; Bennett, T.

10.1101/2025.06.02.657399 — plant biology — Posted on 2025-06-10

3534 Perirhinal cortex structure and function is dysregulated by corticosteroid treatment

Claydon, M. D. B.; Troy, O.; Birnie, M. T.; Kershaw, Y. M.; Barker, G. R. I.; Warburton, E. C.; Bortolotto, Z. A.; Lightman, S. L.; Conway-Campbell, B. L.

10.1101/2025.06.06.658287 — neuroscience — Posted on 2025-06-10

3535 Emergent brain-like representations in a goal-directed neural network model of visual search

Pourrahimi, M.; Bashivan, P.

10.1101/2025.06.06.658387 — neuroscience — Posted on 2025-06-10

3536 Coronary atherosclerotic plaque composition and classification in hypercholesterimic pigs

Li, M.; Delafontaine, P.; Sukhanov, S.

10.1101/2025.06.06.658319 — pathology — Posted on 2025-06-10

3537 Spatial Image Gradient Estimation from the Diffusion MRI Profile

Aganj, I.; Feiweier, T.; Kirsch, J. E.; Fischl, B. R.; van der Kouwe, A. J.

10.1101/2025.06.06.658348 — bioengineering — Posted on 2025-06-10

3538 Structural basis of RNA-guided transcription by a dCas12f-σE-RNAP complex

Xiao, R.; Hoffmann, F. T.; Xie, D.; Wiegand, T.; Palmieri, A. I.; Sternberg, S. H.; Chang, L.

10.1101/2025.06.10.658880 — biochemistry — Posted on 2025-06-10

3539 Purification of post-transcriptionally modified tRNAs for enhanced cell-free translation systems

Kalb, E.; Alejo, J.; Dias-Fields, L.; Knudson, I.; Davisson, J.; Maldonado, E.; Chattrakun, K.; Lin, S.; Schepartz, A.; Zhang, S.; Blanchard, S.; Engelhart, A. E.; Adamala, K. P.

10.1101/2025.06.10.658963 — biochemistry — Posted on 2025-06-10

3540 Early life environments shape adult cardiometabolic health during rapid lifestyle change

Petersen, R. M.; Tennyson, R.; A/P Tan Boon Huat, T. B. T.; Tam, K. L.; Watowich, M. M.; Solhaimi bin Fadzil, K.; Nicholas, C.; bin Mohd Sayed, I.; Seong Ng, K.; A L Lim, Y.; Venkataraman, V. V.; Wallace, I. J.; Kraft, T. S.; Lea, A. J.

10.1101/2025.06.06.658350 — evolutionary biology — Posted on 2025-06-10

3541 Alveolar epithelial cell plasticity and injury memory in human pulmonary fibrosis

10.1101/2025.06.10.658504 — cell biology — Posted on 2025-06-10

3542 APOBEC3A deaminase catalyzes site-specific editing of transfer RNAs

Hoffa-Sobiech, K.; Sikora, J.; Ruszkowski, M.; Starczak, M.; Gackowski, D.; Blaszczak, A.; Mierzwa, A.; Rakoczy, M.; Marcinkowska-Swojak, M.; Stolarek, I.; Jackowiak, P.; Figlerowicz, M.; Budzko, L.

10.1101/2025.06.10.658825 — molecular biology — Posted on 2025-06-10

3543 Exapted CRISPR-Cas12f homologs drive RNA-guided transcription

Hoffmann, F. T.; Wiegand, T.; Palmieri, A. I.; Glass-Klaiber, J.; Xiao, R.; Tang, S.; Le, H.; Meers, C.; Lampe, G. D.; Chang, L.; Sternberg, S. H.

10.1101/2025.06.10.658865 — molecular biology — Posted on 2025-06-10

3544 The unique molecular recognition features of Siglec-10: structural insights into sialoglycan and antibody interactions

10.1101/2025.06.10.658867 — molecular biology — Posted on 2025-06-10

3545 A male-drive female-sterile system for the self-limited control of the malaria mosquito Anopheles gambiae

Bernardini, F.; Strampelli, A.; Willis, K.; Gulliford, H. R.; Gribble, M.; Fasulo, B.; Burt, A.; Crisanti, A.

10.1101/2025.06.10.658817 — molecular biology — Posted on 2025-06-10

3546 Loss of Ythdf3 causes Danon disease-like features

Yu, C.; Xu, C.; Zhang, J.; Wang, M.; Qian, M.; Liu, B.

10.1101/2025.06.10.658803 — molecular biology — Posted on 2025-06-10

3547 Salmonella hijacks a host glucose transporter for intravacuolar proliferation

Fang, X.; Shi, L.; Ding, Y.; Wang, Y.; Chen, W.; Xue, J.; Wang, L.; Hui, Y.; Tao, X.; Yang, J.; Du, L.; Xie, D.; Meng, K.

10.1101/2025.06.10.658782 — microbiology — Posted on 2025-06-10

3548 SpoIIE drives asymmetric cell division in B. subtilis by sequential modulation of the cytokinesis machinery

Ryan, A.; Squyres, G. R.; Holmes, M. J.; Bisson, A.; Garner, E. C.; Bradshaw, N.

10.1101/2025.06.09.658746 — microbiology — Posted on 2025-06-10

3549 Light-harvesting by antenna-containing xanthorhodopsin from an Antarctic cyanobacterium

Marin Perez, M. d. C.; Murakoshi, S.; Rozenberg, A.; Tanaka, T.; Konno, M.; Shihoya, W.; Nureki, O.; Inoue, K.; Beja, O.

10.1101/2025.06.10.658827 — microbiology — Posted on 2025-06-10

3550 Plastic-Degrading Clusters of Orthologous Groups in Prokaryotes

Mustari, S.; Pham, L. T.; Saikkonen, K.; Nakamura, M.; Puigbo, P.

10.1101/2025.06.10.658834 — microbiology — Posted on 2025-06-10

3551 Nested mobile genetic elements mediating antimicrobial resistance genes mobility within and between cells in clinical and environmental Acinetobacter isolates

Bongulto, K.; Kagia, N.; Tauchi, H.; Suzuki, S.; Watanabe, K.

10.1101/2025.06.10.658816 — microbiology — Posted on 2025-06-10

3552 Intelectin-2 is a broad-spectrum antimicrobial lectin

Dugan, A. E.; Syangtan, D.; Nonnecke, E. B.; Chorghade, R. S.; Peiffer, A. L.; Yao, J. J.; Ille-Bunn, J.; Sergio, D.; Pishchany, G.; Dhennezel, C.; Vlamakis, H.; Bae, S.; Johnson, S.; Ellis, C.; Ghosh, S.; Alty, J. W.; Barnes, C. E.; Krupkin, M.; Carcamo-Oyarce, G.; Ribbeck, K.; Xavier, R. j.; Bevins, C. L.; Kiessling, L. L.

10.1101/2025.06.09.658748 — microbiology — Posted on 2025-06-10

3553 The DanRI regulatory system in uropathogenic Escherichia coli subverts neutrophil responses

Cerina, D.; Rousseau, M.; Olaiz, C. H.; Marsman, G.; Zychlinsky, A.; Ingersoll, M. A.

10.1101/2025.06.10.658900 — microbiology — Posted on 2025-06-10

3554 The anaerobic WOR-3 Bacteria: Hydrogenotrophic metabolism and unique carbon fixation via Archaeal form III RuBisCO

Zeng, J.; Hu, W.; Chang, L.; Hua, Z.-S.; Wu, G.; Liu, J.; Xiao, C.; Wang, G.; Fang, Y.

10.1101/2025.06.09.658677 — microbiology — Posted on 2025-06-10

3555 Comparing the performance of functional versus taxonomic metagenomics for detecting ammonia disturbances in the biogas system

Boers, D.; Chapleur, O.; Andersson, A. F.; Schnürer, A.

10.1101/2025.06.10.658511 — microbiology — Posted on 2025-06-10

3556 4-Nitrobenzoate inhibits 4-hydroxybenzoate polyprenyltransferase in malaria parasites and enhances atovaquone efficacy

Verdaguer, I. B.; Santos, M. F.; Mazzine Filho, M.; Castro, G. O.; Hernandez, A.; Peres, M. A.; Katzin, A. M.; Crispim, M.

10.1101/2025.06.10.658244 — microbiology — Posted on 2025-06-10

3557 Impaired envelope integrity in the absence of SanA is linked to increased Lipid II availability and an imbalance of FtsI and FtsW activities

Carr, J. F.; De Santiago, C. B.; Bhut, S.; Warzecha, D. J.; Wei, R.; Herrera, C.; Trent, M. S.; Nan, B.; Mitchell, A.

10.1101/2025.06.10.658892 — microbiology — Posted on 2025-06-10

3558 Proposal of two new genera and seventy-seven new species of ascomycetous yeasts isolated from China

Zhu, H.-H.; Li, A.-H.; Liu, M.-M.; Jiang, Y.-L.; Zhao, X.-M.; Pan, S.; Liu, J.-H.; Zhang, X.-H.; Wang, J.-C.; Tian, Z.-Y.; Wang, G.-S.; Guo, Y.-T.; Phurbu, D.; Bai, F.-Y.; Wang, Q.-M.

10.1101/2025.06.10.658801 — microbiology — Posted on 2025-06-10

3559 Cis non-coding genetic variation drives gene expression changes in the E. coli and P. aeruginosa pangenomes

Damaris, B. F.; Zietek, M.; Erdmann, J.; Typas, A.; Häussler, S.; Galardini, M.

10.1101/2025.06.10.658842 — microbiology — Posted on 2025-06-10

3560 Ionic Mechanisms Underlying Bistability in Spinal Motoneurons: Insights from a Computational Model

Molkov, Y.; Krust, F.; Jeter, R.; Stell, T.; Mohammed, M. A. Y.; Brocard, F.; Rybak, I.

10.1101/2025.06.06.658369 — neuroscience — Posted on 2025-06-10

3561 Dual effect of alpha-synuclein disease variants on condensate formation

Chandran, A.; Agarwal, A.; Wang, T.; Amaral, L.; Chaves, S. R.; Outeiro, T. F.; Lautenschlager, J.

10.1101/2025.06.06.657340 — neuroscience — Posted on 2025-06-10

3562 Voluntary movement initiation is associated with cardiac input in Libet's task.

Germanova, K.; Studenova, A.; Bredikhin, D.; Gippert, M.; Kapralov, N.; Klucharev, V.; Villringer, A.; Herrojo Ruiz, M.; Nikulin, V.

10.1101/2025.06.06.658322 — neuroscience — Posted on 2025-06-10

3563 OligoSeq: Rapid nanopore-sequencing of single-stranded oligonucleotides

Ramirez Garcia, R.; Heinis, T.

10.1101/2025.06.10.658886 — synthetic biology — Posted on 2025-06-10

3564 Nanopore Direct RNA Sequencing Reveals Virus-Induced Changes in the Transcriptional Landscape in Human Bronchial Epithelial Cells

Wang, D.; Booth, J. L.; Wu, W.; Kiger, N.; Lettow, M.; Bates, A.; Pan, C.; Metcalf, J. P.; Schroeder, S.

10.1101/2024.06.26.600852 — bioinformatics — Posted on 2025-06-10

3565 Bonferroni's correction, not Tukey's, should be used to control the total number of false positives when making multiple pairwise comparisons in experiments with few replicates.

zweifach, a.

10.1101/2025.05.01.651705 — bioinformatics — Posted on 2025-06-10

3566 Topological stratification of continuous genetic variation in large biobanks

Diaz-Papkovich, A.; Zabad, S.; Ben-Eghan, C.; Anderson-Trocme, L.; Femerling, G.; Nathan, V.; Patel, J.; Gravel, S.

10.1101/2023.07.06.548007 — genomics — Posted on 2025-06-10

3567 Subclonal mutation load predicts survival and response to immunotherapy in cancers with low to moderate tumor mutation burden

Jiang, Y.; Montierth, M. D.; Yu, K.; Ji, S.; Tran, Q.; Liu, X.; Shen, J. P.; Guo, S.; Wu, A.; Dai, Y.; Shin, S. J.; Li, R.; Cao, S.; Tang, Y.; Lesluyes, T.; Kopetz, S.; Msaouel, P.; Sood, A. K.; Devonshire, G.; Jones, C. M.; Ajani, J.; Subudhi, S. K.; Aparicio, A.; Sharma, P.; Shen, J. P.; Kimmel, M.; Wang, J. R.; Tarabichi, M.; Fitzgerald, R. C.; Zhu, H.; Loo, P. V.; Wang, W.

10.1101/2024.07.03.601939 — genomics — Posted on 2025-06-10

3568 Warning signals for the long-term innovative potential of genetic research based on 20 million papers and patents

Chae, J.; Kim, W.; Jung, W.; Jeong, D.; Lim, R.; Chamlagain, M.; Jung, G.; Jang, J.; Lee, J. W.; Kang, N. K.; Baek, K.; Shin, J.; Lee, Y.-G.; Koh, H. G.; Kim, C.; Yook, S.; Cheung, A. K. L.; Jin, Y.-S.; Youn, H.; Kim, P.-J.; Ghim, C.-M.

10.1101/2025.02.17.638429 — scientific communication and education — Posted on 2025-06-10

3569 Quantitative and sensitive sequencing of somatic mutations induced by a maize transposon

Scherer, J.; Hinczewski, M.; Nelms, B.

10.1101/2025.01.22.634239 — plant biology — Posted on 2025-06-10

3570 The architecture of resilience: a genome assembly of Myrothamnus flabellifolia sheds light on desiccation tolerance and sex determination

Marks, R. A.; Lovell, J. T.; Carey, S. B.; Van Der Pas, L.; Chimukuche, N. M.; Bruna, T.; Plott, C.; Webber, J.; Lipzen, A.; Yan, J.; Bauer, D.; Bentley, J.; Talag, J.; Barry, K.; Grimwood, J.; Jenkins, J. W.; Schmutz, J.; Harkess, A.; VanBuren, R.; Leebens-Mack, J.; Farrant, J. M.

10.1101/2025.06.02.657439 — plant biology — Posted on 2025-06-10

3571 Defense-Suppressive Fragments of RIN4 generated by AvrRpt2 Participate in NDR1-dependent Activation of RPS2

Afzal, A. J.; Alam, M.; Huang, J.; Agha, M.; Da Cunha, L.; Iqbal Rai, M.; Tahir, J.; Jamroze, A.; Jones, J. D.; Mackey, D.

10.1101/2025.06.02.656948 — plant biology — Posted on 2025-06-10

3572 Phosphoglycerate mutase regulates Treg differentiation through control of serine synthesis and one-carbon metabolism

Godfrey, W. H.; Lee, J. J.; Shanmukha, S.; Cho, K.; Deng, X.; Ambati, C. S. R.; Putluri, V.; Kamal, A. H. M.; Kim, P. M.; Putluri, N.; Kornberg, M. D.

10.1101/2024.06.23.600101 — immunology — Posted on 2025-06-10

3573 Kinematic signatures of fast feedback trajectory control during goal-directed finger, arm, and saccadic eye movements

Chakrabhavi, N.; Vasudevan, V.; SKM, V.; Ghosal, A.; Murthy, A.

10.1101/2023.08.09.552575 — neuroscience — Posted on 2025-06-10

3574 Synaptic vesicles that store monoamines and glutamate differ in protein composition.

Asmerian, H.; Diaz, A. J.; Xu, H.; Oses-Prieto, J. A.; Alberts, J.; Sanetra, A. M.; Gnanabharathi, B.; Carr, N.; Burlingame, A. L.; Edwards, R. H.; Silm, K.

10.1101/2025.05.06.651945 — neuroscience — Posted on 2025-06-10

3575 Ras-dependent activation of BMAL2 regulates hypoxic metabolism in pancreatic cancer

Curiel-Garcia, A.; Holmstrom, S.; Castillo, C.; Palermo, C. F.; Sastra, S. A.; Andren, A.; Tomassoni, L.; Li, Z.; LeLarge, T.; Sagalovskiy, I.; Ross, D. R.; Wong, W.; Shaw, K.; Genkinger, J.; Hibshoosh, H.; Manji, G. A.; Iuga, A.; Schmid, R. M.; Johnson, K.; Badgley, M. A.; Laise, P.; Lyssiotis, C.; Shah, Y. M.; Califano, A.; Maurer, H. C.; Olive, K. P.

10.1101/2023.03.19.533333 — cancer biology — Posted on 2025-06-10

3576 The vault particle is enclosed by a C13-symmetric cap with a positively charged exterior

Li, H.; Vallese, F.; Clarke, O. B.

10.1101/2025.06.06.658390 — biophysics — Posted on 2025-06-10

3577 GEMS: Enhancing Generalizable Binding Affinity Prediction by Removing Data Leakage and Integrating Language Model Embeddings into Graph Neural Networks

Graber, D.; Stockinger, P.; Meyer, F.; Mishra, S.; Horn, C.; Buller, R. M. U.

10.1101/2024.12.09.627482 — bioinformatics — Posted on 2025-06-10

3578 Temporal dynamics and policy implications in an innovation arms race

Chimento, M.; Dalmaijer, E.; Klump, B.; Aplin, L. M.

10.1101/2025.02.13.638049 — animal behavior and cognition — Posted on 2025-06-10

3579 Heterozygosity at a conserved candidate sex determination locus is associated with female development in the clonal raider ant (Ooceraea biroi)

Lacy, K. D.; Lee, J.; Rozen-Gagnon, K.; Wang, W.; Carroll, T. S.; Kronauer, D. J. C.

10.1101/2025.01.24.634795 — evolutionary biology — Posted on 2025-06-10

3580 The length of haplotype blocks and signals of structural variation in reconstructed genealogies

Ignatieva, A.; Favero, M.; Koskela, J.; Sant, J.; Myers, S. R.

10.1101/2023.07.11.548567 — evolutionary biology — Posted on 2025-06-10

3581 A comprehensive representation of genotypic selection beyond two alleles, and its estimation from time-series data

Vellnow, N.; Gossmann, T. I.; Waxman, D.

10.1101/2024.11.08.622587 — evolutionary biology — Posted on 2025-06-10

3582 Linking biotic interactions to species stability

Lajaaiti, I.; Kefi, S.; Loreau, M.; Ardichvili, A.; Arnoldi, J.-F.

10.1101/2025.03.25.645234 — ecology — Posted on 2025-06-10

3583 Growth and patterning in vertebrate limb developmentA timescale perspective on skeletal specification

Ben Tahar, S.; Comellas, E.; Duerr, T. J.; Bakr, D.; Monaghan, J. R.; Munoz, J. J.; Shefelbine, S. J.

10.1101/2025.03.20.644440 — developmental biology — Posted on 2025-06-10

3584 Patched regulates cell cycle and tissue architecture in C. elegans gonad

Farley, J. K.; Schwalbe, M.; Forsberg, F.; Amran, A.; Gopal, S.

10.1101/2025.06.09.657693 — cell biology — Posted on 2025-06-10

3585 Unraveling Regulatory Feedback Mechanisms in Adult Neurogenesis Through Mathematical Modelling

Danciu, D.-P.; Klawe, F. Z.; Kazarnikov, A.; Femmer, L.; Kostina, E.; Martin-Villalba, A.; Marciniak-Czochra, A.

10.1101/2025.03.12.642763 — systems biology — Posted on 2025-06-10

3586 Tick extracellular vesicles alter keratinocyte function in the skin epidermis

Marnin, L.; Valencia, L.; Bogale, H.; Laukaitis-Yousey, H.; Rolandelli, A.; Ferraz, C. R.; O'Neal, A. J.; Schmitter-Sanchez, A.; Bencosme Cuevas, E.; Nguyen, T.-T.; Leal-Galvan, B.; Rickert, D. M.; Mendes, M. T.; Samaddar, S.; Butler, L. R.; Singh, N.; Cabrera Paz, F.; Wu-Chuang, A.; Oliver, J.; Jameson, J.; Munderloh, U.; Oliva Chavez, A.; Mulenga, A.; Park, S.; Serre, D.; Pedra, J. H. F.

10.1101/2023.11.10.566612 — microbiology — Posted on 2025-06-10

3587 Effects of diffusion MRI spatial resolution on human brain short-range association fiber reconstruction and structural connectivity estimation

Zheng, J.; Li, Z.; Zhong, W.; Wang, Z.; Li, Z.; Yang, H.; Liu, M.; Cao, X.; Liao, C.; Salat, D. H.; Huang, S. Y.; Tian, Q.

10.1101/2025.06.04.657810 — neuroscience — Posted on 2025-06-10

3588 A mammalian inferior colliculus model for sound source separation using interaural time differences

Leibold, C.; Gross, S.

10.1101/2024.10.30.621075 — neuroscience — Posted on 2025-06-10

3589 Somatosensory timing and cerebellar-basal ganglia beta-band interactions in Parkinson's disease

Pando-Naude, V.; Andersen, L.

10.1101/2025.05.15.653735 — neuroscience — Posted on 2025-06-10

3590 Teaching good agronomic practices to strengthen pigeon pea cultivation and value chains through farmer-to-farmer education in Zambia

Khazaei, H.; Scott, S.; Niemi, J.

10.1101/2025.06.07.657896 — scientific communication and education — Posted on 2025-06-10

3591 Traditional uses, population, threats and conservation of the bansouman or gingerbread plum Neocarya macrophylla (Chrysobalanaceae) in Republic of Guinea (West Africa)

Molmou, D. N.; Cheek, M.; Konomou, G.; Magassouba, S.; Simoes, A. R.; Larridon, I.; Couch, C.

10.1101/2025.06.08.655547 — plant biology — Posted on 2025-06-10

3592 Antimicrobial stewardship in animal health: experience-based co-design framework to capture progress and accelerate improvement

Hewson, K. A.; Binet, M.; Richards, K.; Gleeson, B.; Adsett, S.; Tuckett, G.; Kennedy, B.; Jenner, R.; Courtice, J.; Batterham, T.; Page, S. W.; Britton, S.

10.1101/2025.06.03.657743 — microbiology — Posted on 2025-06-10

3593 Impact of Capsicum frutescens (L.) fruit ethanol extract on H+/K+ ATPase activity, Gastrin hormone, Parietal cells, and ulcer index in ibuprofen- induced gastric ulcers: A Wistar rat model.

Suubo, J.; Ninsiima, H. I.; Nansunga, M.; Jjesero, E.; Nkanu, E.

10.1101/2025.06.07.658450 — physiology — Posted on 2025-06-10

3594 A Generalizable Machine Learning Model for Early Detection of Hepatocellular Carcinoma Using Bisulfite Sequencing Data

Subharam, M.; Koehler, R.

10.1101/2025.06.09.658649 — bioinformatics — Posted on 2025-06-10

3595 TaxonReportViewer: Parsing and Visualizing Taxonomic Hierarchies in Metagenomic Datasets

Razzolini, E.; de Souza, C. R.

10.1101/2025.06.07.658440 — bioinformatics — Posted on 2025-06-10

3596 The phonology of sperm whale coda vowels

Begus, G.; Dabkowski, M.; Sprouse, R.; Gruber, D.; Gero, S.

10.1101/2025.06.09.658556 — animal behavior and cognition — Posted on 2025-06-10

3597 Chromosome-level assembly and annotation of the grey reef shark (Carcharhinus amblyrhynchos) genome

Dahms, C.; Vigliola, L.; Cheung, L. H. T.; Hui, J. H. L.; Momigliano, P.

10.1101/2025.06.07.658398 — genomics — Posted on 2025-06-10

3598 Branched actin polymerization drives invasive protrusion formation to promote myoblast fusion during skeletal muscle regeneration

Lu, Y.; Walji, T.; Pandey, P.; Zhou, C.; Habela, C. W.; Snapper, S.; Li, R.; Chen, E.

10.1101/2024.09.30.615960 — cell biology — Posted on 2025-06-10

3599 WITHDRAWN: UBC13-mediated template switching promotes replication stress resistance in FBH1-deficient cells

Hawks, A. L.; Bergmann, A.; McCraw, T.; Mason, J. M.

10.1101/2023.09.04.556280 — molecular biology — Posted on 2025-06-10

3600 Optimizing a Human Monoclonal Antibody for Better Neutralization of SARS-CoV-2

Wang, Q.; Guo, Y.; Casner, R. G.; Yu, J.; Nair, M. S.; Ho, J.; Reddem, E. R.; Mellis, I. A.; Wu, M.; Tzang, C. C.; Hong, H.; Huang, Y.; Shapiro, L.; Liu, L.; Ho, D. D.

10.1101/2024.12.04.626800 — microbiology — Posted on 2025-06-10

3601 The immune landscape of pediatric Brain and Solid Tumors: A systematic review and integration of immunohistochemistry and single-cell RNA sequencing data

Bergsma, F. J.; Koster, J.; Baalman, B.; Mussai, F.; Caron, H. N.; Molenaar, J. J.; Wienke, J.

10.1101/2025.06.06.658323 — immunology — Posted on 2025-06-10

3602 All spectral frequencies of neural activity reveal semantic representation in the human anterior ventral temporal cortex

Frisby, S. L.; Halai, A. D.; Cox, C. R.; Clarke, A.; Shimotake, A.; Kikuchi, T.; Kuneida, T.; Arakawa, Y.; Takahashi, R.; Ikeda, A.; Matsumoto, R.; Rogers, T. T.; Lambon Ralph, M. A.

10.1101/2025.04.17.649404 — neuroscience — Posted on 2025-06-10

3603 Hepatic retromer is essential for systemic cholesterol homeostasis by regulating lysosomal cholesterol metabolism

Vos, D. Y.; Barbosa, M. G.; Heida, A. H.; Caillaud, A.; Tissink, J. J.; Koster, M. H.; Smit, M.; Huijkman, N.; Kloosterhuis, N. J.; Girardeau, A.; Berue-Racape, Z.; Bloks, V. W.; Havinga, R.; Fuh, M. M.; Reggiori, F.; Mari, M.; Scheja, L.; Heeren, J.; Kuipers, F.; de Boer, J. F.; Rimbert, A.; Wolters, J. C.; Kuivenhoven, J. A.; Verzijl, C.; van de Sluis, B.

10.1101/2023.08.09.552611 — molecular biology — Posted on 2025-06-10

3604 Heat-induced secondary dormancy contributes to local adaptation in Arabidopsis thaliana

Tran, N. L. T.; Ali, T.; Schmitz, G.; de Meaux, J.

10.1101/2025.02.20.638146 — evolutionary biology — Posted on 2025-06-10

3605 Evolution and information content of optimal gene regulatory architectures

Barton, N. H.; Tkacik, G.

10.1101/2025.06.10.657849 — evolutionary biology — Posted on 2025-06-10

3606 Regulatory architectures optimized for rapid evolution of gene expression

Borbely, R.; Tkacik, G.

10.1101/2025.06.10.658850 — evolutionary biology — Posted on 2025-06-10

3607 Neural crest induction requires SALL4-mediated BAF recruitment to lineage specific enhancers

Demurtas, M.; Barnada, S. M.; Van Domeslaar, E.; Mitchell, Z. H.; Deelen, L. L.; Trizzino, M.

10.1101/2025.06.10.658805 — developmental biology — Posted on 2025-06-10

3608 Human intention inference with a large language model can enhance brain-computer interface control: A proof-of-concept study

Shiinoki, S.; Iwama, S.; Ushiba, J.

10.1101/2025.06.01.657282 — neuroscience — Posted on 2025-06-10

3609 Neural signatures of automatic letter-speech sound integration in literate adults

Xu, W.; Li, X.; Kolozsvari, O.; Sorsa, A.; Nokia, M.; Hamalainen, J.

10.1101/2025.06.09.658589 — neuroscience — Posted on 2025-06-10

3610 Layer 6 is a hub for cholinergic modulation in the mouse auditory cortex

Vattino, L. G.; Clayton, K. K.; Hackett, T. A.; Takesian, A. E.; Polley, D. B.

10.1101/2025.06.09.658740 — neuroscience — Posted on 2025-06-10

3611 FOXP1 differentially regulates the development of murine vasopressin and oxytocin magnocellular neurons

Berkhout, J.; Trender, S.; Krabichler, Q.; Podpecan, Y.; Franke, F.; Schubert, T.; Burbach, P.; Grinevich, V.; Adan, R.; Fröhlich, H.; Althammer, F.; Meijer, O.; Mahfouz, A.

10.1101/2025.06.10.658830 — neuroscience — Posted on 2025-06-10

3612 Post-Saccadic Disruption of Semantic Category Information in Naturalistic Scenes

Choi, Y. M.; Chiu, T.-Y.; Golomb, J. D.

10.1101/2025.06.06.658316 — neuroscience — Posted on 2025-06-10

3613 The link between steady-state EEG and rs-fMRI metrics in healthy young adults: the effect of macrovascular correction

Zhong, X.; Van Lankveld, H.; Mathew, A.; Chen, J. J.

10.1101/2025.06.06.658306 — neuroscience — Posted on 2025-06-10

3614 Developmental coordination of mitochondrial dynamics and membrane remodeling drives organelle morphogenesis

Haridas, A.; Kumar, V.; Jaiswal, M.

10.1101/2025.06.09.658059 — developmental biology — Posted on 2025-06-10

3615 Acute anaphylactic and multiorgan inflammatory effects of Comirnaty in pigs: evidence of spike protein mRNA transfection and paralleling inflammatory cytokine upregulation

Dezsi, L.; Kokeny, G.; Szeneasi, G.; Revesz, C.; Meszaros, T.; Barta, B.; Facsko, R.; Szilasi, A.; Bakos, T.; Kozma, G. T.; Dobos, A.; Merkely, B.; Radovits, T.; Szebeni, J.

10.1101/2025.06.07.658379 — immunology — Posted on 2025-06-10

3616 Unsupervised Phenotyping Reveals Disrupted Neural Firing Characteristics in the Anterior Thalamus and Surrounding Brain Regions Following Third-Trimester Equivalent Alcohol Exposure in Mice

Morningstar, M. D.; Acosta, G.; Valenzuela, F.; Clark, B. J.; Linsenbardt, D.

10.1101/2025.06.02.657410 — neuroscience — Posted on 2025-06-10

3617 Hyperpolarization activated cation channel mediated intrinsic plasticity changes underlie the malleability of with-in cell-type electrophysiological heterogeneity

Chameh, H. M.; Falby, M.; Yang, Y.; Movahed, M.; Arbabi, K.; Sarathy, C.; Tripathy, S. J.; Zhang, L.; Lefebvre, J.; Valiante, T. A.

10.1101/2025.06.09.658517 — neuroscience — Posted on 2025-06-10

3618 Analysis of Wheat Spike Morphological Traits Using 2D Imaging

Sun, F.; Zheng, S.; Li, Z.; Gao, Q.; Jiang, N.

10.1101/2025.06.06.658159 — plant biology — Posted on 2025-06-10

3619 Resin canal leakage underlying xylem dysfunction in pine wilt disease

Umebayashi, T.; Fukuda, K.

10.1101/2025.06.06.656100 — plant biology — Posted on 2025-06-10

3620 Toward Stable Replication of Genomic Information in Pools of RNA Molecules

Burger, L.; Gerland, U.

10.1101/2024.07.17.603910 — biophysics — Posted on 2025-06-10

3621 The Desmoglein 2 interactome in primary neonatal cardiomyocytes

Li, Y.; Campbell, A. P.; Balasubramanian, S.; Zeng, X.; Porter, E.; Cantrell, P. S.; Sun, M.; Mattheyses, A. L.; Kwiatkowski, A. V.

10.1101/2025.06.09.658637 — cell biology — Posted on 2025-06-10

3622 Patched regulates cell cycle and tissue architecture in C. elegans gonad

Gopal, S.; Farley, J. K.; Schwalbe, M.; Forsberg, F.; Amran, A.

10.1101/2025.06.09.657693 — cell biology — Posted on 2025-06-10

3623 Electron tomography reveals mitochondrial network and cristae remodelling during cell differentiation in the human placenta

Acharya, S.; Hanssen, E.; Botha, V. B.; Smith, T. M.; Jayatissa, S.; Trifunovic, Z.; Bartho, L. A.; Schjenken, J. E.; Kaitu'u-Lino, T. J.; Perkins, A. V.; James, J. L.; Pringle, K. G.; Bouwer, J. C.; Smith, R.; Fisher, J. J.

10.1101/2025.06.09.658204 — cell biology — Posted on 2025-06-10

3624 Neuronal migration induces DNA damage in developing brain

Zhang, Z.; Canela, A.; Zou, P.; Furuta, T.; Takeda, N.; Kawaue, T.; Nakazawa, N.; Saeki, M.; Utsunomiya, M.; Kurisu, J.; Ishidate, F.; Sasanuma, H.; Kishi, Y.; Kengaku, M.

10.1101/2025.06.10.658810 — cell biology — Posted on 2025-06-10

3625 A biochemical mechanism for Stu2/XMAP215-family microtubule polymerases

Gangadharan, B.; Kober, D. L.; Rice, L. M.

10.1101/2025.06.09.658552 — cell biology — Posted on 2025-06-10

3626 TPGS1 Regulates Central Spindle Microtubule Glutamylation and Remodeling During Telophase and Abscission

Sachs, R. K.; Ogi, Y.; Prekeris, R.

10.1101/2025.06.09.658663 — cell biology — Posted on 2025-06-10

3627 Reversible repression of inducible genes by Polycomb Repressive Complex 2 and H3K27me3 in Drosophila melanogaster

Herzig, A.; Stephenson, H. N.; Streeck, R.

10.1101/2025.06.09.658596 — cell biology — Posted on 2025-06-10

3628 Controlling Multicomponent Condensate Morphology via Additive-Modulated Interactions

Wang, J.; Nikoubashman, A.; Kim, Y. C.; Mittal, J.

10.1101/2025.06.09.658693 — biophysics — Posted on 2025-06-10

3629 Pathogenic BRCA1 mutations disrupt allosteric control by BARD1

Bhattacharjee, A.; Bowman, G.

10.1101/2025.06.07.658438 — biophysics — Posted on 2025-06-10

3630 Volumetric single-molecule tracking inside subcellular structures

Daly, S.; Chambers, J. E.; Jones, C.; Fu, B.; Manton, J. D.; Beckwith, J. S.; Marciniak, S. J.; Gershlick, D. C.; Lee, S. F.

10.1101/2025.06.09.658280 — biophysics — Posted on 2025-06-10

3631 Secondary structure transitions and dual PIP2 binding define cardiac KCNQ1-KCNE1 channel gating

Zhong, L.; Lin, X.; Cheng, X.; Wan, S.; Hua, Y.; Nan, W.; Hu, B.; Yan, Z.; Jiang, D.; Zhang, H.; Liu, F.; Xiao, C.; Zhou, Z.; Yu, H.; Ma, L.; Huang, C.; Wong, K. W.; Chung, S. K.; Shen, B.; Jiang, Z.-H.; Neher, E.; Zhu, W.; Zhang, J.; Hou, P.

10.1101/2025.06.10.657059 — biophysics — Posted on 2025-06-10

3632 Phosphorylation Toggles the SARS-CoV-2 Nucleocapsid Protein Between Two Membrane-Associated Condensate States

Favetta, B.; Wang, H.; Cubuk, J.; Singh, A.; Barai, M.; Ramirez, C.; Gormley, A. J.; Murthy, S.; Dignon, G.; Soranno, A.; Shi, Z.; Schuster, B. S.

10.1101/2024.10.17.618867 — biophysics — Posted on 2025-06-10

3633 Decipher: A computational pipeline to extract context-specific mechanistic insights from single-cell profiles

Basto Piamonte, E. A.; Wajid, B.; Read, J.; Armitage, J.; Waithman, J.; Small, M.; Bosco, A.

10.1101/2024.05.01.591681 — bioinformatics — Posted on 2025-06-10

3634 Large adipocytes in a biomimetic adipose tissue model promote breast cancer malignancy

Beeghly, G. F.; Pincus, M. I.; Varshney, R. R.; Giri, D. D.; Falcone, D. J.; Rudolph, M. C.; Antonyak, M. A.; Iyengar, N. M.; Fischbach, C.

10.1101/2025.03.28.645549 — bioengineering — Posted on 2025-06-10

3635 Tracing the vertebrate selenoproteome reveals expansions in ray-finned fishes and convergent depletions in tetrapods

Tico, M.; Mariotti, M.

10.1101/2025.05.29.656587 — evolutionary biology — Posted on 2025-06-10

3636 The efficacy of the Entomopathogenic Fungus, Beauveria bassiana, in Date Palm Protection against the Red Palm Weevil, Rhynchophorus Ferrugineus, Under Hot Dessert Climate

Zer-Aviv, O.; Matveev, S.; Ment, D.

10.1101/2024.07.13.603376 — ecology — Posted on 2025-06-10

3637 Climate change impacts the structure and nitrogen-fixing activities of subarctic feather moss microbiomes across a precipitation gradient

Alvarenga, D. O.; Wynns, J. T.; Nesme, J.; Prieme, A.; Rousk, K.

10.1101/2025.06.06.658193 — ecology — Posted on 2025-06-10

3638 Constitutive activation and allosteric mechanisms underlying Gi/Gq signaling bias in SUCNR1 revealed by AlphaFold-based modeling and enhanced sampling simulations

Shenol, A.; Petersen, J. E.; Lückmann, M.; Frimurer, T.; McCammon, J. A.; Schwartz, T. W.; Ma, W.

10.1101/2025.06.08.658530 — biophysics — Posted on 2025-06-10

3639 The vault particle is enclosed by a C13-symmetric cap with a positively charged exterior

Li, H.; Vallese, F.; Clarke, O. B.

10.1101/2025.06.06.658390 — biophysics — Posted on 2025-06-10

3640 Multiphasic Organization and Differential Dynamics of Proteins Within Protein-DNA Biomolecular Condensates

Tangade, A. S.; Mondal, A.; Wang, J.; Kim, Y. C.; Mittal, J.

10.1101/2025.06.09.658691 — biophysics — Posted on 2025-06-10

3641 Prediction of physical characteristics of disordered proteins using molecular simulation and physics-informed multiple machine learning strategies

Gonzalez, D. L.; Ibrahim, S.; Atia, G.; Seth, S.; Bhattacharya, A.

10.1101/2025.06.09.658593 — biophysics — Posted on 2025-06-10

3642 N-Glycopedia: Libraries for Native N-glycan Structural Analysis

Ashwood, C.; Cummings, R. D.

10.1101/2025.06.09.658590 — biochemistry — Posted on 2025-06-10

3643 Improved chromatin QTL mapping with CACTI

Wang, L.; Liu, X.

10.1101/2025.06.06.657866 — genetics — Posted on 2025-06-10

3644 The role of recent speciation in present-day patterns of tetrapod phylogenetic relatedness

Tejero-Cicuendez, H.; Menendez, I.; Steell, E. M.; Navalon, G.; Blanco, F.; Smid, J.

10.1101/2023.11.03.565445 — evolutionary biology — Posted on 2025-06-10

3645 Pcbp1 orchestrates amino acid metabolism burst during the naive-to-primed pluripotency transition

Bakhmet, E. I.; Potapenko, E. V.; Shuvalov, O. Y.; Lobov, A. A.; Repkin, E. A.; Vorobyeva, N. E.; Korablev, A. N.; Zinovyeva, A. S.; Kuzmin, A. A.; Aksenov, N. D.; Kopylov, A. T.; Wu, G.; Schoeler, H. R.; Tomilin, A. N.

10.1101/2025.06.07.658314 — developmental biology — Posted on 2025-06-10

3646 Developmental Emergence of Replay-DMN Coordination Predicts Entorhinal Grid Codes

Pang, L.; Qu, Y.; Ou, J.; Wu, S.; Luo, Y.; Gohil, C.; Woolrich, M.; Behrens, T.; Liu, Y.

10.1101/2025.04.02.646732 — neuroscience — Posted on 2025-06-10

3647 FRA1 drives melanoma metastasis through an actionable transcriptional network

Xu, X.; Chadourne, M.; Soto-Vargas, Z.; Jarajapu, V.; Yao, J.; Yu, X.; Karreth, F. A.

10.1101/2025.06.07.658418 — cancer biology — Posted on 2025-06-10

3648 Treatment Resistant Persister Cells Exploit Macrophage Lipid Metabolism to Sustain Glioblastoma Growth

Chakraborty, A.; Yang, C.; Silver, A.; Feier, D.; Tian, G.; Pittu, A.; Roemeling, C. V.; Thomas, N.; Andrews, M.; Conforti, C.; Sobanjo, O. O.; Searl, N. T.; Anica, M. N.; McTiernan, R.; Rahman, M.; Huang, J.; Harrison, J. K.; Mitchell, D. A.; Sarkisian, M.; Deleyrolle, L. P.

10.1101/2025.06.07.658345 — cancer biology — Posted on 2025-06-10

3649 Cut-Detector: A Tool for Automated Temporal Analysis of Late Cytokinetic Events

Bonte, T.; Dubois, L.; Gagna, P.; Dibsy, R.; Petrovic, A.; Advedissian, T.; Serres, M.; Cuvelier, F.; Crouigneau, M.; Sassoon, N.; Gupta-Rossi, N.; Fremont, S.; Echard, A.; Walter, T.

10.1101/2025.06.06.658046 — bioinformatics — Posted on 2025-06-10

3650 Decoding PDI diversity: insights into structure, domains, and functionality in sorghum

Lopez Gomez, C. F.; Morris, M. T.; Massel, K.; Smith, M.; Crisp, P.; Schenk, G.; Godwin, I. D.

10.1101/2025.06.06.658324 — bioinformatics — Posted on 2025-06-10

3651 PhenoGraph: A Multi-Agent Framework for Phenotype-driven Discovery in Spatial Transcriptomics Data Augmented with Knowledge Graphs

Niyakan, S.; Qian, X.

10.1101/2025.06.06.658341 — bioinformatics — Posted on 2025-06-10

3652 Monalisa: An Open Source, Documented, User-Friendly MATLAB Toolbox for Magnetic Resonance Imaging Reconstruction

Leidi, M.; Jia, Y.; Helbing, D.; Barranco, J.; Acikgoz, B. C.; Peper, E.; Ledoux, J.-B.; Bastiaansen, J. A. M.; Franceschiello, B.; Milani, B.

10.1101/2025.06.06.658299 — bioinformatics — Posted on 2025-06-10

3653 Female Moths Incorporate Plant Acoustic Emissions into Their Oviposition Decision

Seltzer, R.; Zer Eshel, G.; Yinon, O.; Hafani, A.; Eitan, O.; Matveev, S.; Levedev, G.; Davidovitz, M.; Ben Tov, T.; Sharabi, G.; Shapira, Y.; Shvil, N.; Atallah, I.; Hadad, S.; Ment, D.; Hadany, L.; Yovel, Y.

10.1101/2024.11.06.622209 — animal behavior and cognition — Posted on 2025-06-10

3654 The Population Genetics of Biological Noise

Weinreich, D. M.; Sgouros, T.; Raynes, Y.; Burtsev, H.; Chang, E.; Rajakumar, S.; Bravo, I. G.; Petak, C.

10.1101/2025.01.11.632402 — evolutionary biology — Posted on 2025-06-10

3655 Forecasting protein evolution by integrating birth-death population models with structurally constrained substitution models

Ferreiro, D.; Gonzalez-Vazquez, L. D.; Prado-Comesana, A.; Arenas, M.

10.1101/2025.02.21.639428 — evolutionary biology — Posted on 2025-06-10

3656 Comparative analysis of NSP5/VP2-induced viroplasm-like structures in rotavirus species A to J

Cosic, A.; Lee, M.; Tobler, K.; Aguilar, C.; Fraefel, C.; Eichwald, C.

10.1101/2025.06.09.658619 — microbiology — Posted on 2025-06-10

3657 Harnessing Random Peptide Mixtures to Overcome Multidrug-Resistant Fungal Infections

Adeoye, J.; Belo, Y.; Rocha, M.; Hayby, H.; Israyilova, A.; Hayouka, Z.; Shlezinger, N.

10.1101/2024.09.01.610663 — microbiology — Posted on 2025-06-10

3658 Age and Learning Shapes Sound Representations in Auditory Cortex During Adolescence

Praegel, B.; Chen, F.; Dym, A.; Lavi-Rudel, A.; Druckmann, S.; MIZRAHI, A.

10.1101/2025.02.03.636101 — neuroscience — Posted on 2025-06-10

3659 High-Throughput Evolution Unravels Landscapes of High-Level Antibiotic Resistance Induced by Low-Level Antibiotic Exposure

Wang, H.; Lu, H.; Jiang, C.; Zhu, L.; Lu, H.

10.1101/2023.11.30.569484 — evolutionary biology — Posted on 2025-06-10

3660 Extracting Reproducible Components from Electroencephalographic Responses to Transcranial Magnetic Stimulation with Group Task-Related Component Analysis

Couto, B. A. N.; Fecchio, M.; Russo, S.; De Martino, E.; Parmigiani, S.; Sarasso, S.; Graven-Nielsen, T.; de Andrade, D. C.; Massimini, M.; Rosanova, M.; Casali, A. G.

10.1101/2025.06.02.657489 — neuroscience — Posted on 2025-06-10

3661 Auditory perception and neural representation of temporal fine structure are impaired by age but not by cochlear synaptopathy

Steenken, F.; Beutelmann, R.; Oetjen, H.; Koeppl, C.; Klump, G. M.

10.1101/2024.08.27.609839 — neuroscience — Posted on 2025-06-10

3662 Decoding the amplitude and slope of continuous signals into spikes with a spiking point neuron model

Miko, R.; Scheunemann, M.; Steuber, V.; Schmuker, M.

10.1101/2024.05.20.594931 — neuroscience — Posted on 2025-06-09

3663 Revealing Long-Term Multi-Factor Climate Impacts on Antarctic Phytoplankton: A Trend-Based Approach Using STL and Piecewise SEM

Tanaka, H.; Doi, H.; Iritani, R.

10.1101/2025.06.03.657605 — ecology — Posted on 2025-06-09

3664 A novel self-organizing embryonic stem cell system reveals the role of Wnt signaling parameters in anterior-posterior patterning of the nervous system

Du, S.; Warmflash, A.

10.1101/2025.06.07.658391 — developmental biology — Posted on 2025-06-09

3665 Rapid transcriptional response to a dynamic morphogen by time integration

Brantley, S. E.; Janssen, J.; Chao, A.; Vergassola, M.; Blythe, S. A.; Di Talia, S.

10.1101/2025.06.09.658715 — developmental biology — Posted on 2025-06-09

3666 Intrinsic plasticity underlies malleability of network heterogeneity

Trotter, D.; Valiante, T. A.; Lefebvre, J. A.

10.1101/2025.06.09.658695 — neuroscience — Posted on 2025-06-09

3667 Altered GluN2A levels reduce the emergence of seizure-like events in a rat model of GRIN2A haploinsufficiency

Codadu, N. K.; Hardingham, G. E.; Kind, P. C.; Wyllie, D. J. A.

10.1101/2025.06.09.658610 — neuroscience — Posted on 2025-06-09

3668 Convergent and divergent brain-cognition relationships during development revealed by cross-sectional and longitudinal analyses in the ABCD Study

Xie, Y.; Zhang, S.; Orban, C.; Ooi, L. Q. R.; Kong, R.; Floris, D. L.; Zuo, X.-N.; Dhamala, E.; Holmes, A. J.; Uddin, L. Q.; Nichols, T. E.; Di Martino, A.; Yeo, B. T. T.

10.1101/2025.06.06.658294 — neuroscience — Posted on 2025-06-09

3669 Pupil-linked arousal differentially modulates cell-type-specific sensory processing

Kaufman, K. J.; Krall, R. F.; Williamson, R. S.

10.1101/2025.06.09.658645 — neuroscience — Posted on 2025-06-09

3670 Lateral hypothalamus directs stress-induced modulation of acute and psoriatic itch

Prajapati, J. N.; Hoque, A.; Pattanayak, M.; Sahu, G.; Barik, A.

10.1101/2025.06.09.658592 — neuroscience — Posted on 2025-06-09

3671 Mimicking the night shift: Hypothalamic-pituitary-adrenal (HPA) axis regulation, energy homeostasis, and oxidative stress in a model diurnal songbird

Pham, K.; Coutts, V. M.; Hoffman, A. J.; Wada, H.

10.1101/2025.06.09.656008 — physiology — Posted on 2025-06-09

3672 Automating AI Discovery for Biomedicine Through Knowledge Graphs And LLM Agents

Aamer, N.; Asim, M. N.; Munir, S.; Dengel, A.

10.1101/2025.05.08.652829 — bioinformatics — Posted on 2025-06-09

3673 Triad-LMF: A Hierarchical Low-Rank Multimodal Fusion Framework for Robust Cancer Subtype Classification Using Multi-Omics Data

Tan, X.; Tian, R.; Yang, D.; Jiang, M.

10.1101/2025.05.15.653805 — bioinformatics — Posted on 2025-06-09

3674 Glis3 is a modifier of cyst progression in autosomal dominant polycystic kidney disease

Wei, Z.; Gu, J.; Tian, X.; Zhang, C.; Zhao, H.; Somlo, S.

10.1101/2025.06.08.658051 — genetics — Posted on 2025-06-09

3675 Uncovering asparagine utilization pathway, a critical requirement for mycobacterial pH-driven adaptation at the host-pathogen crossroads

Bamniya, B.; Kajal, ; Mehta, K.; Sarkar, D.

10.1101/2025.06.09.658563 — microbiology — Posted on 2025-06-09

3676 AAV gene therapy for Cockayne syndrome

Batista, A. R.; Scholand, A. C.; Callahan, W. S.; Watson, M. K.; Sion, C. M.; Mola, T.; O'Hara, K.; King, O. D.; King, R. M.; Sena-Esteves, M.

10.1101/2025.06.06.658349 — neuroscience — Posted on 2025-06-09

3677 The Vitis vinifera receptor VvLYK6 negatively regulates chitin-triggered immune responses and promotes fungal infections

VILLETTE, J.; MARZARI, T.; LANDRY, D.; ROUDAIRE, T.; ROMANET, R.; KLINGUER, A.; LEBORGNE-CASTEL, N.; VICEDO, C.; GASCIOLLI, V.; POUZET, C.; LEFEBVRE, B.; HELOIR, M. C.; POINSSOT, B.

10.1101/2025.06.06.658283 — plant biology — Posted on 2025-06-09

3678 Micro-circulating hyperdynamic blood flow as a key pathogenic factor in early sepsis

Feng, X.; Liu, W.; Sun, Y. B.; Zeng, Y.; Yu, B.-W.

10.1101/2023.06.04.543593 — pathology — Posted on 2025-06-09

3679 refineDLC: an advanced post-processing pipeline for DeepLabCut outputs

Klecel, W.; Rahael, H.; Brooks, S. A.

10.1101/2025.04.09.648046 — animal behavior and cognition — Posted on 2025-06-09

3680 Characterization of Somatic Mutations in Human tRNA Genes Reveals Tumor-Specific Mutational Loads, and the Generation of tRNA Variants that Alter the Genetic Code

Murillo, M.; Salvadores, M.; Torres, A. G.; Vaquer Pico, A.; Tsapanou, L.; Supek, F.; Ribas de Pouplana, L.

10.1101/2025.06.09.658696 — genomics — Posted on 2025-06-09

3681 A systematic delineation of 3'UTR regulatory elements and their contextual associations

Liang, N.; Li, J.-Y.; Ding, Y.; Wang, Y.; Champer, J.; Ren, L.-C.; Gao, G.

10.1101/2025.06.09.658412 — genomics — Posted on 2025-06-09

3682 Importance of higher-order epistasis in large protein sequence-function relationships

Sethi, P.; Zhou, J.

10.1101/2024.09.22.614318 — genetics — Posted on 2025-06-09

3683 Evolutionary Adaptations of IRG1 Refines Itaconate Synthesis and Mitigates Innate Immunometabolism Trade-offs

Szeligowski, R.; Miros, F.; Saez, A.; DeCiucis, M.; Wagner, G.; Shen, H.

10.1101/2022.06.17.496652 — evolutionary biology — Posted on 2025-06-09

3684 Refining the resolution of the yeast genotype-phenotype map using single-cell RNA-sequencing

N'Guessan, A.; Tong, W. Y.; Heydari, H.; Nguyen Ba, A. N.

10.1101/2023.10.18.562953 — evolutionary biology — Posted on 2025-06-09

3685 How to quantify immigration from community abundance data using the Neutral Community Model

Rafay, R.; Jones, E. W.; Sivak, D.; Fowler, J.

10.1101/2025.04.12.648546 — ecology — Posted on 2025-06-09

3686 Monitoring for fisheries or for fish? Declines in monitoring of salmon spawners continue despite a conservation crisis

Atkinson, E. M.; Carturan, B. S.; Atkinson, C. P.; Bateman, A. W.; Connors, K.; Hertz, E.; Peacock, S. J.

10.1101/2024.12.01.626233 — ecology — Posted on 2025-06-09

3687 UV-B-Induced DNA Repair Mechanisms and Their Effects on Mutagenesis and Culturability in Escherichia coli

Ghosh, S.; Narzary, J.; Orman, M. A.

10.1101/2024.11.14.623584 — microbiology — Posted on 2025-06-09

3688 Boosting AlphaFold Protein Tertiary Structure Prediction through MSA Engineering and Extensive Model Sampling and Ranking in CASP16

Liu, J.; Neupane, P.; Cheng, J.

10.1101/2025.06.06.658338 — bioinformatics — Posted on 2025-06-09

3689 SeaMoon: from protein language models to continuous structural heterogeneity

Lombard, V.; Timsit, D.; Grudinin, S.; Laine, E.

10.1101/2024.09.23.614585 — bioinformatics — Posted on 2025-06-09

3690 Formins and Arp2/3 Reciprocally Regulate Contact Guidance on Aligned Collagen Fibrils

Foroozandehfar, A.; Tohidi, S.; Siddiqui, S. A.; Namanda, F. R.; Forrester, M.; Cochran, E.; Schneider, I.

10.1101/2025.01.03.631234 — bioengineering — Posted on 2025-06-09

3691 A Slc5a6 Deficient Mouse Model Reveals a Metabolically Driven Dilated Cardiomyopathy with Therapeutic Potential for Vitamin-Based Intervention

Fullerton, M. O.; Phillips, L. C.; Redgrave, R. E.; Haufroid, V.; Merces, G.; Kerridge, S. T.; Richardson, G. D.; Mercier, N.; Roland, D.; Dewulf, J. P.; Burn, J.; Bamforth, S. D.; Phillips, H. M.

10.1101/2025.06.06.658273 — genetics — Posted on 2025-06-09

3692 Investigating multiple types of resistance against a homing gene drive in European populations of Drosophila melanogaster

Faber, N. R.; Champer, J.; Pannebakker, B. A.; Zwaan, B. J.; van den Heuvel, J.

10.1101/2025.06.06.658298 — genetics — Posted on 2025-06-09

3693 Chromosome-length genome assembly of Uta stansburiana and gene expression data reveal fast pace-of-life comes with environmental stability

Fellows, S.; Araya-Donoso, R.; Davalos-Dehullu, E.; Khan, R.; Weisz, D.; Dudchenko, O.; Aiden, E. L.; Munguia-Vega, A.; Dolby, G. A.; Edwards, D. L.

10.1101/2025.05.28.656178 — evolutionary biology — Posted on 2025-06-09

3694 Caudata macrogenetics: Geographic attributes predict mitochondrial genetic variation in salamanders on a global scale

Amador, L.; Wiley, D. L. F.; Arroyo-Torres, I.; McDaniels, C. X.; Rosario-Sanchez, E. O.; Farmer, H.; Bradley, H.; Erdmann, J.; Pelletier, T. A.; Barrow, L. N.

10.1101/2025.01.24.634750 — evolutionary biology — Posted on 2025-06-09

3695 PARP1 and PARP2 are dispensable for DNA repair by microhomology-mediated end-joining during mitosis.

Ortega, R.; Taylor, E.; Whitehead, S. M.; Danhorn, T.; Bitler, B. G.; Arnoult, N. G.

10.1101/2025.06.09.658719 — molecular biology — Posted on 2025-06-09

3696 Metacaspases mediate thermotolerance of diatoms following marine heat waves

Sadeh, M.; Schatz, D.; Ben-Dor, S.; Mizrachi, A.; Graff van Creveld, S.; Zafrin, A.; Vardi, A.

10.1101/2025.06.09.658587 — microbiology — Posted on 2025-06-09

3697 Analysis of Essential Genes in Clostridioides difficile by CRISPRi and Tn-seq

Alberts, M. E.; Kurtz, M. P.; Müh, U.; Bernardi, J. P.; Bollinger, K. W.; Duncan, L.; Dobrila, H. A.; Laster, H. M.; Orea, A. J.; Pannullo, A. G.; Rivera-Rosado, J. G.; Torres, F. V.; Ellermeier, C. D.; Weiss, D. S.

10.1101/2025.06.04.657922 — microbiology — Posted on 2025-06-09

3698 Zα domain-dependent ZBP1 condensate formation induces an amyloidal necroptotic signalling complex

Nemegeer, J.; Soenmez, A.; Dierick, E.; Staes, K.; Naesens, L.; Vandenabeele, P.; Lafontaine, D. L.; Maelfait, J.

10.1101/2025.06.06.658343 — immunology — Posted on 2025-06-09

3699 Skin Resident T Cell Interactions with NPY1R+ Neurons During Wound Repair Are Impaired by Obesity

Lam, K.; Colin, J.; Almaguer, B.; Tulloch, P.; Jameson, J.

10.1101/2025.06.06.658336 — immunology — Posted on 2025-06-09

3700 Enteric nervous system degeneration in human and murine CLN3 disease, is ameliorated by gene therapy in mice

Ziolkowska, E. A.; Williams, L. L.; Jansen, M. J.; Wang, S. H.; Eultgen, E. M.; Sharma, J.; Sardiello, M.; Bradley, R. P.; Whiteman, I. T.; Sands, M. S.; Heuckeroth, R. O.; Cooper, J. D.

10.1101/2025.01.29.635518 — neuroscience — Posted on 2025-06-09

3701 Endothelin B receptor inhibition rescues aging-dependent neuronal regenerative decline

Feng, R.; Rosen, S. F.; Ansari, I.; John, S.; Thomsen, M. B.; Avraham, O.; Geoffroy, C. G.; Cavalli, V.

10.1101/2024.06.08.597928 — neuroscience — Posted on 2025-06-09

3702 The FBA Solution Space Kernel -- Introduction and Illustrative Examples

Verwoerd, W. S.; Mao, L.

10.1101/2024.06.10.598372 — systems biology — Posted on 2025-06-09

3703 Widely Used Variants of the Farquhar-von-Caemmerer-Berry Model Can Cause Errors in Parameter Estimation

Lochocki, E. B.; McGrath, J. M.

10.1101/2025.03.11.642611 — plant biology — Posted on 2025-06-09

3704 Single Cell Spatial Profiling Identifies Region-Specific Extracellular Matrix Adhesion and Signaling Networks in Glioblastoma

De, A.; Forero, S. A.; Pirani, A.; Morales, J. E.; De La Fuente-Granada, M.; Sebastian, S.; Huse, J. T.; Ballester, L. Y.; Weinberg, J. S.; Lang, F. F.; Akdemir, K. C.; McCarty, J. H.

10.1101/2024.10.31.621280 — cancer biology — Posted on 2025-06-09

3705 Nucleation Landscape of Biomolecular Condensates in the Grand Canonical Ensemble via Monte Carlo Simulations

Sepehri, A.; Zerze, G. H.

10.1101/2025.06.06.658304 — biophysics — Posted on 2025-06-09

3706 AI-Driven Identification and Validation of RXFP1 as a CML Biomarker Using Gene Expression and Integrated GUI Tools

Khan, M. S.

10.1101/2025.06.06.658261 — bioinformatics — Posted on 2025-06-09

3707 Bacterial extracellular vesicles as a tunable platform for vaginal drug delivery

Steinman, D.; Hemanth, V.; McIlvaine, R.; Tyagi, P.; Kang, H.; Alam, R.; Liu, A.; Jewell, C.; Burd, I.; Molinari, S.; Zierden, H.

10.1101/2025.06.09.658669 — bioengineering — Posted on 2025-06-09

3708 CalciumInsights: An Open-Source, Tissue-Agnostic Graphical Interface for High-Quality Analysis of Calcium Signals

Gomez, D. S.; Rosas, N. C. P.; Contreras, G. I. M.; Brana, S. R. C.; Zhang, W.; Mim, M. S.; Tan, S. G.; Gazzo, D.; Tepole, A. B.; Deng, Q.; Reeves, G. T.; Isaza, C. E.; Staiger, C. J.; Umulis, D. M.; Zartman, J. J.; Rios, M. C.

10.1101/2025.06.04.657923 — bioengineering — Posted on 2025-06-09

3709 Beyond the G-Loop: CRBN Molecular Glues Potently Target VAV1 via a Novel SH3 RT-Loop Degron

Lin, H.; Yu, X.; Zheng, H.; Che, X.; Wang, J.

10.1101/2025.06.08.658535 — biochemistry — Posted on 2025-06-09

3710 Assembly of the mitochondrial outer membrane module of the trypanosomal tripartite attachment complex

Stettler, P.; Aeschlimann, S.; Schimanski, B.; Schneider, A.

10.1101/2025.06.09.658622 — biochemistry — Posted on 2025-06-09

3711 Local adaptation shapes community composition without affecting performance

Subramanian, S. K.; Bolnick, D. I.

10.1101/2025.06.06.658317 — ecology — Posted on 2025-06-09

3712 Loss of nephronophthisis-associated nephrocystin-1 impairs DNA damage repair in kidney organoids

Sendino Garvi, E.; Biermans, S.; Knoers, N. N. V. A. M.; van Eerde, A. A. M.; Masereeuw, R.; Slaats, G. G. G.; van Genderen, A. M.; Janssen, M. J.

10.1101/2025.06.09.658557 — molecular biology — Posted on 2025-06-09

3713 DDX3X acts as a selective dual switch regulator of mRNA translation in acute ER stress

Shawky, A.-E.-M. A.; Scarboro, A.; Mick, J.; Dondeti, M.; Avanzino, K.; Simintiras, C.; Hatzoglou, M.; Vourekas, A.

10.1101/2025.06.08.658532 — molecular biology — Posted on 2025-06-09

3714 Acute induction of IFNα is responsible for the attenuation of the live measles vaccine

Edwards, J.; Yoon, S.; Brockhurst, J. K.; Rennick, L. J.; Duprex, W. P.; Coppens, I.; Pekosz, A.; Griffin, D. E.

10.1101/2025.06.09.658652 — microbiology — Posted on 2025-06-09

3715 Genome-Wide Identification of Essential Genes in the Invasive Streptococcus anginosus Strain

Kurylek, A.; Gawor, J.; Zuchniewicz, K.; Gromadka, R.; Kern-Zdanowicz, I.

10.1101/2025.06.09.658608 — microbiology — Posted on 2025-06-09

3716 Specificity of Drosophila innubila Nudivirus Infection in Drosophila Cell Culture

Mulkey, K. M.; Adewumi, T.; Unckless, R.

10.1101/2025.06.09.658616 — microbiology — Posted on 2025-06-09

3717 Prenatal Zika Virus Exposure Disrupts Social-Emotional Development and Cortical Visual Function in Infant Macaques

Ausderau, K. K.; Boerigter, B.; Razo, E. R.; Gutkes, J.; Krabbe, N. P.; Mitzey, A. M.; Walsh, S.; Menna, V.; Drew, J. R.; Kabakov, S.; Eckes, F.; Spanton, R. V.; Shah, A.; Sun, A.; Katz, A.; Kim, C.; Hartman, A.; Weiler, A. M.; Rasmussen, C.; Nork, M.; Basu, P.; Simmons, H. A.; Ver Hoeve, J.; Capuano, S.; Friedrich, T. C.; Mohr, E. L.

10.1101/2025.06.09.658678 — microbiology — Posted on 2025-06-09

3718 Anti-Matrix Protein 1 Monoclonal Antibody NeutralizesInfluenza A Virus Subtypes

Sahin, O. S. G.; Le, J.; Devis, R.; Bucher, D. J.

10.1101/2025.06.09.658662 — microbiology — Posted on 2025-06-09

3719 Plasticity in a bacterial global regulatory switch that drives a shift in antibiotic resistance and virulence

Correia, A.; Manners, E. J.; Evans, B. A.; Malone, J. G.; O'Grady, J.; Mavrogiorgou, E.; Arminu, S.; Usai, M.; Naik, D.; McMillan, S.; Kay, G. L.; Hill, C.; Sudhakar, P.; Meader, E.; Schmidt, K.; Korcsmaros, T.; Desbois, A. P.; Crossman, L.; Wain, J.; Langridge, G. C.

10.1101/2025.06.09.658697 — microbiology — Posted on 2025-06-09

3720 A DNA part library for reliable engineering of the emerging model nematode symbiotic bacterium Xenorhabdus griffiniae HGB2511

Larsson, E. M.; Wang, O. Y.; Murray, R. M.

10.1101/2025.06.09.658710 — synthetic biology — Posted on 2025-06-09

3721 Conformational Landscaping and Dynamic Mutational Profiling of Binding Interactions and Immune Escape for Broadly Neutralizing Class I Antibodies with SARS-CoV-2 Spike Protein: Distributed Binding Hotspot Networks Underlie Mechanism of Viral Resistance Against Existing Variants

Alshahrani, M.; Parikh, V.; Foley, B.; Verkhivker, G.

10.1101/2025.06.07.658468 — biophysics — Posted on 2025-06-09

3722 Identification of reactive CpGs and RNA expression in early COVID-19 through cis-eQTM analysis reflecting disease severity and recovery

Ryu, H.; An, K.; Kwon, Y.; Jeon, Y.; Jeon, S.; Choi, H.; Kim, Y. J.; Kim, S.; Sul, O. J.; Lee, S.; Chun, A. Y.; Shin, E.-S.; Ra, S. W.; Bhak, J.

10.1101/2025.06.09.658549 — bioinformatics — Posted on 2025-06-09

3723 High-throughput in vivo screening using barcoded mRNA identifies lipid nanoparticles with extrahepatic tropism for cancer immunotherapy

Hamilton, A. G.; Thatte, A. S.; Xu, J.; Luo, Z.; Safford, H. C.; Swingle, K. L.; Muscat-Rivera, J.; Kegel, M.; Han, X.; Joseph, R. A.; Murray, A. M.; Geisler, H. C.; Whitaker, R. C.; Xue, L.; Spektor, R.; Melamed, J. R.; Weissman, D.; Mitchell, M. J.

10.1101/2025.06.09.658602 — bioengineering — Posted on 2025-06-09

3724 Expression of a human Gb3/CD77 synthase in insect and human cells: comparison of activity and glycosylation

Mikolajczyk, K.; Szymczak-Kulus, K.; Bereznicka, A.; Kaczmarek, R.; Sobala, L. F.; Jakubiak-Augustyn, A.; Czerwinski, M.

10.1101/2025.06.09.658241 — biochemistry — Posted on 2025-06-09

3725 SARS-CoV-2 reshapes mA methylation in long non-coding RNAs of human lung cells

Peter, C. M.; Cyrino, C. O.; Moretti, N. R.; Antoneli, F.; Briones, M. R.

10.1101/2025.06.08.658496 — molecular biology — Posted on 2025-06-09

3726 Methane-fed microbial communities enriched from field-grown rice support diverse heterotrophic bacteria

Perry, E. K.; Hasnain, A.; Cole, B. J.; Carlson, H. K.; Deutschbauer, A. M.; Chiniquy, D.

10.1101/2025.06.09.658666 — microbiology — Posted on 2025-06-09

3727 Brain FGF2 and NCAM1 contribute to FGFR1-dependent progression of ER+ breast cancer brain metastases in young and aged hosts

Fox, M. S.; Jaramillo-Gomez, J. A.; Marquez-Ortiz, R. A.; Alvarez-Eraso, K. L. F.; Contreras Zarate, M. J.; Koliavas, S.; Kabos, P.; Serkova, N. J.; Sartorius, C. A.; Wellberg, E. A.; Cittelly, D. M.

10.1101/2025.06.07.658373 — cancer biology — Posted on 2025-06-09

3728 Inflammasome activation differences underpin different Mycobacterium tuberculosis infection outcomes

Kumar, R.; Kolloli, A.; Bhargavi, G.; Husain, S.; Ghanny, S.; Soteropoulos, P.; Subbian, S.

10.1101/2025.06.06.658135 — immunology — Posted on 2025-06-09

3729 Hydrogel viscoelasticity modulates cell nascent extracellular matrix deposition

Tan, M.; Plaster, E.; Roy, A.; Wolfenson, H.; Abraham, A.; Loebel, C.

10.1101/2025.06.06.658326 — bioengineering — Posted on 2025-06-09

3730 Improved Allele Frequencies in gnomAD through Local Ancestry Inference

Kore, P.; Wilson, M.; Tiao, G.; Chao, K. R.; Darnowsky, P. W.; Watts, N.; Honorato-Mauer, J.; Baxter, S. M.; Genome Aggregation Database Consortium, ; Rehm, H.; Daly, M.; Karczewski, K. J.; Atkinson, E. G.

10.1101/2024.10.30.620961 — genomics — Posted on 2025-06-09

3731 Failed Cellular Surveillance Enables Pathogenic Matrix Deposition in a COL2A1-Related Osteoarthritis

Yammine, K. M.; Abularach, S. M.; Kim, S.-y.; Bikovtseva, A. A.; Lilianty, J.; Butty, V. L.; Schiavoni, R. P.; Bateman, J. F.; Lamande, S. R.; Shoulders, M. D.

10.1101/2023.10.19.562780 — genetics — Posted on 2025-06-09

3732 Effect and Mechanism Analysis of Melittin on Promoting Muscle Differentiation of Adipose Stem Cells

Fei, W.-Y.; Li, M.; Yang, Y.; Zhang, J.

10.1101/2025.06.05.658180 — cell biology — Posted on 2025-06-09

3733 Single-cell and cell-type-level insights into stress-driven immune regulation relevant to disease

Benavides, S.; Kosyk, O.; Carpenter, L.; Georgiou, C.; Miller, B. C.; Stanley, N.; Zannas, A. S.

10.1101/2025.06.05.658150 — immunology — Posted on 2025-06-09

3734 Imaging CRISPR-Edited CAR-T Cell Therapies with Optical and Positron Emission Tomography Reporters

Sanchez-Pupo, R. E.; Kelly, J. J.; Shalaby, N.; Xia, Y.; Martinez Santiesteban, F. M.; Lau, J.; Verriet, I.; Hicks, J.; Fox, M.; Thiessen, J. D.; Ronald, J. A.

10.1101/2025.06.06.658308 — immunology — Posted on 2025-06-09

3735 SINE compounds activate exportin-1 degradation via an allosteric mechanism

Wing, C. E.; Fung, H. Y. J.; Kwanten, B.; Cagatay, T.; Niesman, A. B.; Jacquemyn, M.; Gharghabi, M.; Permentier, B.; Shakya, B.; Nandi, R.; Ready, J. M.; Kashyap, T.; Shacham, S.; Landesman, Y.; Lapalombella, R.; Daelemans, D.; Chook, Y. M.

10.1101/2024.10.07.617049 — cancer biology — Posted on 2025-06-09

3736 Distinct substrate and intermediate recognition via mutation effects on Mycobacterium tuberculosis methionyl-tRNA synthetase

THAKUR, S.; Mehra, R.

10.1101/2025.06.06.658285 — biophysics — Posted on 2025-06-09

3737 ArchMap: A web-based platform for reference-based analysis of single-cell datasets

Lotfollahi, M.; Bright, C.; Skorobogat, R.; Dehkordi, M.; George, X.; Richter, S.; Topalova, A.; Shitov, V.; Luecken, M. D.; Theis, F. J.

10.1101/2024.09.19.613883 — bioinformatics — Posted on 2025-06-09

3738 A hybrid machine learning framework leveraging biophysicochemical insights for scalable discovery of protein-ligand interactions

Rayakar, A. A.; Jaladanki, C. K.; Ong, Q.; Tan, B.; Chen, J.; Tan, A. Q. L.; Lim, L. T. R.; Kohaal, N.; Chen, Y.; Wang, J.; Han, W.; Hu, J.; Lee, H. K.; Fan, H.

10.1101/2025.03.16.643501 — bioinformatics — Posted on 2025-06-09

3739 Brain-derived extracellular vesicle microRNAs in Lewy body and Alzheimer's disease

Yang, S. J.; Lin, A. A.; Shen, H.; Pappalardo, L. W.; Spychalski, G. B.; Rosario, J.; Forsberg, L. K.; Grant, K. M.; Savica, R.; O'Bryant, S.; Jones, D. T.; Dickson, D. W.; Reichard, R. R.; Nguyen, A. T.; Meaney, D. F.; Boeve, B. F.; Ross, O. A.; McLean, P. J.; Issadore, D.

10.1101/2025.06.06.656900 — bioengineering — Posted on 2025-06-09

3740 Low-density lipoprotein receptor-targeting chimeras for membrane protein degradation and enhanced drug delivery

Zhao, F.; Wu, Y.; Schaefer, K.; Zhang, Y.; Miao, K.; Yao, Z.; Ganjave, S. D.; Kumru, K.; Peters-Clarke, T. M.; Inague, A.; Olzmann, J. A.; Leung, K. K.; Wells, J. A.

10.1101/2025.06.06.658366 — bioengineering — Posted on 2025-06-09

3741 Combined Central and Peripheral Nerve Stimulation Improves Functional Recovery of Mixed Peripheral Nerve Injury in a Rat Forelimb Model

Eftekari, S. C.; Yoon, Y.-C.; Chen, R. C.-H.; Nicksic, P. J.; Donnelly, D. T.; Jesch, A.; Shaffrey, E. C.; Zeng, W.; Ludwig, K. A.; Poore, S. O.; Vakoc, B. J.; Suminski, A.; Dingle, A. M.

10.1101/2025.01.26.634922 — neuroscience — Posted on 2025-06-09

3742 Systems modeling reveals that store-operated calcium entry modulates force and fatigue during exercise

Francis, E. A.; Hamid, J.; Kumar, A.; Rangamani, P.

10.1101/2025.05.22.655415 — systems biology — Posted on 2025-06-09

3743 The regulatory architecture of gene expression variation in C. elegans revealed by multi-strain allele-specific analysis

Bell, A. D.; Valencia, F.; Paaby, A. B.

10.1101/2024.10.15.618466 — genetics — Posted on 2025-06-09

3744 MIRO1 controls energy production and proliferation of vascular smooth muscle cells

Qian, L.; Koval, O. M.; Endoni, B. T.; Juhr, D.; Stein, C. C.; Allamargot, C.; Lin, L.-H.; Guo, D.-F.; Rahmouni, K.; Boudreau, R. L.; Streeter, J.; Thiel, W. H.; Grumbach, I. M.

10.1101/2024.08.13.607854 — cell biology — Posted on 2025-06-09

3745 Timing of transcription controls the selective translation of newly synthesized mRNAs during acute environmental stress

Zedan, M.; Schürch, A. P.; Heinrich, S.; Gomez-Garcia, P. A.; Khawaja, S.; Dörries, L.; Weis, K.

10.1101/2024.04.14.589419 — molecular biology — Posted on 2025-06-09

3746 Single-cell and cell-type-level insights into stress-driven immune regulation relevant to disease

Benavides, S.; Kosyk, O.; Carpenter, L.; Georgiou, C.; Miller, B. C.; Stanley, N.; Zannas, A. S.

10.1101/2025.06.05.658150 — immunology — Posted on 2025-06-09

3747 Effects of diffusion MRI spatial resolution on human brain short-range association fiber reconstruction and structural connectivity estimation

Zheng, J.; Li, Z.; Zhong, W.; Wang, Z.; Li, Z.; Yang, H.; Liu, M.; Cao, X.; Liao, C.; David, S. H.; Huang, S. Y.; Tian, Q.

10.1101/2025.06.04.657810 — neuroscience — Posted on 2025-06-09

3748 Too little and too much: balanced hippocampal, but not medial prefrontal, neural activity is required for intact novel object recognition in rats

Taylor, C. J. L.; Renstrom, J. G.; Loayza, J.; Gwilt, M.; Williams, S. A.; Grasmeder Allen, R.; Moran, P. M.; Gigg, J.; Neill, J.; Harte, M.; Bast, T.

10.1101/2025.04.01.646403 — neuroscience — Posted on 2025-06-09

3749 Perceptual glimpses are locally accumulated and globally maintained at distinct processing levels

Pares-Pujolras, E.; Geuzebroek, A. C.; O'Connell, R. G.; Kelly, S. P.

10.1101/2025.04.30.651428 — neuroscience — Posted on 2025-06-09

3750 Estimation of stature from hand length and hand breadth in undergraduate medical students: An anthropometric study

Pandey, N.; Phuyal, N.; Shrestha, A.; Pandeya, A.; Mishra, A. K.; Bhusal, K.

10.1101/2025.06.03.657765 — systems biology — Posted on 2025-06-09

3751 Pan-angiosperm analysis of the CLE signaling peptide family unveils paths, patterns, and predictions of paralog diversification

Gentile, I.; Santo Domingo, M.; Zebell, S. G.; Fitzgerald, B.; Lippman, Z.

10.1101/2025.06.04.657892 — plant biology — Posted on 2025-06-09

3752 Testing for a wildlife reservoir of divergent SARS-CoV-2 in white-tailed deer

Crawshaw, L.; Kotwa, J. D.; Jeeves, S. P.; Loomer, C.; Dibernardo, A.; Stewart, A.; Newar, S. L.; Chien, E.; Yim, W.; Kruczkiewicz, P.; Vernygora, O.; Lung, O.; Schulte-Hostedde, A. I.; Nituch, L.; Maguire, F.; Pickering, B.; Jardine, C. M.; Coatsworth, H.; Mubareka, S.; Bowman, J.

10.1101/2025.05.22.655348 — pathology — Posted on 2025-06-09

3753 Infrared Laser Sampling of Low Volumes Reveals Marker Lipids in Palatine Tonsil Carcinoma via Shotgun Lipidomics

Kerkhoff, L.; Moritz, M.; Eggert, D.; Worthmann, A.; Heeren, J.; Zech, H.; Clauditz, T.; Wilczak, W.; Schlueter, H.; Betz, C. S.; Bottcher, A.; Hahn, J.

10.1101/2025.06.05.658016 — cancer biology — Posted on 2025-06-09

3754 PACT suppresses PKR activation through dsRNA binding and dimerization, and is a therapeutic target for triple-negative breast cancer

Young, A. A.; Juhler, I. G.; Pierce, J. R.; Bohlin, H. E.; Harper, H. A.; Onishile, D. S.; Chua, R. N.; Liu, M. E.; Gardner, E. N.; Elzey, B. D.; Cottrell, K. A.

10.1101/2025.05.27.656288 — cancer biology — Posted on 2025-06-09

3755 GTP cycling gates CTP synthase activation

Guo, C.-J.; Wu, Y.-F.; Guo, S.-Y.; Lu, J.-L.; Xu, L.; Fu, Y.; Zhou, X.; Zhong, J.; Wang, W.; Zhang, Z.; Liu, J.-L.

10.1101/2022.09.24.509316 — biochemistry — Posted on 2025-06-09

3756 A Cryptic Interfacial Pocket Uncovered in Full CRL4CRBN-IKZF3 Ubiquitylation Complex Enhances IMiD Efficacy

Deng, Z.; Ai, H.; Shi, Q.; Liang, J.; He, Z.; Zheng, J.; Li, H.; Zhang, L.; He, W.; Tao, S.; Zheng, Q.; He, W.; Pan, M.; Liu, L.

10.1101/2025.06.08.658527 — biochemistry — Posted on 2025-06-09

3757 Timing and social dynamics of divorce in wild great tits: a phenomenological approach

Abraham, A. D.; Sheldon, B. C.; Firth, J. A.

10.1101/2024.12.13.628365 — animal behavior and cognition — Posted on 2025-06-09

3758 Hb-EGF directs systemic muscle repair

Dean, H. C.; Saraswathy, V.; Saini, A.; Ou, T.; McAdow, J.; Tendolkar, A.; Mokalled, M.; Johnson, A. N.

10.1101/2025.06.04.657846 — developmental biology — Posted on 2025-06-09

3759 Remodelled cholesteryl ester enriched lipid droplets fuel flavivirus morphogenesis

Banducci-Karp, A.; Brixton, S.; Shah, P. M.; Li, M.-Y.; Bancroft, J.; Riepsaame, J.; Dhaliwal, R.; Melia, C. E.; Malavige, G. N.; Sanyal, S.

10.1101/2025.06.07.658178 — cell biology — Posted on 2025-06-09

3760 A Transient Increase in Cardiomyocyte Protein O-GlcNAcylation Enhances Susceptibility to Pressure Overload-Induced Cardiac Remodeling

Chang, S. F.; Ha, C.-M.; Brahma, M. K.; Potter, L. A.; Reddy, M. S.; Bakshi, S.; Preuss, K.; Rahman, M. S.; Fischer, J.; Harrell, C. A.; Sun, Z.; Chatham, J. C.; Wende, A. R.

10.1101/2025.06.04.657956 — molecular biology — Posted on 2025-06-09

3761 Accumulation of LRRK2-associated phospho-Rab12 degenerative lysosomes in tauopathies

Buck, S. A.; Malankhanova, T.; Ma, E. B.; Yim, S.; Pratt, H. W.; Ervin, J.; Wang, S.-H. J.; Cohen, T. J.; West, A. B.; Sanders, L. H.

10.1101/2025.06.06.658328 — neuroscience — Posted on 2025-06-09

3762 Smelling the Risk: Early Olfactory Deficits, Brain Networks, and Blood Markers of Alzheimers Disease Risk in Humanized APOE Mice

Moon, H. S.; Han, Z. Y.; Anderson, R. J.; Mahzarnia, A.; Stout, J. A.; Niculescu, A.; Tremblay, J.; Badea, A.

10.1101/2025.06.06.658383 — neuroscience — Posted on 2025-06-09

3763 Supervised Spike Sorting Feasibility of Noisy Single-Electrode Extracellular Recordings: Systematic Study of Human C-Nociceptors recorded via Microneurography

Troglio, A.; Konradi, P.; Fiebig, A.; Perez Garriga, A.; Rohrig, R.; Dunham, J.; Kutafina, E.; Namer, B.

10.1101/2024.12.31.630860 — neuroscience — Posted on 2025-06-09

3764 Scheduled feeding improves behavioral outcomes and reduces inflammation in a mouse model of Fragile X syndrome.

Wang, H.-B.; Smale, N. E.; Brown, S. H.; Villanueva, S. A.; Zhou, D.; Mulji, A.; Bhandal, D. S.; Nguyen-Ngo, K.; Harvey, J. R.; Ghiani, C. A.; Colwell, C. S.

10.1101/2024.09.16.613343 — neuroscience — Posted on 2025-06-09

3765 Deep learning linking mechanistic models to single-cell transcriptomics data reveals transcriptional bursting in response to DNA damage

Huang, Z.; Luo, S.; Wang, Z.; Zhang, Z.; Jiang, B.; Nie, Q.; Zhang, J.

10.1101/2024.07.10.602845 — systems biology — Posted on 2025-06-09

3766 A Chromosome-Level Assembly of the Pine Processionary Moth (Thaumetopoea pityocampa) genome

Gautier, M.; Nouhaud, P.; Lagnel, J.; Saune, L.; Legeai, F.; Parinello, H.; Gschloessl, B.; Marande, W.; Lopez-Roques, C.; Dorkeld, F.; Branco, M.; Perrier, C.; Kerdelhue, C.

10.1101/2025.06.06.658235 — genomics — Posted on 2025-06-09

3767 Multiparent Recombinant Inbred lines crossed to a tester provide novel insights into sources of cis and trans regulation of gene expression

Marroni, F.; Morse, A. M.; Nanni, A.; Nolte, N. F.; Williams-Simon, P.; Leon-Novelo, L. G.; Graze, R. M.; Schmidt, P.; King, E. G.; McIntyre, L. M.

10.1101/2025.06.07.658407 — genetics — Posted on 2025-06-09

3768 SMART: An Integrated Platform Revolutionizing Cryo-Electron Microscopy Workflow from Data Acquisition to Atomic Modeling

Liu, H.; Wu, Y.; Zhang, W.; Xu, H.; Guo, Z.; Meng, F.; Men, X.; Guo, A. C.

10.1101/2025.06.05.657588 — bioinformatics — Posted on 2025-06-09

3769 Uncovering Heterogeneous Effects via Localized Feature Selection

Liu, X.; Gu, J.; Chen, Z.; Chu, B.; Liu, L.; Morrison, T.; Butler, R. R.; Edelson, J.; Li, J.; Longo, F. M.; Tang, H.; Ionita-laza, I.; Sabatti, C.; Candes, E.; He, Z.

10.1101/2025.06.03.657761 — bioinformatics — Posted on 2025-06-09

3770 The Driving W Hypothesis for Low Within-Population Mitochondrial DNA Diversity and Between-Population Mitochondrial Capture

Irwin, D.

10.1101/2025.05.31.656024 — evolutionary biology — Posted on 2025-06-09

3771 Epigenetic variation can promote adaptation by smoothing rugged fitness landscapes

Mall, A.; Marx, C. J.; Draghi, J. A.

10.1101/2025.06.06.658353 — evolutionary biology — Posted on 2025-06-09

3772 Localization of KANK2 to Focal or Fibrillar Adhesions Influences Migration in Melanoma Cell Lines

Stojanovic, N.; Rac, A.; Loncaric, M.; Tadijan, A.; Paradzik, M.; Acman, M.; Humphries, J. D.; Humphries, M. J.; Ambriovic-Ristov, A.

10.1101/2025.02.24.639831 — cell biology — Posted on 2025-06-09

3773 TURBO: Automated Total-body PET Image Processing and Kinetic Modeling Toolbox

10.1101/2025.06.06.658206 — neuroscience — Posted on 2025-06-09

3774 Somatostatin interneurons in auditory cortex contribute to perceptual categorization

Chai, R.; Zhang, Y.; Xin, Y.; Deng, L.; Xu, N.-l.

10.1101/2022.07.06.498950 — neuroscience — Posted on 2025-06-09

3775 Identification and Validation of a Previously Missed Mutational Signature in Colorectal Cancer

Kazachkova, M.; Otlu-Saritas, B.; Diaz-Gay, M.; Abbasi, A.; Moody, S.; Perdomo, S.; Wedge, D. C.; Brennan, P.; Stratton, M.; Alexandrov, L. B.

10.1101/2025.06.06.658321 — cancer biology — Posted on 2025-06-09

3776 Extracellular vesicle-derived miR-425-5p (miR-425) activates astrocytes in the brain to promote breast cancer brain metastasis via the novel miR-425-ZNF24-CCL8 signaling axis

Wong, G. L.; Khan, M. S.; Manore, S.; Bindal, S.; Singh, R.; Lo, H.-W.

10.1101/2025.06.05.658130 — cancer biology — Posted on 2025-06-09

3777 Repetitive mild traumatic brain injury causes neuronal damage in the APP/PS1 mouse model of Alzheimer's disease without an enduring impact on amyloid pathology, sleep, or epileptiform activity

Yue, J.; Carriquiriborde, V.; Cheng, W. H.; Yildirim, T.; Fan, J.; Tok, S.; Kelly, M.; Wellington, C.; Kent, B.

10.1101/2025.06.06.658157 — neuroscience — Posted on 2025-06-09

3778 Integrated Profiling of Synaptic E/I Balance Reveals Altered Synaptic Organization and Phenotypic Variability in a Prenatal ASD Model

Matsumuro, M.; Ichinose, S.; Iwasaki, H.

10.1101/2025.06.08.658540 — neuroscience — Posted on 2025-06-09

3779 Forecasting oncogene amplification and tumour suppressor deletion

Hernando, B.; Fernandez-Sanroman, A.; Cadiz, A.; Santamaria, P. G.; Gomez-Sanchez, D.; Escobar-Rey, M.; Chaves-Urbano, B.; Thompson, J. S.; Torres, M.; Ruiz de Garibay, G.; Adradas, V.; Alvarez, E.; The Pan Prostate Cancer Group, ; Tarabichi, M.; Lesluyes, T.; Coya, J. M.; Zugazagoitia, J.; Paz-Ares, L.; Macintyre, G.

10.1101/2025.06.06.658212 — genomics — Posted on 2025-06-09

3780 Persistent ECM Scarring Reprograms Intestinal Stem Cells to Drive Chronic Inflammation

Adir, I.; Sochen, C.; Menachem, A. H.; Lebon, S.; Toval, B.; Holiar, V.; Davidzohn, N.; Salame, T. M.; Rosenhek-Goldian, I.; Savickas, S.; Sabino, F.; auf dem Keller, U.; Biton, M.; Sagi, I.

10.1101/2025.06.08.658481 — immunology — Posted on 2025-06-09

3781 TH5487 specifically targets NLRP3 in FCAS patients resistant to MCC950

Lackner, A.; Leonidas, L.; Macapagal, A.; Lee, H.; Xu, H.; Qiu, Y.; Campos, M.; Cabral, J. E.; Onyuru, J.; Kulkarni, S.; Albrecht, L.; Hoffman, H. M.; McNulty, R.

10.1101/2025.06.05.658156 — immunology — Posted on 2025-06-09

3782 Structural insights into wiring specificity in the neuromuscular system through the Beat-Side complex

Priest, J. M.; Zhang, R.; Olechwier, A. M.; Caspi-Lebovic, A. B.; Ashley, J.; Aher, V.; Carrillo, R. A.; Özkan, E.

10.1101/2025.06.05.656487 — neuroscience — Posted on 2025-06-09

3783 Metformin boosts mitochondria and neurogenesis via AMPK/mTOR/SIRT3 in POLG mutant organoids

Chen, A.; Schmidke, S. E.; Kristiansen, C. K.; Liang, K. X.

10.1101/2025.06.08.658480 — neuroscience — Posted on 2025-06-09

3784 Multivariate Resting-State Functional Connectivity Features Linked to Transdiagnostic Psychopathology in Early Psychosis

Wang, H. R.; Liu, Z.-Q.; Nomi, J. S.; Schleifer, C. H.; Bearden, C. E.; Misic, B.; Uddin, L. Q.; Karlsgodt, K. K.

10.1101/2025.06.04.654984 — neuroscience — Posted on 2025-06-09

3785 Childhood Maltreatment and Deviations from Normative Brain Structure: Results from 3,711 Individuals from the ENIGMA MDD and ENIGMA PTSD

Wang, H. R.; ENIGMA MDD Working Group and ENIGMA PTSD Working Group, ; Ho, T. C.

10.1101/2025.06.04.657717 — neuroscience — Posted on 2025-06-09

3786 Neurological effects induced by micro- and nanoplastics in fish: a systematic review and meta-analysis

Klippel Zanona, Q.; Gallas-Lopes, M.; Alves Marconi, G.; Nachtigall Lazzarotto, I.; Piato, A.; Herrmann, A. P.; Calcagnotto, M. E.

10.1101/2025.06.07.658168 — neuroscience — Posted on 2025-06-09

3787 Development of a Novel Benzodiazepine to Delineate Peripheral GABA-A Signaling Mechanisms in Visceral Pain Syndromes

Poslusney, M. S.; Li, Q.; Buchler, I. P.; Huang, Y.; Liu, L.; Zhu, Y.; Kulkarni, S.; Carr, G.; DeBrosse, A.; White, N.; Peters, D.; Barrow, J. C.; Pasricha, P. J.

10.1101/2025.06.08.658501 — neuroscience — Posted on 2025-06-09

3788 Metabolic energy expenditure during level, uphill, and downhill running

Looney, D. P.; Hoogkamer, W.; Kram, R.

10.1101/2025.06.05.658094 — physiology — Posted on 2025-06-09

3789 Intra-subtype heterogeneity shapes treatment response in KMT2A-rearranged ALL across all age groups

Hartmann, A. M.; Bastian, L.; Barz, M. J.; Haas, J.; Amelunxen, E.; Ehm, P.; Lenk, L.; Kotrova, M.; Beder, T.; Steffen, F.; Rauwolf, K.; Wolgast, N.; Bendig, S.; Bozzetti, C.; Alten, J.; Mondal, M.; Rademacher, A.; Heymann, J.; Walter, W.; Haferlach, C.; Ströh, A.-S.; Bergmann, A. K.; Burmeister, T.; Gökbuget, N.; Bornhauser, B.; Bourquin, J.-P.; Brüggemann, M.; Schrappe, M.; Cario, G.; Baldus, C. D.

10.1101/2025.06.05.657589 — cancer biology — Posted on 2025-06-09

3790 A high-throughput immunopeptidome platform for MHC II alleles to characterize antigen-specific CD4 + T cells

Chen, J.; Zhu, X.; Huo, J.; Wu, S.; Zhou, T.; Cheng, C.; Dong, H.; Li, Y.; Chen, Y.; Dong, X.

10.1101/2025.06.05.658000 — biochemistry — Posted on 2025-06-09

3791 De novo genome assembly of Ansell's mole-rat (Fukomys anselli)

Bekavac, M.; Coimbra, R.; Busa, V. F.; Behm, M.; Wagner, R. E.; Goncalves, A.; Begall, S.; Frye, M.; Odom, D. T.

10.1101/2025.06.03.657636 — genomics — Posted on 2025-06-09

3792 A pan-generic marker panel for apples to enable genetic research and breeding across Malus species

Sakina, A.; Tegtmeier, R.; Feulner, H.; Hickok, D.; Svara, A.; Cho, P.; Clark, M.; Kilian, A.; Glaubitz, J.; Sun, Q.; Khan, A.

10.1101/2025.06.05.657940 — genetics — Posted on 2025-06-09

3793 Pervasive Intraspecific Genetic Local Adaptation Within the Natural Gut Microbiome

Jasper, R.; Kapopoulou, A.; Peischl, S.; Yilmaz, B.; Becker, J.; Bank, C.

10.1101/2025.06.06.658271 — evolutionary biology — Posted on 2025-06-09

3794 Membranes arrest the coarsening of mitochondrial condensates

Aththawala Gedara, S. V. B. D.; Penna, S. T.; Feric, M.

10.1101/2025.06.06.658068 — cell biology — Posted on 2025-06-09

3795 Duration of immunity following infection with moderately virulent ASFV

Friedrichs, V.; Deutschmann, P.; Wernike, K.; Carrau, T.; Beer, M.; Blome, S.; Schäfer, A.

10.1101/2025.06.05.657993 — immunology — Posted on 2025-06-09

3796 CFTR mutation leads to intrinsic dysfunction in neutrophils from people with Cystic Fibrosis

Robledo-Avila, F. H.; Rascon, R.; Montanez-Barragan, A.; Loyo-Celis, V.; Singh, H.; McCoy, K. S.; Kopp, B. T.; Partida-Sanchez, S.

10.1101/2025.06.08.656500 — immunology — Posted on 2025-06-09

3797 Interlinked roles for HEB and Id3 in fetal gamma-delta T cell commitment and functional programming

Selvaratnam, J. S.; Barbosa da Rocha, J. D.; Rajan, V.; Wang, H.; Reddy, E. C.; Gams, M. S.; Murre, C.; Guidos, C. J.; Zuniga-Pflucker, J. C.; Anderson, M. K.

10.1101/2025.06.08.658490 — immunology — Posted on 2025-06-09

3798 Ambient Pollution Components and Sources Associated with Hippocampal Architecture and Memory in Pre-Adolescents

Rosario, M. A.; Sukumaran, K.; Bottenhorn, K. L.; de Jesus, A.; Cardenas-Iniguez, C.; Ahmadi, H.; Habre, R.; Abad, S.; Pine, J. G.; Barch, D. M.; Schwartz, J.; Hackman, D. A.; Chen, J.-C.; Herting, M. M.

10.1101/2025.06.05.658105 — neuroscience — Posted on 2025-06-09

3799 Selective vulnerability of cerebral vasculature to NOTCH3 variants in small vessel disease and rescue by phosphodiesterase-5 inhibitor

Zhao, X.; Yu, C.; Adamson, A.; Zhao, A.; Zhou, H.; Sharma, P.; Wang, T.

10.1101/2025.05.30.656914 — neuroscience — Posted on 2025-06-09

3800 Youth-associated protein TIMP2 alters microglial state and function in the context of aging

Hemmer, B. M.; Ferreira, A. C.; Philippi, S. M.; Petridis, S. F.; Phan, A.; Castellano, J. M.

10.1101/2025.05.20.655226 — neuroscience — Posted on 2025-06-09

3801 Data-driven identification of biomedical systems using multi-scale analysis

Muhammed, I.; Manias, D. M.; Goussis, D. A.; Hatzikirou, H.

10.1101/2025.06.05.657989 — systems biology — Posted on 2025-06-09

3802 IDENTIFYING MISCONCEPTIONS ABOUT PROTEIN STRUCTURE AND FUNCTION IN A NON-MAJORS BIOCHEMISTRY COURSE

Owusu, B.; Stargell, L.; Otto, J. L.; Balgopal, M.

10.1101/2025.06.05.657987 — scientific communication and education — Posted on 2025-06-09

3803 In vivo RUBISCO activity in Synechocystis is regulated by RuBP availability

Wittemeier, L.; Arrivault, S.; Neumann, N.; Macek, B.; Schmidt, N.; Hagemann, M.; Kopka, J.

10.1101/2025.06.06.658252 — plant biology — Posted on 2025-06-09

3804 Calorie restriction suppresses aging alpha cell pro-inflammatory signaling

Schleh, M.; Cambraia, A.; Cutler, M.; Ferguson, G.; Arrojo e Drigo, R.

10.1101/2025.06.04.657914 — physiology — Posted on 2025-06-09

3805 Bacteria-induced colitis in naked mole rats is alleviated by probiotic treatment: a new mammalian model for acute inflammatory disease

Hart, D. W.; Ng, A. S.; Gazinska, P.; Goldin, R.; Gopal, P.; O'Dell, N.; Montazid, S.; East, J. E.; Tomlinson, I. P.; Koch, N.; Bennett, N. C.; Irshad, S.

10.1101/2025.06.05.658065 — pathology — Posted on 2025-06-09

3806 Observing intersubunit dynamics in single yeast ribosomes

Das, A.; Ivanov, A. V.; Wakabayashi, H.; Grove, A. K.; Ermolenko, D. N.

10.1101/2025.06.05.658109 — biophysics — Posted on 2025-06-09

3807 Membrane phosphoinositides allosterically tune β-arrestin dynamics to facilitate GPCR core engagement

Janetzko, J.; Deutsch, J.; Shi, Y.; Siepe, D. H.; Masureel, M.; Liu, W.; Viner, R.; Inoue, A.; Kobilka, B. K.; Shivnaraine, R. V.

10.1101/2025.06.06.658200 — biophysics — Posted on 2025-06-09

3808 A light-weight segmentation method for multi-state Brownian trajectories

El Korde, I.; Lewis, J. M.; Clarkson, E.; Dam, T.; Jönsson, P.; Ambjörnsson, T.; Stenhammar, J.

10.1101/2025.06.05.658053 — biophysics — Posted on 2025-06-09

3809 Evaluating the Influence of Disease-Gene Associations in the Significance of Disease Modules through the lens of Network Medicine

Gil, A.; Prieto-Santamaria, L.; Rodriguez-Gonzalez, A.

10.1101/2025.06.05.657982 — bioinformatics — Posted on 2025-06-09

3810 Harnessing Immunoinformatic for HIV-2: Multi-Epitope Vaccine Design Targeting the env Protein (CAA28914.1)

Ali, M.; Arafat, Y.; Gull, S. A.; Anwar, F.; Zainab, S.; Abbas, Q.

10.1101/2025.06.06.658249 — bioinformatics — Posted on 2025-06-09

3811 {Psi}-Atlas: an integrated atlas for pseudouridine epitranscriptome

Wang, X.; Luo, J.; Lang, X.; Liu, Q.

10.1101/2025.06.06.656536 — bioinformatics — Posted on 2025-06-09

3812 PLIERv2: bigger, better and faster

Subirana-Granes, M.; Nandi, S.; Zhang, H.; Chikina, M.; Pividori, M.

10.1101/2025.06.05.658122 — bioinformatics — Posted on 2025-06-09

3813 Ish: SIMD and GPU Accelerated Local and Semi-Global Alignment as a CLI Filtering Tool

Stadick, S.

10.1101/2025.06.04.657890 — bioinformatics — Posted on 2025-06-09

3814 PIVOT: an open-source tool for multi-omic spatial data registration

Forjaz, A.; Romero, V. M.; Reucroft, I.; Eminizer, M.; Kramer, D.; Higuera, D.; Mojdeganlou, H.; Guerrero, P. A.; Min, J.; Wetzel, M.; Lvovs, D.; Valentin, A.; Shin, S. M.; Xuan, Y.; Sears, R. C.; Chin, K.; Maitra, A.; Fertig, E. J.; Ho, W. J.; Kagohara, L. T.; Wood, L. D.; Wirtz, D.; Sidiropoulos, D. N.; Kiemen, A. L.

10.1101/2025.06.08.658506 — bioinformatics — Posted on 2025-06-09

3815 Bridging Genomics and Clinical Medicine: RSVrecon Enhances RSV Surveillance with Automated Genotyping and Clinically-important Mutation Reporting

Li, L.; Yi, H.; Brazelton, J. N.; Webby, R.; Hayden, R. T.; Wu, G.; Hijano, D. R.

10.1101/2025.06.03.657184 — bioinformatics — Posted on 2025-06-09

3816 stVCR: Spatiotemporal dynamics of single cells

Peng, Q.; Zhou, P.; Li, T.

10.1101/2024.06.02.596937 — bioinformatics — Posted on 2025-06-09

3817 Topical Delivery of 4-Aminopyridine Enhances Skin Regeneration in Burn Wounds

Ellur, G.; Kamaraj, M.; Elfar, J.; Govindappa, P. K.; John, J. V.

10.1101/2025.06.05.658142 — bioengineering — Posted on 2025-06-09

3818 A Tunable Pulmonary Organoid Model Demonstrates Compositionally Driven Epithelial Plasticity and Immune Polarization

Edelstein, S. E.; Mizoguchi, S.; Gracia, M. T.; Wang, N.; Lee, V.; Kim, H.; Haynes, C.; Danelski, C.; Tsuchiya, T.; Sauler, M.; Raredon, M. S. B.

10.1101/2025.06.05.658120 — bioengineering — Posted on 2025-06-09

3819 Mechanisms of KCNQ1 gating modulation by KCNE1/3 for cell-specific function

Cui, C.; Zhao, L.; Kermani, A. A.; Du, S.; Pipatpolkai, T.; Jiang, M.; Chittori, S.; Tan, Y.; Shi, J.; Delemotte, L.; Cui, J.; Sun, J.

10.1101/2025.06.08.658478 — biochemistry — Posted on 2025-06-09

3820 Unraveling the start element and regulatory divergence of core promoters across the domain Bacteria

Kuo, S.-T.; Chang, J. K.; Chang, C.; Shen, W.-Y.; Hsu, C.; Lai, S.-W.; Chou, H.-H. D.

10.1101/2025.01.23.634641 — genomics — Posted on 2025-06-09

3821 Impact of Sperm Fractionation on Chromosome Positioning, Chromatin Integrity, DNA Methylation and Hydroxymethylation Level

Graczyk, Z.; Kostyk, J.; Pospieszna, J. A.; Myslicka, Z.; Kamieniczna, M.; Fraczek, M.; Olszewska, M.; Kurpisz, M.

10.1101/2025.06.07.658443 — genetics — Posted on 2025-06-09

3822 Do shifts in honeybee crop microbiota enable ethanol accumulation? A comparative analysis of caged and foraging bees

Antoł, W.; Surmacz, B.; Ostap-Chec, M.; Stec, D.; Miler, K.

10.1101/2025.06.05.658140 — ecology — Posted on 2025-06-09

3823 Generation and characterization of a mouse model of conditional Chd4 knockout in the endometrial epithelium.

Chandler, R. L.; Harkins, S. K.; Skalski, H. J.; Bennett, A. Z.; Pavliscak, L.; Arendt, A. R.; Wood, L.; Moldovan, G. E.

10.1101/2025.06.05.658183 — developmental biology — Posted on 2025-06-09

3824 Primitive Hepatoblasts Driving Early Liver Development

Iwasawa, K.; Koike, H.; Reza, H. A.; Milton, Y.; Kishimoto, K.; Thorner, K.; Granitto, M.; Saiki, N.; Santangelo, C.; Glaser, K.; Kimura, M.; Bondoc, A.; Lim, H.-W.; Morimoto, M.; Iwafuchi, M.; Wells, J. M.; Zorn, A. M.; Takebe, T.

10.1101/2025.06.08.658502 — developmental biology — Posted on 2025-06-09

3825 Canonical nuclear envelope protein emerin regulates structure and integrity of the erythrocyte plasma membrane

O'Brien, B.; Oliver, J.; Thompson, E. N.; Mayday, M. Y.; Mancuso, R.; Jha, A.; Kwan, J.; Bonne, G.; Ben Yaou, R.; Leturcq, F.; Bai, S.; Nottoli, T.; Hwa, J.; Krause, D. S.; Gallagher, P. G.; Gu, S. X.; Martin, K. A.

10.1101/2025.06.06.658339 — cell biology — Posted on 2025-06-09

3826 Diminished and altered cellular senescence response in delayed wound healing of aging

Shvedova, M.; Thanapaul, R. J. R. S.; Wang, Q.; Shin, G. H.; Dhillon, J.; Roh, D. S.

10.1101/2025.06.08.658533 — cell biology — Posted on 2025-06-09

3827 JIP4 deficiency causes a novel lysosome storage disease arising from impaired cystine efflux

Nassar, L. M.; Shi, x.; Roczniak-Ferguson, A.; Shen, H.; Ferguson, S. M.

10.1101/2025.06.06.657909 — cell biology — Posted on 2025-06-09

3828 Remodelled cholesteryl ester enriched lipid droplets fuel flavivirus morphogenesis

Banducci-Karp, A.; Brixton, S.; Shah, P. M.; Li, M.-Y.; Bancroft, J.; Riepsaame, J.; Dhaliwal, R.; Melia, C. E.; Malavige, G. N.; Sanyal, S.; Bancroft, J.

10.1101/2025.06.07.658178 — cell biology — Posted on 2025-06-09

3829 The fastest movements and the most extreme deformations of the cell nucleus are driven by microtrubules in the model fungus Podospora anserina

Viron, M.-c.; Kachaner, Z.; Grognet, P.; Lalanne, C.; Guichet, A.; Brun, S.

10.1101/2025.06.08.658251 — cell biology — Posted on 2025-06-09

3830 G1 and G2 ApolipoproteinL1 modulate macrophage inflammation and lipid accumulation through the polyamine pathway

Liu, E.; Wright, M.; Kearney, A. O.; Caza, T.; Yang, J. Y.; Garcia, V.; Dadi, A. O.; Ishibe, S.; Chandel, N. S.; Zhang, H.; Benjamin Thorp, E.; Lin, J.

10.1101/2025.06.06.658371 — cell biology — Posted on 2025-06-09

3831 The Anti-Inflammatory Role of GPNMB in Post-Traumatic Osteoarthritis

Al-Adlaan, A. A.; Cook, B.; Solorzano, E.; Hussein, N. J.; Jaber, F. J.; Kronk, T. A.; Frangiamore, S.; Ball, H. C.; Safadi, F. F.

10.1101/2025.06.06.658389 — cell biology — Posted on 2025-06-09

3832 Phosphoproteomics Maps Calcineurin-NFAT-DSCR1.4 Signaling as Druggable Axis in Gαq-R183Q-Driven Capillary Malformations

Xu, T.; Janssen, V.; Reinhard, N. R.; Sobrevals-Alcaraz, P.; van Es, R. M.; de Haan, A.; de Swart, J.; Wehrens, M.; Wolkerstorfer, A.; van der Horst, C. M. A. M.; Vos, H. R.; Huveneers, S.

10.1101/2025.06.07.658432 — cell biology — Posted on 2025-06-09

3833 Plasmacytoid dendritic cells are dispensable or detrimental in murine systemic or respiratory viral infections

Ngo, C.; Pierini-Malosse, C.; Rahmani, K.; Valente, M.; Collinet, N.; Bessou, G.; Guerry, C.; Fabregue, M.; Mathieu, S.; Sharkaoui, S.; Mazzoli, S.; Sansoni, A.; Fiore, F.; Laprie, C.; Alexopoulou, L.; GAYA, M.; Gregoire, C.; Broggi, A.; Wurbel, S.; Rua, R.; Haidar, N.; Milpied, P.; Escaliere, B.; Phong, T.; Fallet, M.; Chasson, L.; Tran, H.; Le Bert, M.; Malissen, B.; ZARUBICA, A.; DALOD, M.; Tomasello, E.

10.1101/2024.05.20.594961 — immunology — Posted on 2025-06-09

3834 Rational Design of Immunogenic Nanoparticles as a Platform for Enhanced Ovarian Cancer Immunotherapy in Mice

Tang, L.; Marwedel, B.; Dang, C.; Olewine, M.; Jun, M.; Naydenkov, P.; Medina, L. Y.; Gayoso, V.; Doan, N.; OLeary, S. L.; Schiavone, C.; Cave, J.; Howard, T.; Watt, J. D.; Dogra, P.; Serda, R. E.; Noureddine, A.

10.1101/2025.06.05.657862 — immunology — Posted on 2025-06-09

3835 Opposing responses of hippocampal theta oscillations to running and a forelimb-dominated sensorimotor behavior

Holguin, G.; Jorgensen, K.; Tapia, A.; Jordan, G. A.; Vishwanath, A.; Barnes, C. A.; Cowen, S. L.

10.1101/2025.06.08.658384 — neuroscience — Posted on 2025-06-09

3836 Error encoding in human speech motor cortex

Hou, X.; Iacobacci, C.; Card, N. S.; Wairagkar, M.; Singer-Clark, T.; Kunz, E. M.; Fan, C.; Kamdar, F.; Hahn, N.; Hochberg, L. R.; Henderson, J. M.; Willett, F. R.; Brandman, D. M.; Stavisky, S. D.

10.1101/2025.06.07.658426 — neuroscience — Posted on 2025-06-09

3837 A Radiomic Approach to Clinical MRI Refines the Thalamus-Cognition Link in Multiple Sclerosis

Buyukturkoglu, K.; Lu, L.; Davis, L.; Orellana, R. E.; White, C. C.; Sun, R.; Ozcelik, S.; Isenstein, N. M.; Onomichi, K. B.; Iqbal, R.; Zhao, B.; Stern, Y.; Zeydan, B.; Kantarci, O. H.; Riley, C. S.; De Jager, P. L.

10.1101/2025.06.05.657698 — neuroscience — Posted on 2025-06-09

3838 Whisker stimulation reinforces a resting-state network in the barrel cortex: nested oscillations and avalanches

Mariani, B.; Guevara, R.; Tambaro, M.; Maschietto, M.; Leparulo, A.; Vassanelli, S.; Suweis, S.

10.1101/2025.06.06.658305 — neuroscience — Posted on 2025-06-09

3839 Differential microstructural development within sensorimotor cortical regions: A diffusion MRI study in preterm and full-term infants

Brandstaetter, A.; Gondova, A.; Devisscher, L.; Riviere, D.; Auzias, G.; Leprince, Y.; Dubois, J.

10.1101/2025.06.07.658344 — neuroscience — Posted on 2025-06-09

3840 Ultrafast endocytosis in mouse cortical inhibitory synapses

Eddings, C. R.; Watanabe, S.

10.1101/2025.06.06.658279 — neuroscience — Posted on 2025-06-09

3841 Circadian timing and entrainment properties of the SCN pacemaker in the PS19 mouse model of Tau pathology

Halloy, N. R.; Formanowicz, M.; Pham, N. N. L.; Hoyt, K. R.; Obrietan, K.

10.1101/2025.06.06.655835 — neuroscience — Posted on 2025-06-09

3842 Dynamic Retuning of Precursor Supply Before and After the Evolution of the Dual Lignin Pathway in Poales

El-Azaz, J.; Moore, B.; Maeda, H. A.

10.1101/2025.06.05.658145 — plant biology — Posted on 2025-06-09

3843 Phytoene synthase modulates seed longevity via the action of β-carotene derived metabolites

Hazra, A.; Rao, S.; Zhou, X.; Christel, M. J.; Wrightstone, E.; Yang, Y.; Fish, T.; Thannhauser, T.; Liu, J.; Mazourek, M.; Li, L.

10.1101/2025.06.05.658166 — plant biology — Posted on 2025-06-09

3844 Drought stress modulates the molecular response of Arabidopsis plants to root-knot nematode infection

Refaiy, A.; Lilley, C. J.; Atkinson, N. J.; Urwin, P. E.

10.1101/2025.06.05.658137 — plant biology — Posted on 2025-06-09

3845 Linker Length and Composition within Disordered Binding Motifs modulates the Avidity and Reversibility of a Multivalent Protein Interaction Switch

Chatterjee, K. S.; Martinez-Yamout, M. A.; Dyson, J.; Wright, P. E.

10.1101/2025.06.06.658374 — biophysics — Posted on 2025-06-08

3846 Structural Acrobatics of IAA7: Exercising Fuzzy Regions to Aid Auxin-Mediated Catalysis

Parra, J. O. F.; Ott, M.; Bathia, T.; Emenecker, R.; Wolff, M.; Thalhammer, A.; Matschi, S.; Villalobos, L. I. A. C.

10.1101/2025.06.08.657175 — biophysics — Posted on 2025-06-09

3847 Biological Processes as Exploratory Dynamics

Kondev, J.; Kirschner, M. W.; Garcia, H. G.; Salmon, G.; Phillips, R.

10.1101/2025.06.06.657857 — biophysics — Posted on 2025-06-09

3848 Branching, crosslinking and decentralization of microtubules accelerates intracellular assembly

Sarkar, A.; Mogilner, A.; Paul, R.

10.1101/2025.06.05.658035 — biophysics — Posted on 2025-06-09

3849 ProGuide: a flexible framework for modeling global conformational rearrangements in proteins using DEER-derived distance restraints

Grosskopf, J. D.; Kasson, P.; Lerch, M. T.

10.1101/2025.06.05.658127 — biophysics — Posted on 2025-06-09

3850 Neck-region-microtubule interactions direct counterclockwise stepping of kinesin-1

Chong, S.-H.; Iino, R.

10.1101/2025.06.07.658466 — biophysics — Posted on 2025-06-09

3851 Formation of a μ-oxo nucleophile enables efficient hydrolysis by a trinuclear metal center in Family II inorganic pyrophosphatase

Maruoka, S.; Kametani, Y.; Magome, E.; Setoyama, H.; Kawamoto, M.; Horitani, M.; Teramoto, T.; Kakuta, Y.; Shiota, Y.; Yoshizawa, K.; Watanabe, K.

10.1101/2025.06.08.658471 — biophysics — Posted on 2025-06-09

3852 Features fusion or not: harnessing multiple pathological foundation models using Meta-Encoder for downstream tasks fine-tuning

Gao, R.; Yang, Z.; Yuan, X.; Wang, Y.; Xia, Y.; Zhang, Y.; Zheng, B.; Gong, Y.; Yue, Y.; Yu, Z.

10.1101/2025.06.05.657960 — bioinformatics — Posted on 2025-06-08

3853 tidypopgen: Tidy Population Genetics in R

Carter, E. J.; Tysall, E. E.; Hodgson, J.; Manica, A.

10.1101/2025.06.06.658325 — bioinformatics — Posted on 2025-06-08

3854 Integrating Microchannels and Flows into 3D Printable Granular Hydrogel Matrices

Ferrarese, E.; Swanekamp, E.; Bui, T.-v.; Highley, C. B.

10.1101/2025.06.08.658465 — bioengineering — Posted on 2025-06-08

3855 Affordable plasmonic biosensing: democratizing SERS with scalable, field-compatible substrate fabrication

Arora, S.; Ginde, V.; Tanwar, S.; Chazli, M. E.; Bhatt, R.; Edelman, E.; Paria, D.; Barman, I.

10.1101/2025.06.05.658202 — bioengineering — Posted on 2025-06-09

3856 Scaffold-free cryopreservable cartilage grafts obtained from hiPSC-derived chondroprogenitor cells for airway reconstruction with growth adaptability

Hanaki, S.; Takao, T.; Fujisawa, Y.; Ota, T.; Osone, T.; Otake, S.; Iwai, R.; Deguchi, K.; Yamamoto, K.; Okuyama, H.; Takarada, T.

10.1101/2025.06.05.654989 — bioengineering — Posted on 2025-06-09

3857 PEG-Free Tunable Poly(2-Oxazoline) Lipids Modulate LNP Biodistribution and Expression In Vivo after Intramuscular Administration

Basham, C.; Haney, M.; Zhao, Y.; Lukyanov, K. A.; Kim, K.; Baysal, A.; Hutsell, H.; Kabanov, A. V.; Ramsey, J. D.

10.1101/2025.06.05.657891 — bioengineering — Posted on 2025-06-09

3858 A Cryptic Interfacial Pocket Uncovered in Full CRL4CRBN-IKZF3 Ubiquitylation Complex Enhances IMiD Efficacy

Deng, Z.; Ai, H.; Shi, Q.; Liang, J.; He, Z.; Zheng, J.; Li, H.; Zhang, L.; He, W.; Tao, S.; Zheng, Q.; He, W.; Pan, M.; Liu, L.

10.1101/2025.06.08.658527 — biochemistry — Posted on 2025-06-09

3859 Buzzed but not elated? Effect of ethanol on cognitive judgement bias in honeybees

Golanska, M.; Antol, W.; Witek, M.; Miler, K.

10.1101/2025.06.05.658067 — animal behavior and cognition — Posted on 2025-06-09

3860 Cell-specific RNA isoform remodeling in the aging mouse brain

Rehman, A.; Duffy, M.; Gresova, K.; Belair, C.; Yang, N.; Wang, L.; Lee, C. T.; Payea, M.; Malla, S.; Dar, S. A.; Sen, P.; Cookson, M. R.; Maragkakis, M.

10.1101/2025.06.05.658133 — genomics — Posted on 2025-06-08

3861 A Novel Genus of Endogenous Pararetroviruses with Long Terminal Repeats in Grasses

Gao, D.

10.1101/2025.06.08.658526 — genomics — Posted on 2025-06-08

3862 Rapid divergence of male and female mitochondrial genomes in a basal protobranch bivalve Yoldia hyperborea

Fedorov, D. A.; Bezmenova, A. V.; Ezhova, M. A.; Kolbasova, G. D.; Tzetlin, A. B.; Neretina, T. V.; Knorre, D. A.

10.1101/2025.06.07.658435 — evolutionary biology — Posted on 2025-06-08

3863 Inferring fitness seascapes from evolutionary histories

Gao, Y.; Lee, B.; Barton, J. P.

10.1101/2025.06.08.658500 — evolutionary biology — Posted on 2025-06-09

3864 Ex ante analyses can predict natural enemy efficacy in biological control

Gutierrez, A. P.; Ponti, L.; Neuenschwander, P.; Yaninek, J. S.; Baumgärtner, J. U.; Herren, H. R.

10.1101/2025.06.06.658262 — ecology — Posted on 2025-06-08

3865 Predicting Ecosystem Resilience Using Multi-Agent Reinforcement Learning

Strannegard, C.; Palak, M.; Emgsner, N.; Stocco, A.; Antonelli, A.; Silvestro, D.

10.1101/2025.06.07.658424 — ecology — Posted on 2025-06-09

3866 Efficacy of natural marine sponges as a passive environmental DNA sampler for freshwater fish diversity monitoring

Nakao, R.; Inaba, M.; Miyazono, S.; Saito, M.; Maruyama, K.; Imamura, F.; Akamatsu, Y.

10.1101/2025.06.05.658201 — ecology — Posted on 2025-06-09

3867 The anti-neural role of BMP signaling is a side effect of its global function in dorsoventral patterning

Knabl, P.; Ordonez, J. F.; Montenegro Cabrera, J. D.; Wollesen, T.; Genikhovich, G.

10.1101/2025.06.08.658475 — developmental biology — Posted on 2025-06-08

3868 WNT signaling in human pluripotent stem cells promotes HDAC2-dependent epigenetic programs and development of retinoic acid-responsive mesoderm

Thai, B. Q.; Luff, S.; Churko, J.; Young, J.; Sturgeon, C.; Bhattacharya, D.

10.1101/2025.06.06.657928 — developmental biology — Posted on 2025-06-08

3869 Embryonic development of C. elegans sense organs

Wexler, L.; Kolotuev, I.; Heiman, M. G.

10.1101/2025.06.04.657903 — developmental biology — Posted on 2025-06-08

3870 Epigenetic Regulation of Chondrogenesis: JMJD3 and UTX as Key Targets for Gene-Modified Mesenchymal Stem Cell Therapy in Cartilage Tissue Engineering

Allas, L.; Aury-Landas, J.; Rochoux, Q.; Julien, A.; Lhuissier, E.; Lente, M.; Brochard, S.; Veyssiere, A.; Boumediene, K.; Bauge, C.

10.1101/2025.06.06.658259 — developmental biology — Posted on 2025-06-08

3871 Genetic modulation of mitochondrial NAD+ regeneration does not prevent dopaminergic neuron dysfunction caused by mitochondrial complex I impairment

D'Alessandro, K. B.; Zampese, E.; Blum, J. L. E.; Kuusik, B.; Palmiotti, A.; Davidson, S. M.; Reczek, C. R.; Surmeier, D. J.; Chandel, N. S.

10.1101/2025.06.07.658365 — cell biology — Posted on 2025-06-08

3872 Stem cell-derived cardiomyocyte migration through TGF-β signalling in the context of myocardial infarction

Deelen, L.; Kobayashi, K.; Gasim, A. H. A.; Lewis-McDougall, F.; Suzuki, K.

10.1101/2025.06.06.658033 — cell biology — Posted on 2025-06-08

3873 Label-free classification of cell death pathways via holotomography-based deep learning framework

kim, m.; park, w. s.; kim, g.; oh, s.; do, j.; park, j.; Park, Y.

10.1101/2025.06.06.658404 — cell biology — Posted on 2025-06-08

3874 Unheralded high MHC Class II polymorphism in the abundant Atlantic herring resolved by long-read sequencing

Jamsandekar, M.; Sangdehi, F. M.; Berg, F.; Criscitiello, M. F.; Davis, B. W.; Larsson, M.; Li, j.; Pettersson, M. E.; Andersson, L.

10.1101/2025.06.08.658498 — immunology — Posted on 2025-06-08

3875 Clusterin reverses epitheliopathy, reduces inflammation, and restores goblet cells and corneal nerves in a mouse model of autoimmune dry eye

Franz, J.; Ng, T. F.; Gupta, S.; Wilson, M. R.; Fini, M. E.; Masli, S.

10.1101/2025.06.05.658110 — immunology — Posted on 2025-06-08

3876 Transcriptome-Proteome analysis of human naive and memory B cell subsets reveal isotype and subclass-specific phenotypes

Koers, J.; Hoogendijk, A. J.; Tol, S.; van Alphen, F.; Derksen, N.; van den Biggelaar, M.; Rispens, T.

10.1101/2025.06.05.657894 — immunology — Posted on 2025-06-08

3877 Long-Range Input to Cortical Microcircuits Shapes EEG-BOLD Correlation

Chien, V. S. C.; Jiricek, S.; Knoesche, T. R.; Hlinka, J.; Schmidt, H.

10.1101/2025.06.06.658058 — neuroscience — Posted on 2025-06-08

3878 Modality-Agnostic Decoding of Vision and Language from fMRI

Nikolaus, M.; Mozafari, M.; Berry, I.; Asher, N.; Reddy, L.; VanRullen, R.

10.1101/2025.06.08.658221 — neuroscience — Posted on 2025-06-08

3879 Infection-Specific Reprogramming of Microglia Reveals Distinct Virulence Pathways Linking Periodontal Pathogens to Alzheimer's Disease

Kaminska, M.; Dudzinska, N.; Klapper, A.; Geissler, S.; Taudte, N.; Greiser, S.; Potempa, J.; Cynis, H.; Mydel, P.

10.1101/2025.06.06.658266 — neuroscience — Posted on 2025-06-08

3880 Nociceptin receptor and ligand in Alzheimer's disease:Implications for psychiatric symptoms and circadianregulation

Vogelgsang, J.; Gregory, S.; Smith, G. W.; Abston, J.; Kuhn, M.; Pizzagalli, D. A.; Berretta, S.

10.1101/2025.06.04.657953 — neuroscience — Posted on 2025-06-08

3881 Riding the savory horse: An active mindset and food macronutrient composition influence attentional bias toward food cues

Ballestero-Arnau, M.; Rodriguez-Herreros, B.; Moreno-Sanchez, M.; Cunillera, T.

10.1101/2025.06.05.658045 — neuroscience — Posted on 2025-06-08

3882 Magnetoelectric nanodiscs diminish motor deficits in a model of Parkinson's disease

Kim, Y. J.; De Comite, A.; Paniagua, E. V.; Selvaraji, S.; Frey, E.; Mondal, R.; Seethapathi, N.; Anikeeva, P.

10.1101/2025.06.04.657885 — neuroscience — Posted on 2025-06-08

3883 It takes experience to tango: Experienced cochlear implantusers show cortical evoked potentials to naturalistic music

Haumann, N. T.; Petersen, B.; Seeberg, A. B.; Vuust, P.; Brattico, E.

10.1101/2025.06.04.657805 — neuroscience — Posted on 2025-06-08

3884 The Pathological Role and Therapeutic potential of ALDH2 in acrolein detoxification Following Spinal Cord Injury in Mice

Shi, R.; Sun, S.; Herr, S.; Alford, A.; Stingel, R.; Zhang, Z.; Dong, T.

10.1101/2025.06.08.658505 — neuroscience — Posted on 2025-06-08

3885 From Few Labels to Full Insight: 3D Semantic Segmentation of Brain White Matter Microstructures from a Sparsely Annotated X-ray Nano Holotomography Dataset

Amirrashedi, M.; Kjer, H. M.; Barquin Torre, M. L.; Dyrby, T. B.

10.1101/2025.06.08.658301 — neuroscience — Posted on 2025-06-09

3886 Co-substrate induced nonlinear flux switching at branch-points can explain overflow metabolism

West, R.; Sonal, S.; Rodrigues, T. d. S. G.; Shou, W.; soyer, o. s.

10.1101/2025.06.05.658108 — systems biology — Posted on 2025-06-08

3887 Spatial transcriptomics of developing wheat seed reveals radial expression patterns in endosperm and subgenome biased expression of key genes

Millsteed, T.; Kainer, D.; Sullivan, R.; Sun, X.; Li, K. L.; Mao, L.; Macdonald, A.; Henry, R. J.

10.1101/2025.06.08.658529 — plant biology — Posted on 2025-06-08

3888 Vertical rooting caused by enhanced functional allele of qSOR1 improves rice yield under drought stress

Kawai, T.; Kitomi, Y.; Kuroda, R.; Nakata, R.; Iba, M.; Soma, F.; Teramoto, S.; Yamazaki, T.; Sugimoto, K.; Uga, Y.

10.1101/2025.06.07.658467 — plant biology — Posted on 2025-06-08

3889 Salicylic acid accumulation correlates with low anthocyanin production in Arabidopsis

Drs, M.; Iakovenko, O.; Orozco, J. S. H.; Trhlinova, P. B.; Markovice, V.; Zarsky, V.; Pecenkova, T.; Janda, M.

10.1101/2025.06.08.658514 — plant biology — Posted on 2025-06-08

3890 Assessment of pupillometry across different commercial systems of laying hens to validate its potential as an objective indicator of welfare

Mosco, E.; Kilroy, D.; Kumar, A. H.

10.1101/2025.06.06.658220 — physiology — Posted on 2025-06-08

3891 Simpatico: accurate and ultra-fast virtual drug screening with atomic embeddings

Gaiser, J.; Wheeler, T. J.

10.1101/2025.06.08.658499 — pharmacology and toxicology — Posted on 2025-06-08

3892 Evaluation of graphene oxide-mediated NET formation using HL-60-derived neutrophil-like cells

Fukuhara, K.; Obama, T.; Ohinata, H.; Takaki, T.; Kato, M.; Totsuka, Y.; Itabe, H.; Ohno, A.

10.1101/2025.06.06.658248 — pharmacology and toxicology — Posted on 2025-06-08

3893 Long-range actin-driven endosymbiont mobility in a deep-diverging bilaterian

Zhong, G. J.; Toullec, G.; Jouneau, P.-H.; Decelle, J.; Prakash, M.

10.1101/2025.06.08.658386 — biophysics — Posted on 2025-06-08

3894 A facile and reproducible method for the purification of peptide- and protein-functionalized DNA nanostructures

Scharf, I.; Paton, A.; Nani, P.; Peris, P. S.; Zacharopoulou, M.; Mela, I.

10.1101/2025.06.08.658483 — biophysics — Posted on 2025-06-08

3895 The structural basis of cold sensitivity

Choi, K. Y.; Lin, X.; Cheng, Y.; Julius, D.

10.1101/2025.06.06.658377 — biophysics — Posted on 2025-06-08

3896 Enhancing CYP450-Ligand Binding Predictions: A Comparative Analysis of Ligand-Based and Hybrid Machine Learning Models

Tikhonova, A.; Chan, E. C. Y.; Fan, H.

10.1101/2025.06.05.658010 — bioinformatics — Posted on 2025-06-08

3897 Quantifying Protein-Protein Interaction with a Spatial Attention Kinetic Graph Neural Network

xu, y.; Xia, W.; Zhang, C.; Liu, X.; Ju, C.; Dai, X.; Xie, P.; Wang, Y.; Chen, G.; Zhang, J.

10.1101/2025.06.04.657832 — bioinformatics — Posted on 2025-06-08

3898 A simple workflow to identify novel Small Linear Motif (SLiM)-mediated interactions with AlphaFold

Veinstein, M.; Janssens, V.; Iorga, B. I.; Helaers, R.; Michiels, T.; Sorgeloos, F.

10.1101/2025.06.04.657817 — bioinformatics — Posted on 2025-06-08

3899 CalciumInsights: An Open-Source, Tissue-Agnostic Graphical Interface for High-Quality Analysis of Calcium Signals

10.1101/2025.06.04.657923 — bioengineering — Posted on 2025-06-08

3900 Breakthrough in Functional Muscle Regeneration: Biomimetic Collagen Scaffold Restores Abdominal Wall Defects in a VML-rabbit Model

He, X.; Luo, Z.; He, S.

10.1101/2025.06.07.657281 — bioengineering — Posted on 2025-06-08

3901 Evidence for Transcriptomic Conservation Between the Main Cells of the Drosophila Prostate-Like Accessory Gland and Basal Cells of the Mammalian Prostate.

Church, S. J.; Kriebel, A. R.; Welch, J. D.; Buttitta, L.

10.1101/2025.06.05.658085 — genomics — Posted on 2025-06-08

3902 Identification of chromatin-associated RNAs at human centromeres

Fryer, K. A.; Limouse, C.; Straight, A. F.

10.1101/2025.06.05.658139 — genomics — Posted on 2025-06-08

3903 Mammalian epigenomic conservation of promoters and enhancers in the heart associates with trait-associated variation and impacts cardiomyocyte phenotypes

Frost, S.; Fernandez-Aroca, D. M.; Parey, E.; Rodriguez-Gonzalez, A.; Pavon-Heredia, D.; Villar, D.

10.1101/2025.06.05.658128 — genomics — Posted on 2025-06-08

3904 High-altitude mountaineering induces adaptive gut microbiome shifts associated with dietary intake and performance markers

Karpecka-Gałka, E.; Zielinska, K.; Fraczek, B.; Łabaj, P.; Kosciołek, T.; Huminska-Lisowska, K.

10.1101/2025.06.06.658263 — genomics — Posted on 2025-06-08

3905 Unique molecular identifier-based single strand mitochondrial DNA sequencing for rare substitution mutations

Li, Z. E. S.; Dunn, R.; Caloren, L. C.; Ziada, A. S.; Chapman, H.; Gadawska, I.; Cote, H. C. F.

10.1101/2025.06.05.657263 — genomics — Posted on 2025-06-08

3906 Tracing genome size dynamics in sharks and rays with inclusive sequence analysis by the Squalomix Consortium

Kuraku, S.; Kawaguchi, Y.; Misawa, R.; Niwa, T.; Kadota, M.; Saito, K.; Godo, W.; Sakamoto, T.; Takagi, W.; Isobe, S.; Shirasawa, K.; Kawaguchi, A.

10.1101/2025.06.08.657570 — genomics — Posted on 2025-06-08

3907 It's a wrap: deriving distinct discoveries with FDR control after a GWAS pipeline

Chu, B.; He, Z.; Sabatti, C.

10.1101/2025.06.05.658138 — genetics — Posted on 2025-06-08

3908 Functional loss of CHS2 confers high levels resistance to Bacillus thuringiensis Vip3Aa, but with significant fitness costs in five lepidopteran species

Wang, P.; Liu, Z.; Kang, Q.; Liao, C.; Zou, L.; Mao, K.; Yao, H.; Li, Y.; Xiao, Y.

10.1101/2025.06.05.658017 — genetics — Posted on 2025-06-08

3909 Long telomere inheritance through budding yeast sexual cycles

Sidarava, V.; Mearns, S.; Lydall, D.

10.1101/2025.06.05.658123 — genetics — Posted on 2025-06-08

3910 RetiGene, a comprehensive gene atlas for inherited retinal diseases (IRDs)

Quinodoz, M.; Celik, E.; Kamdar, D.; Cancellieri, F.; Kaminska, K.; Ullah, M.; Barberan-Martinez, P.; Bouckaert, M.; Corton, M.; Delanote, E.; Fernandez-Caballero, L.; Garcia, G. G.; Holtes, L. K.; Karali, M.; Lopez, I.; Peter, V. G.; Schneider, N.; Vincke, L.; Ayuso, C.; Banfi, S.; Bocquet, B.; Coppieters, F.; Cremers, F.; Inglehearn, C.; Iwata, T.; Kalatzis, V.; Koenekoop, R. K.; Millan, J. M.; Sharon, D.; Toomes, C.; Rivolta, C.

10.1101/2025.06.08.653722 — genetics — Posted on 2025-06-08

3911 Holotype genome of the lesula provides insights into demography and evolution of a threatened primate lineage

Jensen, A.; Horton, E. R.; Bisimwa, K.; Detwiler, K. M.; Guschanski, K.

10.1101/2025.06.05.657981 — evolutionary biology — Posted on 2025-06-08

3912 Combining population genomics with ancient DNA to understand island colonization history of the Madagascar turtle dove

Dwivedi, N.; Heighton, S. P.; Laso-Jadart, R.; Verry, A. J. F.; Nieto-Heredia, A.; Lesturgie, P.; Khost, D.; Bohec, M.; Sackton, T. B.; Chikhi, L.; Orlando, L.; Hume, J. P.; Achaz, G.; Theves, C.; Mona, S.; Warren, B. H.

10.1101/2025.06.05.658009 — evolutionary biology — Posted on 2025-06-08

3913 Destabilizing effects of eco-evolutionary feedback on community stability and the role of climate change

Zhao, Q.; De Laender, F.; Barabas, G.

10.1101/2025.06.04.657861 — evolutionary biology — Posted on 2025-06-08

3914 Latitude Matters: A Global Phylogeographic Perspective on Climate-Driven Demographic Responses in Tarantulas

Biswas, A.; Karanth, P.

10.1101/2025.06.08.658479 — evolutionary biology — Posted on 2025-06-08

3915 Transcriptomic analysis of non-model Drosophilidae reveals novel AMP candidates

Dhakad, P.; Newman, D.; Obbard, D.

10.1101/2025.06.06.658223 — evolutionary biology — Posted on 2025-06-08

3916 Variability in foraging ranges of snow petrels and implications for breeding distribution and use of stomach-oil deposits as proxies for paleoclimate

Wakefield, E. D.; McClymont, E. L.; Descamps, S.; Grecian, W. J.; Honan, E. M.; Rix, A. S.; Robert, H.; Sandoy Brathen, V.; Phillips, R. A.

10.1101/2025.06.06.658237 — ecology — Posted on 2025-06-08

3917 Total immunoglobulin G variation through the phenological cycle of migrant and resident Long-nosed bats (Leptonycteris yerbabuenae) in the drylands of Mexico and its relationship with bacterial-killing ability of plasma.

Rivera-Ruiz, D. A.; Flores-Martinez, J. J.; Rosales, C.; Falcon, L. I.; Solano de la Cruz, M. T.; Herrera M., L. G.

10.1101/2025.06.05.658181 — ecology — Posted on 2025-06-08

3918 Southeast and Northeast facing slopes have the Least Tree Cover in Northern and Southern Tropics, respectively

Devi, S. M.; Managave, S.; Jathar, G.; Davande, S.

10.1101/2025.06.05.658062 — ecology — Posted on 2025-06-08

3919 Aberrant placental structure is corrected with repeated nanoparticle-mediated IGF1 treatments in a guinea pig model of fetal growth restriction

Davenport, B.; Wilson, R.; Williams, A.; Gray, J.; Stanley, E. L.; Jones, H.

10.1101/2025.06.05.658039 — developmental biology — Posted on 2025-06-08

3920 BOOPTHAT: An inexpensive and scalable system for spatiotemporal activation of heat-shock transgenes in zebrafish

Wang, D.; Martin, B. L.

10.1101/2025.06.05.658177 — developmental biology — Posted on 2025-06-08

3921 Regulatory elements of pancreas development license the initiation of pancreatic ductal adenocarcinoma

Ballester, M.; Kurilla, A.; Dai, Y.; Maurer, C.; Espinet, E.; Hoj, K.; Marisch Delgado, A.; Seymour, P. A.; Omar, S.; Rift, C. V.; Hasselby, J.; Klaussen, P.; Vilmann, P.; Sandelin, A.; Arnes Perez, L.

10.1101/2025.06.06.658264 — cell biology — Posted on 2025-06-08

3922 EndoNB: A general strategy to study the internalization of cell surface proteins

Lenaerts, A.-S.; Krishtal, J.; Arima, T.; Leskovar, N.; Zeinoddin, N.; Almeida-Souza, L.

10.1101/2025.06.08.658482 — cell biology — Posted on 2025-06-08

3923 Sensory stimuli and cilium trafficking defects trigger the release of ciliary extracellular vesicles from multiple ciliary locations

Lobo, T. G. Q.; Haasnoot, G. H.; Nawrocka, A.; Bruggeman, C. W.; Razzauti, A.; Peterman, E. J. G.; Laurent, P.

10.1101/2025.06.06.658075 — cell biology — Posted on 2025-06-08

3924 Integrative Chemical Genetics Platform Identifies Condensate Modulators Linked to Neurological Disorders

Poch, D.; Mukherjee, C.; Mallik, S.; Todorow, V.; Kuiper, E. F. E. J.; Dhingra, N.; Surovtseva, Y. V.; Schlieker, C.

10.1101/2025.06.07.658469 — cell biology — Posted on 2025-06-08

3925 The STORE.2 model of the T cell proliferative phase considering c-Myc

Christian, D. A.; Bhartt, T. P. S.; Lanzar, Z.; Seyyedizadeh, S. F.; Hunter, C. A.; Adams, T. A.

10.1101/2025.06.05.658086 — immunology — Posted on 2025-06-08

3926 Structural basis for antibody cross-neutralization of dengue and Zika viruses

Hurlburt, N. K.; Lubow, J.; Goo, L.; Pancera, M.

10.1101/2025.06.05.658091 — immunology — Posted on 2025-06-08

3927 KDM5A enhances MHC-I antigen presentation and potentiates antitumor immunity unleashed by immune checkpoint blockade

Li, D.; He, C.; Tan, Z.; Wang, T.; Wu, H.; Zuo, P.; Dimitrov, D. S.; Wang, L.; Liao, X.

10.1101/2025.06.05.658174 — immunology — Posted on 2025-06-08

3928 Locust cGAS-like receptors recognize derivatives of a Gypsy retrotransposon to synergize with RNAi against viral invasion

Xu, Y.; Li, Y.-L.; Zhang, M.-C.; Huang, X.-Z.; Shi, W.-P.; Qian, H.-Y.; Cao, C.

10.1101/2025.06.05.657997 — immunology — Posted on 2025-06-08

3929 Single-cell and cell-type-level insights into stress-driven immune regulation relevant to disease

Benavides, S.; Kosyk, O.; Carpenter, L.; Georgiou, C.; Miller, B. C.; Stanley, N.; Zannas, A. S.

10.1101/2025.06.05.658150 — immunology — Posted on 2025-06-08

3930 Comparing electromyography, accelerometry, and visual inspection to assess the resting motor threshold for transcranial magnetic stimulation

Hamoline, G.; Lunardi, A. E.; Moreno-Verdu, M.; Waltzing, B. M.; Van Caenegem, E. E.; MacAteer, S.; Hardwick, R. M.

10.1101/2025.06.04.657787 — neuroscience — Posted on 2025-06-08

3931 Astrocytic CREB regulates transcriptional, neuronal, and behavioral responses to cocaine

Holt, L. M.; Minier-Toribio, A.; Futamura, R.; Browne, C. J.; Martinez-Rivera, F. J.; Markovic, T.; Gyles, T. M.; Yeh, S.-y.; Parise, E. M.; Rivera, M.; Brenner, C.; Yim, Y. Y.; Kondev, V.; Estill, M.; Yan, S.; Keane, E.; Labanca, A.; Rojas, G.; Dong, Y.; Shen, L.; Nestler, E. J.

10.1101/2025.06.04.657899 — neuroscience — Posted on 2025-06-08

3932 Spatial coupling of endogenous Tau translation and degradation by neuroproteasomes in dendrites revealed by STARFISH

Konrad-Vicario, K.; Paradise, V.; Demir, L.; Makinson, C. D.; Ming, Z.; Ramachandran, K. V.

10.1101/2025.06.04.657939 — neuroscience — Posted on 2025-06-08

3933 Functional Brain Imaging and Targeted Lesion Studies Using Manganese-Enhanced MRI and Focused Ultrasound in Non-Conventional ModelSpecies

Estienne, P.; Page, G.; Larrat, B.; Yamamoto, K.; Ciobanu, L.

10.1101/2025.06.05.658064 — neuroscience — Posted on 2025-06-08

3934 Nociceptin/Orphanin FQ receptor agonism attenuates behavioral and neural responses to conditioned aversive stimuli

Hur, K.-H.; Pizzagalli, D. A.; Stover, J.; Cayetano, K.; Kohut, S. J.

10.1101/2025.06.05.658049 — neuroscience — Posted on 2025-06-08

3935 Disrupted Forward Connectivity in Parieto-temporal Network Impairs Memory Performance in Alzheimer's Disease

Suksangkharn, Y.; Schott, B. H.; Zeidman, P.; Vockert, N.; Lattmann, R.; Schütze, H.; Yakupov, R.; Peters, O.; Hellmann-Regen, J.; Preis, L.; Ersözlü, E.; Priller, J.; Spruth, E. J.; Gemenetzi, M.; Schneider, A.; Fliessbach, K.; Wiltfang, J.; Bartels, C.; Rostamzadeh, A.; Glanz, W.; Incesoy, E. I.; Teipel, S.; Kilimann, I.; Goerss, D.; Laske, C.; Spottke, A.; Kronmüller, M.; Brosseron, F.; Lüsebrink, F.; Schmid, M.; Kleineidam, L.; Stark, M.; Hetzer, S.; Dechent, P.; Scheffler, K.; Jessen, F.; Maass, A.; Düzel, E.; Ziegler, G.

10.1101/2025.06.05.658022 — neuroscience — Posted on 2025-06-08

3936 The Role of Paraventricular Nucleus of Thalamus in Sleep Disturbance Induced by Withdrawal from Repeated Ethanol Exposure

Bennett, A.; Lee, J.; Kim, H.; Kapoor, V.; Jury, D.; Kang, S.

10.1101/2025.06.04.657945 — neuroscience — Posted on 2025-06-08

3937 Sex-specific Effects of Outdoor Air Pollution on Subcortical Microstructure and Weight Gain: Findings from the ABCD Study

Rivas-Fernandez, M. A.; Ottino-Gonzalez, J.; Esaian, S.; Goldman, V.; Herting, M. M.; Alderete, T. L.; Adise, S.

10.1101/2025.06.04.657916 — neuroscience — Posted on 2025-06-08

3938 A Tiered Approach to Human Synapse Proteomics: Optimized LC-MS/MS Analysis of Whole-Tissue and Synaptosome Preparations from Frozen Post-mortem Brain Samples

Roig Kuhn, F. C.; Klaassen, R. V.; Koopmans, F. T. W.; Koolman, T. S. Z.; Smit, A. B.; Spijker, S.

10.1101/2025.06.04.657790 — neuroscience — Posted on 2025-06-08

3939 Drosophila larval Odd neurons process innate and learned information to regulate chemotaxis behavior

Bohra, A. A.; Larsen, C.; Tear, G.; Juusola, M.

10.1101/2025.06.04.657871 — neuroscience — Posted on 2025-06-08

3940 Constant light impairs memory processing transgenerationally in D. melanogaster

Moore, R. S.; Sehgal, A.

10.1101/2025.06.04.657854 — neuroscience — Posted on 2025-06-08

3941 Adolescent alcohol consumption alters sex-specific behaviors associated with prefrontal functional connectivity in mice

Seemiller, L. R.; Unsal, H. S.; Xie, Y.; Hossain, M. S.; Tuttle, K.; Johnson-Dendy, B.; McDonald, E.; Drew, P. J.; Zhang, N.; Crowley, N. A.

10.1101/2025.06.05.658112 — neuroscience — Posted on 2025-06-08

3942 Genomic structural equation modeling of impulsivity and risk-taking traits reveals three latent factors distinctly associated with brain structure and development

Shishikura, M.; Liu, L.; Yu, E.; Zhu, R.; Vilar-Ribo, L.; Cupertino, R. B.; Palmer, A. A.; Sanchez-Roige, S.; Vainik, U.; Morys, F.; Gan-Or, Z.; Misic, B.; Dagher, A.

10.1101/2025.06.05.657840 — neuroscience — Posted on 2025-06-08

3943 Non-obese genetic type 2 diabetes causes brain and behavioral hallmarks of chronic stress

Romani-Perez, M.; Henry, M.; Pajot, C.; Bailbe, D.; Brossaud, J.; Buyannemekh, K.; Lucia, P.; Foury, A.; Rincel, M.; Lepinay, A.; Portha, B.; Turner, J.; Movassat, J.; DARNAUDERY, M.

10.1101/2025.06.08.658427 — neuroscience — Posted on 2025-06-08

3944 Exposure to the organochlorine pesticide cis-chlordane induces ALS-like mitochondrial perturbations in stem cell-derived motor neurons

Clackson, O.; Hamid, M. R.; Wijesekera, A.; Kulick, D.; O'Neil, A. L.

10.1101/2025.06.05.658119 — neuroscience — Posted on 2025-06-08

3945 Macrophages amplify the spontaneous activity of damaged sensory neurons in a human co-culture model of neuropathic pain

Chrysostomidou, P.; Hore, Z.; Somma, D.; Vlachaki Walker, J. M.; Diallo, K.; Titterton, H.; Elmesmari, A.; Kurowska-Stolarska, M.; Denk, F.; Weir, G. A.

10.1101/2025.06.05.656880 — neuroscience — Posted on 2025-06-08

3946 Neurally-informed modelling unravels a single evidence accumulation process for choices and subsequent confidence reports

Grogan, J. P.; Vermeylen, L.; Mannion, S.-L.; McCabe, C.; Monakhovych, D.; Desender, K.; O'Connell, R. G.

10.1101/2025.06.05.658071 — neuroscience — Posted on 2025-06-08

3947 An amygdalopontine pathway promotes motor programs of ingestion

Lafferty, D. S.; Isaac, J.; Wolcott, J. S.; Phan, A.; Reck, L.; Lutas, A.

10.1101/2025.06.05.657686 — neuroscience — Posted on 2025-06-08

3948 Impaired perception of isoluminant contrast modulation stimuli: Evidence for a magnocellular pathway mechanism

Ramirez, A. L.; Shakhgildian, A.; Rosenberg, A.; Baker, C. L.

10.1101/2025.06.04.657905 — neuroscience — Posted on 2025-06-08

3949 Reduced inhibition, bursting, and accelerated oscillations drive early hippocampal hyperactivity in Alzheimer's disease

Meftah, S.; Kang, S.; Liu, M.; Wang, X.; Topcu, A. N.; Abad, M. M.; Koszeghy, A.; Wan, L.; Mullin, C.; Zoupi, L.; Gan, J.

10.1101/2025.06.05.658038 — neuroscience — Posted on 2025-06-08

3950 Gut miRNA regulates gut microbiome and Alzheimer pathology in App-knock-in mice

Hao, W.; Luo, Q.; Szabo, I. M.; Gasparoni, G.; Tierling, S.; Quan, W.; Chang, H.-F.; Wu, G.; Schulze-hentrich, J.; Liu, Y.

10.1101/2025.06.05.658056 — neuroscience — Posted on 2025-06-08

3951 UNWANTED AXON GROWTH: PTEN AND THE SUPPRESSION OF AXON PLASTICITY IN ADULT NERVES

Eaton, S.; Komirishetty, P.; Larouche, M.; Areti, A.; Ong, H.; Martinez, J.; Zochodne, D. W.

10.1101/2025.06.04.657750 — neuroscience — Posted on 2025-06-08

3952 Comparative chemosensory mechanisms underlying larval foraging and competitive advantage in Aedes albopictus and Aedes aegypti

Perets, D.; Ke, H.; Campli, G.; Sar-Shalom, E.; Krsticevic, F.; Yakir, E.; Waterhouse, R. M.; Wang, Y.; Papathanos, P. A.; Bohbot, J. D.

10.1101/2025.06.07.658027 — neuroscience — Posted on 2025-06-08

3953 Left Area PF as a Neural Marker of Technical Reasoning

Federico, G.; Ilardi, C. R.; Marangolo, P.; Bryche, C.; Metaireau, M.; Bluet, A.; Lesourd, M.; Rossetti, Y.; Osiurak, F.

10.1101/2025.06.04.657853 — neuroscience — Posted on 2025-06-08

3954 Visual blur disrupts the kinematic and temporal aspects of reach-grasp-lift movements.

Sheppard, W. E. A.; Campagnoli, C.; Wilkie, R. M.; Baraas, R. C.; Coats, R. O.

10.1101/2025.06.05.658186 — neuroscience — Posted on 2025-06-08

3955 Defining a functional hierarchy of millisecond time: from visual stimulus processing to duration perception

Centanino, V.; Fortunato, G.; Bueti, D.

10.1101/2025.06.06.658257 — neuroscience — Posted on 2025-06-08

3956 Microscale dysfunction and mesoscale compensation in degenerating neuronal networks

Fiskum, V.; Winter-Hjelm, N.; Christiansen, N.; Sandvig, A.; Sandvig, I.

10.1101/2025.06.06.657602 — neuroscience — Posted on 2025-06-08

3957 Testing the ecological and behavioural responses of mammals to the Landscape of Fear.

Tolusso, S.; Zanfei, G.; Mortelliti, A.

10.1101/2025.06.05.657929 — zoology — Posted on 2025-06-08

3958 iTissue

Zambrana, C.; Malod-Dognin, N.; Przulj, N.

10.1101/2025.06.04.657816 — systems biology — Posted on 2025-06-08

3959 Transposon-plasmid nesting enables fast response to fluctuating environments

Ha, Y.; Maddamsetti, R.; Chen, X.; Simsek, E.; Lee, D.; Son, H.; Lee, C.; Kussell, E.; You, L.

10.1101/2025.06.04.657954 — systems biology — Posted on 2025-06-08

3960 Cyclo-stationary distributions of mRNA and Protein counts for random cell division times

Ali, S. Y.; Saran, A.; Prasad, A.; Singh, A.; Das, D.

10.1101/2025.06.06.658238 — systems biology — Posted on 2025-06-08

3961 Chemotherapy dose scheduling via Q-learning in a Markov tumor model

Giles, M.; Newton, P. K.

10.1101/2025.06.05.658118 — systems biology — Posted on 2025-06-08

3962 The biofuel producing legume tree, Pongamia pinnata, offers strong potential for carbon sequestration

Chen, A.; Scott, P.; Gresshoff, P. M.; Ferguson, B. J.

10.1101/2025.06.04.657758 — plant biology — Posted on 2025-06-08

3963 Biofabrication of gold nanoparticles (GNPs) synthesized from Dillenia indica leaves with their anticancer, antibacterial, and antioxidant activities.

GUPTA, A.; Pandey, B. C.; Yaseen, M.; Kushwaha, R.; Verma, J.; Chaudhary, P.; Manna, P. P.; Manhas, R. K.; Tiwari, I.; Kumari, N.

10.1101/2025.06.05.653664 — plant biology — Posted on 2025-06-08

3964 Dissecting the genetic architecture of flowering and maturity time in almond (Prunus dulcis): heritability estimates and breeding value predictions from historical data

GOMEZ ABAJO, M. D. M.; Dicenta, F.; Martinez-Garcia, P. J.

10.1101/2025.06.06.658198 — plant biology — Posted on 2025-06-08

3965 Agent-based computational modeling of the stochastic dynamic behavior of actin filaments recapitulates the homeostatic cortical array in plant epidermal cells

Kim, J. H.; Zhang, W.; Iyer-Pascuzzi, A. S.; Staiger, C. J.; Kim, T.

10.1101/2025.06.06.658236 — plant biology — Posted on 2025-06-08

3966 CSR Calculator: An R package and Shiny application for assigning plant ecological strategies using trait data

Gaskin, T.; Crick, B.; Cavanagh, A.; Huber, K.; Nikoloski, Z.; Ferguson, J. N.

10.1101/2025.06.06.658218 — plant biology — Posted on 2025-06-08

3967 Exploring genomic diversity and reproductive strategies in three expansion phases of the superdominant Brachypodium rupestre in high mountain grasslands

Duran, M.; Campos, M.; Ben-Menni, S.; Sotomayor, A.; Catalan, P.; San Emeterio, L.; Canals, R. M.

10.1101/2025.06.05.657980 — plant biology — Posted on 2025-06-08

3968 Plant specialised metabolites modulate the molecular signatures of host-bacteria and bacteria-bacteria interactions

Rouyer, L.; Becker, C.; Schandry, N.

10.1101/2025.06.06.658260 — plant biology — Posted on 2025-06-08

3969 Contrastive learning of adverse events to provide effective and interpretable vector representations for machine-assisted pharmacovigilance

Balogh, O. M.; Petervari, M.; Csernak, A. M.; Puhl, E.; Horvath, A.; Ferdinandy, P.; Agg, B.

10.1101/2025.06.04.657852 — pharmacology and toxicology — Posted on 2025-06-08

3970 Stereospecific rapid activation of Transcription Factor EB (TFEB) by Levacetylleucine (NALL)

Galione, A.; Platt, F. M.; Churchill, G. C.; Patterson, M. C.; Factor, M.; Fields, T.; Davis, L. C.; Strupp, M.

10.1101/2025.06.06.657607 — pharmacology and toxicology — Posted on 2025-06-08

3971 Gut bacterial metabolite imidazole propionate potentiates Alzheimer's disease pathology

Vemuganti, V.; Kang, J. W.; Zhang, Q.; Martinez, R. A.; Harpt, J. L.; Harding, S. J.; Deming, Y.; Johnson, S. C.; Asthana, S.; Zetterberg, H.; Blennow, K.; Engelman, C.; Ulland, T. K.; Bäckhed, F.; Bendlin, B. B.; Rey, F. E.

10.1101/2025.06.08.657719 — pathology — Posted on 2025-06-08

3972 Single JAK2-V617F hematopoietic stem cells can initiate MPN in transplantations into non-conditioned recipient mice

Kimmerlin, Q.; Hilpert, M.; Hansen, N.; Guy, A.; Usart, M.; Stetka, J.; Sobieralski, P.; Fonseca, T. A.; Hao-Shen, H.; Skoda, R. C.

10.1101/2025.06.08.657469 — cancer biology — Posted on 2025-06-08

3973 Equations describing semi-confluent cell growth (II) Colony formation on a flat surface

Hall, D.

10.1101/2025.06.04.657949 — biophysics — Posted on 2025-06-08

3974 Cryo-EM Sample Preparation with Soft-Landing and Laser Flash Melting

Barrass, S. V.; Esser, T. K.; Mowry, N. J.; Eriksson, L.; Hruby, J.; Seeley, L. T.; Curtis, W. A.; Baker, L. A.; Drabbels, M.; Rauschenbach, S.; Lorenz, U. J.

10.1101/2025.06.05.657968 — biophysics — Posted on 2025-06-08

3975 Enabling Real-Time Fluctuation-Based Super ResolutionImaging

Komen, J.; Tekpinar, M.; Huo, R.; De Zwaan, K.; Tomen, N.; Grussmayer, K.

10.1101/2025.06.05.658028 — biophysics — Posted on 2025-06-08

3976 Identification of mitochondria and macrophage activation related hub genes in sarcopenia

Wang, Y.; Gu, S.; Li, Y.; Zhou, Y.

10.1101/2025.06.04.657824 — bioinformatics — Posted on 2025-06-08

3977 Prioritization of Potential Drugs Through Pathway-Based Drug Repurposing and Network Proximity Analysis

Otero Carrasco, B.; Prieto Santamaria, L.; Rodriguez Gonzalez, A.

10.1101/2025.06.05.658004 — bioinformatics — Posted on 2025-06-08

3978 ImmunoFusion: A Unified Platform for Investigating RNA-seq-Derived Gene Fusions in Cancer and Immunotherapy

zhao, y.; Wang, S.; Li, S.; Chen, M.; Jin, S.-h.; Gaipl, U. S.; Ma, H.; Zhou, J.-G.

10.1101/2025.06.05.658082 — bioinformatics — Posted on 2025-06-08

3979 scMetaIntegrator: a meta-analysis approach to paired single-cell differential expression analysis

Ratnasiri, K.; Mach, S. N.; Blish, C. A.; Khatri, P.

10.1101/2025.06.04.657898 — bioinformatics — Posted on 2025-06-08

3980 Mechanistic insights into Down syndrome comorbidities via convergent RNA-seq and TWAS signals

Subirana-Granes, M.; Zhang, H.; Gupta, P.; Pividori, M.

10.1101/2025.06.05.658129 — bioinformatics — Posted on 2025-06-08

3981 Machine learning can identify orphans that have diverged into the ''twilight zone'' of sequence similarity

Tassios, E.; de Leuw, J.; Nikolaou, C.; Kupczok, A.; Vakirlis, N.

10.1101/2025.06.06.658213 — bioinformatics — Posted on 2025-06-08

3982 OmnibusX: A unified platform for accessible multi-omics analysis

Truong, L.; Truong, T.; Nguyen, H.

10.1101/2025.06.06.658217 — bioinformatics — Posted on 2025-06-08

3983 Blind De Novo Design of Dual Cyclic Peptide Agonists Targeting GCGR and GLP1R

Li, Q.; Wiita, E.; Helleday, T.; Bryant, P.

10.1101/2025.06.06.658268 — bioinformatics — Posted on 2025-06-08

3984 Computational nanobody design using graph neural networks and Metropolis Monte Carlo sampling

Wang, L.; He, X.; Guo, G.; Qian, X.; Huang, Q.

10.1101/2025.06.08.658414 — bioinformatics — Posted on 2025-06-08

3985 Robust self-supervised machine learning for single cell embeddings and annotations

Yeh, C. Y.; Sun, M. W.; Zhu, D.; Jerby, L.

10.1101/2025.06.05.658097 — bioinformatics — Posted on 2025-06-08

3986 Detection and Classification of Cervical Cancer Using Optimized Deep Learning Approach

Lalitha, S.; Baiju, B. V.; Mathivanan, S. K.; Nagappan, P.; Tyagi, C. S.; Mallik, S.

10.1101/2025.06.05.657998 — bioengineering — Posted on 2025-06-08

3987 Brain Stroke Prediction: A PSO Optimized Stacked Ensemble Machine Learning Approach with SMOTEEN Data Balancing

Jain, A.; Dubey, A. K.; Gupta, M.; Yadav, S.; Panwar, A.; Atanga, R.; Lemos, B.; Mallik, S.

10.1101/2025.06.05.657994 — bioengineering — Posted on 2025-06-08

3988 Reinforcement Learning Identifies Age-Related Balance Strategy Shifts

WANG, H.; Kovecses, J.; Durandau, G.

10.1101/2025.06.05.656344 — bioengineering — Posted on 2025-06-08

3989 Single-cell metabolic imaging and digital scoring of fat tissue remodeling by label-free metabolic imaging

Kim, M.; Berger, C.; Wolf, A.; Peteranderl, A.; Klingenspor, M.; Ntziachristos, V.; Li, Y.; Pleitez, M. A.

10.1101/2025.06.06.658032 — bioengineering — Posted on 2025-06-08

3990 Structural Basis for a Scaffolding Role of the COM Domain in Nonribosomal Peptide Synthetases

Diecker, J.; Hermanns, B.; Rueschenbaum, J.; Rasche, R.; Doerner, W.; Schroeder, A.; Kuemmel, D.; Mootz, H. D.

10.1101/2025.06.08.658476 — biochemistry — Posted on 2025-06-08

3991 Unsupervised discovery and predictive sensorimotor transformation of spider prey capture through active vibration sensing

Hung, H.-Y.; Corver, A.; Gordus, A. G.

10.1101/2025.06.08.658484 — animal behavior and cognition — Posted on 2025-06-08

3992 Human goal-directed actions survive manipulations of the action-outcome contingency

Perez, O. D.; Oh, S.; Dickinson, A.; Arenas, J.; Merlo, E.

10.1101/2025.04.26.650713 — animal behavior and cognition — Posted on 2025-06-08

3993 Complete mitochondrial genome assemblies for three species of searobins (genera Bellator and Prionotus) and their phylogenetic relationships within Triglidae: Prionotinae

Marin, A.; Alfaro, R.; Zelada-Mazmela, E.

10.1101/2025.02.01.635949 — genomics — Posted on 2025-06-08

3994 Remote automated delivery of mechanical stimuli coupled to brain recordings in behaving mice

Burdge, J.; Jhumka, A.; Khan, A.; Ogundare, S.; Baer, N.; Fulton, S.; Kaplan, A.; Bistis, B.; Foster, W.; Thackray, J.; Toussaint, A.; Li, M.; Morizawa, Y. M.; Nazarian, J.; Yadessa, L.; George, A.; Delinois, A.; Mayiseni, W.; Loran, N.; Yang, G.; Margolis, D. J.; Abraira, V. E. G.; Abdus-Saboor, I.

10.1101/2024.05.06.592101 — neuroscience — Posted on 2025-06-08

3995 Integrated Histology and Molecular Profiling of Postmortem Human Auditory and Vestibular Organs via a Poly(Methyl Methacrylate)-Based Workflow

Baechinger, D.; Peyton, B.; Neubauer, J.; Dharmarajan, A.; Zhu, M.; O'Malley, J. T.; Kallupurackal, V.; Senese, S.; Brown, A.; Wunderlin, S.; Kreutzer, S.; Weiss, N. M.; Richter, H.; Dalbert, A.; Roeoesli, C.; Kipar, A.; Varga, Z.; von Rechenberg, B.; Amr, S.; Eckhard, A. H.

10.1101/2025.06.04.657716 — pathology — Posted on 2025-06-08

3996 Paclitaxel causes de novo induction of invasive breast cancer cells by repolarizing tumor-associated macrophages

Friedman-DeLuca, M.; Karagiannis, G. S.; Duran, C. L.; Eddy, R. J.; Shukla, S.; Li, J.; Condeelis, J. S.; Oktay, M. H.; Entenberg, D.

10.1101/2025.01.13.632767 — cancer biology — Posted on 2025-06-08

3997 Identification of disease-specific vulnerability states at the single-cell level

D'Antuono, M.; Sharp, M.; Chowdary, R.; Ivan, M. E.; Komotar, R. J.; Suter, R. K.; Ayad, N. G.

10.1101/2024.12.04.626873 — cancer biology — Posted on 2025-06-08

3998 NRCAM variant defined by microexon skipping is an essential, antigenically distinct, and targetable surface proteoform in high-grade gliomas

Sehgal, P.; Naqvi, A. S.; Higgins, M.; Liu, J.; Harvey, K.; Jarroux, J.; Kim, T.; Mankaliye, B.; Mishra, P.; Watterson, G.; Fine, J.; Davis, J.; Hayer, K. E.; Castro, A.; Mogbo, A.; Drummer, C.; Martinez, D.; Koptyra, M. P.; Ang, Z.; Wang, K.; Farrel, A.; Quesnel-Vallieres, M.; Barash, Y.; Spangler, J. B.; Rokita, J. L.; Resnick, A. C.; Tilgner, H. U.; DeRaedt, T.; Powell, D. J.; Thomas-Tikhonenko, A.

10.1101/2025.01.09.631916 — cancer biology — Posted on 2025-06-08

3999 Direct observation of conformational dynamics of intrinsically disordered proteins at the single-molecule level

Zargarbashi, S.; Dominguez, C.; Peters, M.; Yousefi, A.; Munday, S.; Wang, Y.; Chatterjee, S.; Hudson, A.; Gordon, R.; Mellor, C. J.; Xu, L.; Rahmani, M.; Ying, C.

10.1101/2025.05.26.656162 — biophysics — Posted on 2025-06-08

4000 Discovery of excited state proton transfer in flavin-based fluorescent protein with large Stokes shift

Nikolaev, A.; Markeeva, E.; Maksimov, E. G.; Yudenko, A.; Tropina, E. V.; Boldyrev, K. N.; Nikolaeva, Y. S.; Cherepanov, D. A.; Kovalev, K.; Yang, Y.; Borshchevskiy, V. I.; Kuznetsova, E.; Kuzmin, A.; Semenov, O.; Remeeva, A.; Gushchin, I.

10.1101/2025.06.07.658458 — biochemistry — Posted on 2025-06-08

4001 The Na+-pumping mechanism driven by redox reactions in the NADH-quinone oxidoreductase from Vibrio cholerae relies on dynamic conformational changes

Ishikawa-Fukuda, M.; Seki, T.; Kishikawa, J.-i.; Takahiro, M.; Okazaki, K.-i.; Kato, T.; Barquera, B.; Miyoshi, H.; Murai, M.

10.1101/2025.06.01.656757 — biochemistry — Posted on 2025-06-08

4002 Introducing the technique of group-handling in C57BL/6NCrl mice using a novel device "Citizen- Chitra Mus-Mobile", a cage-transfer cum enrichment system, reduces stress, anxiety and time taken for cage changes and enhances voluntary interaction

Vijayakumar Sreelatha, H.; Prajapati, A. K.; Mehta, K.

10.1101/2025.05.31.656571 — animal behavior and cognition — Posted on 2025-06-08

4003 Developmental dynamic transcriptomics reveals multiple effectors and transcription factors critical for Ditylenchus destructor parasitism

Chen, Y.; Zhang, S.; Zhou, Y.; Wang, X.; Bo, D.; Liao, Y.; Hu, B.; Zhang, Y.; Ashry, N. M.; Peng, D.; Sun, M.; Dai, D.

10.1101/2025.06.02.657539 — genomics — Posted on 2025-06-08

4004 Large-scale skin metagenomics reveals extensive prevalence, coordination, and functional adaptation of skin microbiome dermotypes across body sites

Li, C.; Ravikrishnan, A.; Wijaya, I.; Naim, A. N. M.; Gounot, J.-S.; Wearne, S.; On, Y. Y.; Ho, E. X. P.; Png, E.; Kwah, J. S.; Chandra, S. H. V.; Ang, Q. Y.; Chia, M.; Amanda, N. H. Q.; Ramaswami, S.; Yew, Y. W.; Loh, M.; Ong, R. Y.; Ng, F.; Lee, S. H.; Chan, J.; The HELIOS Study team, ; Regina, V. R.; Dawson, T.; Chambers, J.; Common, J.; Nagarajan, N.

10.1101/2025.04.24.650393 — genomics — Posted on 2025-06-08

4005 Short chain fatty acids regulate the chromatin landscape and distinct gene expression changes in human colorectal cancer cells

Kabir, T.; Connamacher, C. A.; Nadeem, Z.; Paul, M. R.; Smutny, M. R.; Lawler, Z. K.; Djomo, A. M.; Carroll, T.; Gates, L. A.

10.1101/2025.05.07.652677 — cell biology — Posted on 2025-06-08

4006 Impact of Maximal Overexpression of a Non-toxic Protein on Yeast Cell Physiology

Fujita, Y.; Namba, S.; Kamada, Y.; Moriya, H.

10.1101/2024.06.07.597887 — cell biology — Posted on 2025-06-08

4007 PTP1B inhibition promotes microglial phagocytosis in Alzheimer's disease models by enhancing SYK signaling

Cen, Y.; R. Alves, S.; Song, D.; Preall, J.; Van Aelst, L.; Tonks, N. K.

10.1101/2025.05.30.657101 — molecular biology — Posted on 2025-06-08

4008 Single-cell transcriptomics showed that maternal PCB exposure dysregulated ER stress-mediated cell type-specific responses in the liver of female offspring

Lim, J. J.; Suh, Y.; Li, X.; Wilson, R.; Lehmler, H.-J.; Lein, P. J.; Cui, J. Y.

10.1101/2025.06.04.657944 — systems biology — Posted on 2025-06-08

4009 piR-bmo-796514 Facilitates the Proliferation of Exogenous DNA Virus (Baculovirus) by Targeting the Host E3 Ubiquitin Ligase RNF181

Xia, J.; Fei, S.; Luo, W.; Zhou, M.; Kong, Y.; Huang, Y.; Swevers, L.; Feng, M.

10.1101/2025.06.08.658493 — immunology — Posted on 2025-06-08

4010 Biliverdin Reductase A is a major determinant of neuroprotective Nrf2 signaling

Vasavda, C.; Kothari, R.; Kaidery, N. A.; Chakraborty, S.; Tripathi, S. J.; Dhindsa, R. S.; Saberi, S.; Lefler, J. E.; Kothari, P.; Chaubey, K.; Snowman, A. M.; Ostrowski, M. C.; Barone, E.; Iyer, L. M.; Aravind, L.; Sharma, S. M.; Pieper, A. A.; Thomas, B.; Snyder, S. H.; Paul, B. D.

10.1101/2025.06.04.657936 — neuroscience — Posted on 2025-06-08

4011 Selective transcriptomic recovery by (2R,6R)-hydroxynorketamine in opioid-abstinent mice: Machine learning identifies predictive biomarkers

Onisiforou, A.; Koumas, M.; Michael, A.; Zanos, P.

10.1101/2025.06.04.657935 — neuroscience — Posted on 2025-06-08

4012 Pan-angiosperm analysis of the CLE signaling peptide family unveils paths, patterns, and predictions of paralog diversification

Gentile, I.; Santo Domingo, M.; Zebell, S. G.; Fitzgerald, B.; Lippman, Z.

10.1101/2025.06.04.657892 — plant biology — Posted on 2025-06-08

4013 An Integrated In Vitro Platform and Biophysical Modeling Approach for Studying Synaptic Transmission in Isolated Neuronal Pairs

Amos, G.; Vasiliauskaite, V.; Duru, J.; Saramago, M. L. A.; Schmid, T.; Suter, A.; Torren, F. C.; Küchler, J.; Ruff, T.; Vörös, J.; Vulic, K.

10.1101/2025.06.04.657933 — neuroscience — Posted on 2025-06-08

4014 Biological consequences of asymmetric hop diffusion in the cell membrane

Hall, D.

10.1101/2025.06.04.657947 — biophysics — Posted on 2025-06-08

4015 Interprotomer Communication and Functional Asymmetry in H/ACA snoRNPs

Singh Panwar, H.; Vos, T. J.; Xie, X.; Jang, H. S.; Lee, H.; Sheldon, R.; Worden, E. J.; Kothe, U.

10.1101/2025.06.07.658439 — biochemistry — Posted on 2025-06-08

4016 Mechanisms of KCNQ1 gating modulation by KCNE1/3 for cell-specific function

Cui, C.; Zhao, L.; Kermani, A. A.; Du, S.; Pipatpolkai, T.; Jiang, M.; Chittori, S.; Tan, Y.; Shi, J.; Delemotte, L.; Cui, J.; Sun, J.

10.1101/2025.06.08.658478 — biochemistry — Posted on 2025-06-08

4017 A human ex vivo model of radiation-induced skin injury reveals p53-driven DNA damage signaling and recapitulates a TGFβ fibrotic response

Dodson, C.; Bilik, S. M.; DiBartolomeo, G.; Pachalis, H.; Siegfried, L.; Johnson, J. A. K.; Thaller, S. R.; Pastar, I.; Tomic-Canic, M.; Griswold, A. J.; Stone, R. C.

10.1101/2025.06.04.657901 — genomics — Posted on 2025-06-08

4018 Rapid on-site universal vertebrate species identification via multi-barcode nanopore sequencing

Patterson, E. C.; Morrison-Lanjouw, S.; Jobling, M. A.; Wetton, J. H.

10.1101/2025.06.04.657926 — genetics — Posted on 2025-06-08

4019 Molecular profiling of bovine primordial germ cell specification and migration onset reveals a conserved program in bilaminar disc embryos

Guiltinan, C.; Botigelli, R. C.; Arcanjo, R. B.; Candelaria, J. I.; Lanzon, L. F.; Smith, J. M.; Becerra-Cortes, G.; Denicol, A. C.

10.1101/2025.06.04.657951 — developmental biology — Posted on 2025-06-08

4020 Spatial characterization of microbiota profiles along the gut in a widely used mouse model: effects of high-fat diet and fructooligosaccharides

Taillandier, P.; Voland, L.; Debedat, J.; Archambeau, A.; Dussaud, S.; Amouyal, C.; Patino-Navarrete, R.; Rey, F. E.; Adriouch, S.; Belda, E.; Clement, K.; Le Roy, T.

10.1101/2025.06.08.658095 — microbiology — Posted on 2025-06-08

4021 Characterization of a Novel Cell Wall-Associated Nucleotidase of Enterococcus faecalis that Degrades Extracellular c-di-AMP

Rivera, A. G. M.; Bala, A.; Casella, L. G.; Brunson, D. N.; Patel, A. M.; Wongso, E.; Flores-Mireles, A. L.; Lemos, J. A.

10.1101/2025.06.08.658492 — microbiology — Posted on 2025-06-08

4022 Competing gene regulatory networks drive naive and memory B cell differentiation

Demela, P.; Esposito, L.; Marchesan, P.; Bolognini, D.; Giacopuzzi, E.; Ricciardelli, E.; Ferrari, P.; Bombelli, S.; Peano, C.; Prati, D.; Valenti, L.; Soskic, B.

10.1101/2025.06.04.657836 — immunology — Posted on 2025-06-08

4023 Abrogating TGFβ signaling in TCR-engineered T cells and enhancing antigen processing by tumor cells promotes sustained therapeutic activity in pancreatic ductal adenocarcinoma

Tsai, A. K.; Rollins, M. R.; Ellefson, M. A.; Schmiechen, Z. C.; Burrack, A. L.; Hulbert, A.; Qian, G.; Zhang, H.; Provenzano, P.; Cruz-Hinojoza, E.; Butler, J. Z.; Smith, O. C. G.; O'Flanagan, S. D.; Krause, J.; Hickok, G. H.; Masopust, D.; Hingorani, S. R.; Greenberg, P. D.; Stromnes, I. M.

10.1101/2025.06.04.657887 — immunology — Posted on 2025-06-08

4024 IL-12 Secreting CAR-T Cells Reprogram the Tumor Microenvironment and Improve Efficacy Against Heterogeneous Models of Glioblastoma

Shen, S.; MOHAN, A.; Hotchkiss, K. M.; Quackenbush, S.; Patel, K.; Moelker, E.; Swartz, A.; Suryadevara, C.; Wilkinson, D.; Fecci, P.; Sanchez-Perez, L.; Sampson, J.; Patel, A.

10.1101/2025.06.04.657937 — immunology — Posted on 2025-06-08

4025 Neurotrophic Factor-α1/carboxypeptidase E regulates critical protein networks to rescue neurodegeneration, defective synaptogenesis and impaired autophagy in Alzheimer's Disease mice

Xiao, L.; Sharma, P.; Yang, X.; Abebe, D.; Loh, Y. P.

10.1101/2025.06.04.657876 — neuroscience — Posted on 2025-06-08

4026 Glycated alpha-synuclein assemblies cause distinct Parkinsons disease pathogenesis in mice

Rajan, A.; Varghese, A.; Hashardeen, S. P.; Babu, A. T.; Vijayan, V.; Thakur, P.

10.1101/2025.06.04.657879 — neuroscience — Posted on 2025-06-08

4027 Cell cycle dysregulation contributes to neurodegeneration in humanneurons from ALS/FTD-related C9orf72 repeat expansion carriers.

Lopez Gonzalez, R.; Ali, I.; Lian, L.; Robinson, H.; Daniels, N.; Prieto, A.; Poplawski, G. H. D.

10.1101/2025.06.04.657714 — neuroscience — Posted on 2025-06-08

4028 Study of combination CAR T-cell treatment for glioblastoma using mathematical modeling

Li, R.; Barish, M.; Gutova, M.; Brown, C.; Rockne, R.; Cho, H.

10.1101/2025.06.04.657886 — systems biology — Posted on 2025-06-08

4029 The recognition of YopJ family effectors depends on ZAR1/JIM2 immune complex in Nicotiana benthamiana.

Kim, I.; Kim, J.; Ahn, Y. J.; Sohn, K. H.; Segonzac, C.

10.1101/2025.06.04.657961 — plant biology — Posted on 2025-06-08

4030 Engineering gene expression dynamics via self-amplifying RNA with drug-responsive non-structural proteins

Yousefpour, P.; Gregory, J. R.; Si, K.; Lonzaric, J.; Li, Y.; Wang, J.; Qureshi, K.; Ledbetter, A.; Melo, M. B.; Lemnios, A. A.; Dye, J.; Remba, T. K.; Yeung, R.; Rodriguez, L.; Guereca, M.; Wu, S.; Zhang, Y.; Dong, Y.; Weiss, R.; Irvine, D. J.

10.1101/2025.06.08.658495 — bioengineering — Posted on 2025-06-08

4031 Dogme: A nextflow pipeline for reprocessing nanopore RNA and DNA modifications

Abdollahzadeh, E.; Mortazavi, A.

10.1101/2025.06.04.657941 — genomics — Posted on 2025-06-08

4032 Metabolic tuning enables immediate adaptation to energy stress in yeast

Bexley, K.; Ristova, M.; Sharma, S.; Spanos, C.; Chabes, A.; Tollervey, D.

10.1101/2025.06.06.658098 — molecular biology — Posted on 2025-06-08

4033 Proteomic analysis of bronchoalveolar lavage fluid after lung transplantation associates stable allograft function with less lung damage at 12 months

Arike, L.; Johansson, K.; Ermund, A.; Greer, M.; Pelaseyed, T.; Westin, J.; Hansson, G. C.; Magnusson, J. M.

10.1101/2025.06.08.658472 — molecular biology — Posted on 2025-06-08

4034 Remodeling of tRNA modification in Trypanosoma cruzi life forms

Silva, H. G.; De Freitas Nascimento, J.; Braga, M. S.; Silber, A. M.; Waldor, M.; da Cunha, J. P.; Kimura, S.

10.1101/2025.06.07.658256 — molecular biology — Posted on 2025-06-08

4035 TITAN-RNA: A hybrid-capture sequencing panel detects known and unknown Flaviviridae for diagnostics and vector surveillance

Murrell, C. M.; Sabaawy, A.; Wang, X.; Hashimoto, N.; Ceres, K.; Sun, Y.; Zehr, J. D.; Lehane, A.; Mader, E.; Bailey, N.; Lilly, M. V.; Plimpton, L.; Reboul, G.; Brown, J. J.; Sams, K. L.; Singh, L.; Seiz, E.; Bourgikos, E.; Vogels, C. B. F.; Ciota, A.; Schnurr, V.; Grenier, J. K.; Berthet, X.; Bento, A. I.; Harrington, L. C.; Diuk-Wasser, M.; Olarte-Castillo, X.; Goodman, L. B.

10.1101/2025.06.08.658352 — microbiology — Posted on 2025-06-08

4036 Molecular and functional dissection using CaMPARI-seq reveals the neuronal organization for dissociating optic flow-dependent behaviors

Matsuda, K.; Wang, C.-H.; Toyoda, A.; Shiraki, T.; Kawakami, K.; Kubo, F.

10.1101/2025.06.04.654794 — neuroscience — Posted on 2025-06-08

4037 Preliminary insights into salivary proteomic versus targeted biomarker profiles associated with acute physical fatigue

Lindsey, B.; Bowden, K.; Shaul, Y.; Petricoin, E.; Caswell, S. V.; Alhammad, R.; Elayadi, A. N.; Martin, J.

10.1101/2025.06.04.657971 — physiology — Posted on 2025-06-08

4038 Complex rheology of condensin in entangled DNA

Conforto, F.; Valdes, A.; Vanderlinden, W.; Michieletto, D.

10.1101/2025.06.04.657969 — biophysics — Posted on 2025-06-08

4039 CGBack: Diffusion Model for Backmapping Large-Scale and Complex Coarse-Grained Molecular Systems

Ugarte La Torre, D.; Sugita, Y.

10.1101/2025.06.04.657965 — biophysics — Posted on 2025-06-08

4040 In silico design and validation of high-affinity RNA aptamers for SARS-CoV-2 comparable to neutralizing antibodies

Yang, Y.; Qiao, L.; Jiang, Y.; Wang, Z.; Zhang, D.; Buratto, D.; Huang, L.; Zhou, R.

10.1101/2025.06.04.657802 — biophysics — Posted on 2025-06-08

4041 Designing a broad-spectrum four-helix bundle targeting different strains of SARS-CoV-2 Spike Receptor Binding Domains with ACE2-like binding interface

Nie, Q.; Yin, H.; Chen, K.; Zhang, C.; Li, W.; Qi, J.; Tang, J.; Zhang, J. Z. H.; Zhan, J.; Zhou, Y.

10.1101/2025.06.04.657798 — molecular biology — Posted on 2025-06-08

4042 Stress-Induced Alteration of Small Extracellular Vesicles Drives Amyloid-Beta Sequestration and Exacerbates Alzheimer's Disease Pathogenesis

Zehra, S.; Rai, S.; Rani, K.; Choudhury, S. D.; Rai, H.; Bhowmik, S.; Mohan, N.; Gupta, A.; Chatterjee, P.; Reddy, T. J.; Rani, N.; Modi, G. P.; Nikolajeff, F.; Kumar, S.

10.1101/2025.05.23.655679 — neuroscience — Posted on 2025-06-08

4043 Galectin-3 C-epitope, ANP, PPIA, and albumin function as drug-responsive panel biomarkers and therapeutic targets in aging and pressure overload-induced cardiac hypertrophy

Shinde, P. L.; Kumar, V.; Singh, S.; Sivakumar, K. C.; Mishra, R.

10.1101/2025.05.31.657024 — pathology — Posted on 2025-06-08

4044 PA28γ promotes the malignant progression of tumor by elevating mitochondrial function via C1QBP

Wang, J.; Shi, Y.; Wang, Y.; Shen, Y.; Liu, H.; Sun, S.; Wang, Y.; Zhou, X.; Zhou, Y.; Zeng, X.; Li, J.; Chen, Q.

10.1101/2024.07.23.604769 — cancer biology — Posted on 2025-06-08

4045 Cancer-immune coevolution dictated by antigenic mutation accumulation

Wang, L.; Morison, C.; Huang, W.

10.1101/2024.09.10.612074 — evolutionary biology — Posted on 2025-06-08

4046 Killer Toxin K28 resistance in yeast relies on COG complex mediated trafficking of the defence factor Ktd1

Laidlaw, K.; Nadir, H.; Milburn, A.; Cruz, M.; Stanislovas, J.; Droop, A.; MacDonald, S.; Andreev, I.; Leech, A.; Ungar, D.; Sadhu, M. J.; MacDonald, C.

10.1101/2024.12.20.629825 — cell biology — Posted on 2025-06-08

4047 Co-release of opposing signaling molecules controls the escalation and release of aggression

Gatlin, R. E.; Gagon, J.; Kwak, D.; Park, S.; Walker, H.; Kroheim, L.; Everett, T.; Covington, A.; Fluck, M. M.; Zickmund, T.; Frost, N. A.; Zelikowsky, M.

10.1101/2025.03.13.643119 — neuroscience — Posted on 2025-06-08

4048 Convergent and divergent brain-cognition relationships during development revealed by cross-sectional and longitudinal analyses in the ABCD Study

Xie, Y.; Zhang, S.; Orban, C.; Ooi, L. Q. R.; Kong, R.; Floris, D. L.; Zuo, X.-N.; Dhamala, E.; Holmes, A. J.; Uddin, L. Q.; Nichols, T. E.; Di Martino, A.; Yeo, B. T. T.

10.1101/2025.06.06.658294 — neuroscience — Posted on 2025-06-08

4049 Allele Specific Expression Quality Control Fills Critical Gap in Transcriptome Assisted Rare Variant Interpretation

Ganapathy, K. R.; Song, E.; Munro, D.; Torkamani, A.; Mohammadi, P.

10.1101/2025.05.30.657086 — bioinformatics — Posted on 2025-06-08

4050 Group handling using Mus-Bus, a cage-transfer cum enrichment device reduces stress, anxiety and time taken for cage changes and enhances voluntary interaction in C57BL/6NCrl mice

Vijayakumar Sreelatha, H.; Prajapati, A. K.; Mehta, K.

10.1101/2025.05.31.656571 — animal behavior and cognition — Posted on 2025-06-08

4051 Comparative transcriptomics of iPSC-derived cardiomyocytes in a high and a low altitude population

Gray, O. A.; Witonsky, D. B.; Di Rienzo, A.

10.1101/2025.06.04.657917 — genomics — Posted on 2025-06-08

4052 An origin for a eukaryotic lipid transfer protein fold in Asgard archaea

Lipp, N.-F.; Budin, I.

10.1101/2025.05.16.653879 — evolutionary biology — Posted on 2025-06-08

4053 Pseudogenes document protracted parallel regression of oral anatomy in myrmecophagous mammals

Emerling, C. A.; Teullet, S.; Allio, R.; Gatesy, J.; Springer, M.; Delsuc, F.

10.1101/2025.02.21.639456 — evolutionary biology — Posted on 2025-06-08

4054 Chromosome-length genome assembly of Uta stansburiana and gene expression data reveal fast pace-of-life comes with environmental stability

Fellows, S.; Araya-Donoso, R.; Davalos-Dehullu, E.; Khan, R.; Weisz, D.; Dudchenko, O.; Aiden, E. L.; Munguia-Vega, A.; Dolby, G. A.; Edwards, D. L.

10.1101/2025.05.28.656178 — evolutionary biology — Posted on 2025-06-08

4055 Neurodevelopmental Impact of Bipolar Disorder Genetic Risk on Cortical Thickness and Network Topology in Adolescents

Liu, X.; Liu, L.; Yan, J.; He, J.; Wan, B.; Ge, R.; Xiao, J.; Yang, G.

10.1101/2025.06.07.658415 — neuroscience — Posted on 2025-06-08

4056 Mapping neurogenetic characteristics of psychopathological procrastination using normative modeling in a prospective twin cohort

Hu, Y.; Tang, Y.; Li, W.; Zheng, D.; Jin, Y.; Fan, Q.; Buitelaar, J. K.; Zhou, Y.; Chen, Z.

10.1101/2025.06.06.658269 — neuroscience — Posted on 2025-06-08

4057 Genetic modulation of immune gene co-expression in the aged mouse hippocampus by the Apbb1ip locus

Tomkins, J. E.; Methi, A.; Bouland, G.; Doludda, B.; Murphy, K.; Miller, J. A.; Overall, R. W.; Mozhui, K.

10.1101/2025.06.04.657838 — bioinformatics — Posted on 2025-06-08

4058 PDGFRα is required for postnatal cerebral perivascular fibroblast development

Jones, H. E.; Abrams, K. A.; Fantauzzo, K. A.; Siegenthaler, J. A.

10.1101/2025.06.07.658411 — developmental biology — Posted on 2025-06-08

4059 A novel self-organizing embryonic stem cell system reveals the role of WNT signaling parameters in anterior-posterior patterning of the nervous system

Du, S.; Warmflash, A.

10.1101/2025.06.07.658391 — developmental biology — Posted on 2025-06-08

4060 Direct electrical stimulation of the human amygdala enhances recognition memory for objects but not scenes

Wahlstrom, K. L.; Campbell, J. M.; Hollearn, M. K.; Swift, J.; Adamek, M.; Blanpain, L.; Xie, T.; Davis, T.; Brunner, P.; Hamann, S. B.; Arain, A.; Eisenman, L.; Rolston, J. D.; Rahimpour, S.; Manns, J. R.; Willie, J. T.; Inman, C. S.

10.1101/2025.06.05.658078 — neuroscience — Posted on 2025-06-07

4061 Different Multiword Verb Categories are Processed Differentially in the Brain: An Evidence from EEG Analysis and Decoding

Kissanew, H.; Koelbl, N.; Schilling, A.; Krauss, P.

10.1101/2025.06.06.658278 — neuroscience — Posted on 2025-06-07

4062 Ketogenic diet dampens excitatory neurotransmission by shrinking synaptic vesicle pools

Stunault, M. I.; Deng, P.; Periandri, E. M.; Vitorino, F. N.; Barfield, A. J.; Ponce, R. J.; Garcia, B. A.; Egervari, G.; Klyachko, V. A.; Ashrafi, G.

10.1101/2025.06.04.657883 — neuroscience — Posted on 2025-06-08

4063 RNA Dynamics Regulate Transcriptional Condensate Vivacity to Drive Gene Coordination

Ogami, K.; Zheng, M. M.; Yoshino, S.; Sugimoto, Y.; Seida, M.; Mori, T.; Yoshizawa, R.; Onimaru, K.; Kadota, M.; Kuraku, S.; Suzuki, K. G. N.; Cisse, I. I.; Sharp, P. A.; Suzuki, H. I.

10.1101/2025.06.06.658161 — molecular biology — Posted on 2025-06-07

4064 Single-cell characterization of bacterial optogenetic Cre recombinases

Huang, H.; Jafarbeglou, F.; Dunlop, M.

10.1101/2025.06.06.658346 — synthetic biology — Posted on 2025-06-07

4065 Engineering lung-sensing T cells using synthetic receptors targeting RAGE

Jacob, A.; Whitty, C.; Lupica, G.; Badwal, E.; Ren, X.; Qiu, W.; Yu, W.; Tonai, Y.; Camara Serrano, J. A.; Simic, M.; Lim, W. A.; Allen, G.; Sheppard, D.

10.1101/2025.06.06.658315 — synthetic biology — Posted on 2025-06-07

4066 Integrated Histology and Molecular Profiling of Postmortem Human Auditory and Vestibular Organs via a Poly(Methyl Methacrylate)-Based Workflow

10.1101/2025.06.04.657716 — pathology — Posted on 2025-06-07

4067 Synthetic cargo adaptors reveal molecular features that can enhance dynein activation

Siva, A.; Gillies, J. P.; de Borchgrave, A.; Garrott, S. R.; Mishra, R.; El Jbeily, R.; Clarke, R.; Conklin, C.; Gibson, D.; Zang, J. L.; DeSantis, M. E.

10.1101/2025.06.06.658359 — biophysics — Posted on 2025-06-07

4068 Lizards on a sky archipelago: Genomic approaches to the evolution of the mountain genus Iberolacerta

Talavera, A.; Burriel-Carranza, B.; Mochales-Riano, G.; Estarellas, M.; Arribas, O.; Tejero-Cicuendez, H.; Salces-Ortiz, J.; Fernandez-Guiberteau, D.; Amat, F.; Niell, M.; Fernandez, R.; Mikheyev, A. S.; Carranza, S.

10.1101/2025.06.04.657811 — genomics — Posted on 2025-06-07

4069 Phenotypic sex determines recombination rate and distribution in sex-reversed Rainbow Trout Oncorhynchus mykiss

Brekke, C.; Knutsen, T. M.

10.1101/2025.06.04.657809 — genetics — Posted on 2025-06-07

4070 Variation in inbreeding depression within and among Caenorhabditis species

Rockman, M. V.; Bernstein, M. R.; Caglar, D.; Cattani, M. V.; Chang, A. S.; Kaur, T.; Noble, L. M.; Paaby, A. B.

10.1101/2025.06.04.657873 — evolutionary biology — Posted on 2025-06-07

4071 Influence of geography, seasonality and experimental selection on Chironomus riparius recombination rates

Nieto Blazquez, M. E.; Caliendo, C.; Pettrich, L. C.; Waldvogel, A.-M.; Pfenninger, M.

10.1101/2025.06.04.657814 — evolutionary biology — Posted on 2025-06-07

4072 On/off switches in the DIVARICATA-based regulatory network evolved through gene duplication, fusion, and truncation.

Sengupta, A.; Howarth, D.

10.1101/2025.06.04.657860 — evolutionary biology — Posted on 2025-06-07

4073 Direct cell-to-cell transport of Hedgehog morphogen is aided by the diffusible carrier Shifted/DmWif1

Jimenez-Jimenez, C.; Aguilar, G.; Fernandez-Pardo, C.; Affolter, M.; Guerrero, I.

10.1101/2025.06.04.657875 — developmental biology — Posted on 2025-06-07

4074 Minimal activation of the p53 DNA damage response by a modular cytosine base editor enables effective multiplexed gene knockout in induced pluripotent stem cells

Blassberg, R.; Mielczarek, O.; Stombaugh, J.; Okkenhaug, H.; Abreu Torres, A.; Russell, P.; Lambourne, J. J.; Porreca, I.

10.1101/2025.06.05.656583 — molecular biology — Posted on 2025-06-07

4075 Targeting Langerhans cells using a modular mannosylated nucleic acid-based vaccine platform

Vinther, S. C.; Resag, A.; Le, K. T. T.; Zelle-Rieser, C. C.; Strandt, H.; Malle, M. G.; Christiansen, S. H.; Del Frari, B.; Stigger, T.; Schilling, B.; Wohlfarth, J.; Thiel, S.; Valero, J.; Stoitzner, P.; Kjems, J.

10.1101/2025.06.04.657560 — molecular biology — Posted on 2025-06-07

4076 MRTF-dependent cytoskeletal dynamics drive efficient cell cycle progression

Nielsen, J. C.; Benito-Jardon, M.; Petrela, N. C.; Diring, J.; Bellamy, S.; Treisman, R.

10.1101/2025.06.06.657372 — molecular biology — Posted on 2025-06-07

4077 H3K4me1 directs H3K36me2 and H3K36me3 deposition in land plants

Wu, J.; Wang, J.; Du, K.; Li, Y.; Xie, W.; He, C.; Xing, Q.; Li, X.; Zhu, X.; Wu, Z.; Wu, X.; Shen, W.-H.; Lan, F.; Gan, J.; Liu, B.; Dong, A.

10.1101/2025.06.06.658275 — molecular biology — Posted on 2025-06-07

4078 Competing 5' splice sites of SRC1/HEH1 are marked for alternative splicing by U5 and U6 snRNAs during the B to Bact transition of the spliceosome

Mishra, S. K.; Banyal, A. K.; Choudhuri, P.; Pillai, B. R.; Varikkapulakkal, A.

10.1101/2025.06.06.658024 — molecular biology — Posted on 2025-06-07

4079 BARTharm: MRI Harmonization Using Image Quality Metrics and Bayesian Non-parametric

Prevot, E.; Haering, D. A.; Gaetano, L.; Shinohara, R. T.; Holmes, C.; Nichols, T. E.; Ganjgahi, H.

10.1101/2025.06.04.657792 — neuroscience — Posted on 2025-06-07

4080 Localization of Realistic Spatial Patches of Complex Source Activity in MEG

Giri, A.; Hecker, L.; Mosher, J.; Adler, A.; Pantazis, D.

10.1101/2025.06.04.657819 — neuroscience — Posted on 2025-06-07

4081 SURFS and AlphaFold Reveal Ribosome Footprint Shift Caused by EF-Tu D81 Mutation

Zeng, Y.; Johnson, J. L.; Xu, S.; wang, y.

10.1101/2025.06.05.657321 — biophysics — Posted on 2025-06-07

4082 Exploring the Potential of Large Language Models in Differential Abundance Analysis

Franco-Alba, R.; Goryanin, I.; Goryanin, I.

10.1101/2025.06.04.657820 — bioinformatics — Posted on 2025-06-07

4083 VesicleVoyager: In vivo selection of surface displayed proteins that direct extracellular vesicles to tissue-specific targets

Kawai-Harada, Y.; Mardikoraem, M.; Makela, A. V.; Lauro, K.; Lam, J.; Contag, C. H.; Woldring, D. R.; Harada, M.

10.1101/2025.06.04.657858 — bioengineering — Posted on 2025-06-07

4084 YAP/TAZ mechanotransduction is a fast cellular response to subnuclear adhesions revealed by mechanically dynamic substrates

Gandin, A.; Torresan, V.; Pelosin, M.; Vanni, G.; Busetto, R.; Citron, A.; Suli, A.; Panciera, T.; Zanconato, F.; Piccolo, S.; Brusatin, G.

10.1101/2025.06.04.656127 — bioengineering — Posted on 2025-06-07

4085 rtmsEcho: An Open-Source R Package for Automated Analysis of Acoustic Ejection Mass Spectrometry Data

Rimmer, M. A.; Twarog, N. A.; Ranathunge, T.; Wang, J.; Li, Y.; Chen, T.; Shelat, A.; Yang, L.

10.1101/2025.06.05.658081 — biochemistry — Posted on 2025-06-07

4086 A secreted fatty acid- and retinol- binding protein from Heligmosomoides polygyrus suppresses host macrophage polarization

Azizpor, P.; Montoya, J.; Eyabi, F.; Ramirez, J.; Hill, T.; Pena, R.; Mishra, M.; Boulanger, M.; Dillman, A. R.

10.1101/2025.06.05.657999 — biochemistry — Posted on 2025-06-07

4087 Genome-wide characterization of upper Fraser River sockeye salmon identifies a region of major differentiation between run timing groups in the Stuart River Watershed

Sutherland, B. J. G.; Williamson, C.; Toth, B.; Sterritt, G.

10.1101/2025.06.04.657877 — genomics — Posted on 2025-06-07

4088 STARR-CRAAVT: A platform to design cell type-specific regulatory elements for next-generation gene therapy

Becker, R.; Choudhury, P.; Oti, M.; Fouani, Y.; Strobel, B.; Ketterer, S.; Rumpel, S.; Park, J.; Kreuz, S.; Maier, U.; Michelfelder, S.; Schön, C.

10.1101/2025.06.04.657008 — genomics — Posted on 2025-06-07

4089 The SAMM50 rs3761472 causes mitochondrial dysfunction and metabolic dysfunction-associated steatotic liver disease

Shin, H. Y.; Kim, S.; Kim, N.; Kim, U.; Kim, Y. J.; Yun, J. H.; Heo, J.; Lee, H.; Choi, J.; Jeong, I.; Kim, B.-J.

10.1101/2025.06.04.657815 — genetics — Posted on 2025-06-07

4090 Quantitative Assessment of Protein-DNA Interactions via SYBR Green Fluorescence

Wang, J.; Wang, J.; Wang, Z.; Wang, P.; Sun, S.; Li, X.; Tian, Z.; Xu, R.; Shi, Y.; Wang, Y.

10.1101/2025.06.06.658291 — molecular biology — Posted on 2025-06-07

4091 A novel Notch and WNT signaling mechanism contribute to pediatric DCM: a pathway to new therapeutics.

Nyarko, O. O.; Rausch, E.; Goff, J. R. H.; Karimpour-Fard, A.; Conard, C. S.; Hernandez-Lagunas, L.; Burns, M. P. A.; Pena, B.; Miyamoto, S. D.; Stauffer, B. L.; Sucharov, C. C.

10.1101/2025.06.07.658396 — molecular biology — Posted on 2025-06-07

4092 Regulation of essential hepatocyte functions and identity by super-enhancers in health and disease

Lin, T.; Huang, C.; Tong, C.; Xu, W.; Wang, H.; Wu, S.; Zhang, W.; Li, Y.; Liu, H.; Shao, C.; Liu, R.; Wang, S.; Munker, S.; Niess, H.; Meyer, C.; Liebe, R.; Ebert, M.; Gao, C.; Dooley, S.; Ding, H.; Zuo, L.; Wang, H.; Weng, H.

10.1101/2025.06.04.657826 — molecular biology — Posted on 2025-06-07

4093 The apoptosis gene BCL-X splice isoforms have opposing effects in diabetic kidney disease: potential treatment target and prognostic value

Stevens, M.; Ayine, M.; Gooding, K.; Shore, A.; Marquetti, P.; Oltean, S.

10.1101/2025.06.06.658276 — molecular biology — Posted on 2025-06-07

4094 Advancing Ligand Binding Affinity Prediction with Cartesian Tensor-Based Deep Learning

Yu, J.; Sheng, X.; Fan, Z.; Wang, Z.; Cao, D.; Hao, Y.; Zhang, Y.; rao, J.; Shao, P.; Chen, M.; Chen, K.; Teng, D.; Luo, X.; Zhang, S.; Zheng, M.

10.1101/2025.06.04.657800 — molecular biology — Posted on 2025-06-07

4095 Heat-tolerant network hub species make freshwater microbial communities resilient to climate warming

Zhang, W.; Manna, B.; Singhal, N.

10.1101/2025.06.06.658219 — microbiology — Posted on 2025-06-07

4096 Regulating oxygen avaibility mitigates oxidative stresses-induced antibiotic resistance gene expression in E. coli under climate warming

Zhang, W.; Manna, B.; Zhou, X.; Lyu, B.; Singhal, N.

10.1101/2025.06.06.658402 — microbiology — Posted on 2025-06-07

4097 Linkage of nucleotide and functional diversity varies across gut bacteria.

Dubinkina, V.; Smith, B. J.; Zhao, C.; Pino, C.; Pollard, K. S.

10.1101/2025.06.06.658399 — microbiology — Posted on 2025-06-07

4098 Identification and biosynthesis of xildivaline, a novel and widespread peptide deformylase inhibitor from Gammaproteobacteria

Rill, A.; Westphalen, M.; Lamberioux, M.; Chekaiban, J.; Janin, C.; Mazel, D.; Groll, M.; Huber, E. M.; Bode, H. B.

10.1101/2025.06.07.658423 — microbiology — Posted on 2025-06-07

4099 Functional immune profiling reveals CD4+ T cell dysregulation associated with celiac disease

Farchione, A. J.; Cheon, H.; Vremec, D.; Neumann, J.; Verstappen, G. M.; Hardy, M. Y.; Margetts, M. B.; Howson, L. J.; Henneken, L. M.; Ford, M.; Tye-Din, J. A.; Heinzel, S.; Hodgkin, P. D.; Bryant, V. L.

10.1101/2025.06.06.658209 — immunology — Posted on 2025-06-07

4100 High reelin expression can explain why the entorhinal cortex is a cradle for Alzheimer's disease

Kobro-Flatmoen, A.; Hussan, J. R.; Hunter, P. J.; Omholt, S. W.

10.1101/2025.06.04.655278 — neuroscience — Posted on 2025-06-07

4101 Categorizing prediction modes within low-pLDDT regions of AlphaFold2 structures

Williams, C. J.; Chen, V. B.; Richardson, D. C.; Richardson, J. S.

10.1101/2025.06.06.658382 — biochemistry — Posted on 2025-06-07

4102 Mini-bacterioferritins: Structural insight into a new type of ferritin-like protein from an anaerobic methane-oxidising archaeon

Wissink, M.; Engilberge, S.; Leao, P.; Jansen, R. S.; Jetten, M. S. M.; Royant, A.; Welte, C. U.; Wagner, T.

10.1101/2025.06.06.658376 — biochemistry — Posted on 2025-06-07

4103 Improved EPR sensitivity for aqueous biological samples using low-volume multi-channel cells and dielectric resonators

Mett, R. R.; Anilkumar, A.; Garces, A. M.; Wehrley, J. T.; Klug, C. S.; Lerch, M. T.; Sidabras, J. W.

10.1101/2025.06.03.657726 — biophysics — Posted on 2025-06-07

4104 A framework to enhance the Signal-to-Noise Ratio for quantitative fluorescence microscopy

Kaur, S.; Tang, Z. F.; McMillen, D. R.

10.1101/2025.06.03.657680 — biophysics — Posted on 2025-06-07

4105 Positional frequency chaos game representation for machine learning-based classification of crop lncRNAs

Papastathopoulos-Katsaros, A.; Liu, Z.

10.1101/2025.06.03.657533 — bioinformatics — Posted on 2025-06-07

4106 Paired-Sample and Pathway-Anchored MLOps Framework for Robust Transcriptomic Machine Learning in Small Cohorts

Shabanian, M.; Pouladi, N.; Wilson, L.; Prosperi, M.; Lussier, Y. A.

10.1101/2025.06.03.657721 — bioinformatics — Posted on 2025-06-07

4107 Comparing phenotypic manifolds with Kompot: Detecting differential abundance and gene expression at single-cell resolution

Otto, D. J.; Arriaga-Gomez, E.; Thieme, E.; Yang, R.; Lee, S. C.; Setty, M.

10.1101/2025.06.03.657769 — bioinformatics — Posted on 2025-06-07

4108 Parallel evolution of plant alkaloid biosynthesis from bacterial-like decarboxylases

Wood, C. X.; Jiang, Z.; Amarnath, I.; Waddell, L. J. N.; Batey, U. S.; Serna Daza, O.; Newling, K.; James, S.; Grogan, G.; Unsworth, W. P.; Lichman, B. R.

10.1101/2024.06.04.597157 — biochemistry — Posted on 2025-06-07

4109 Interindividual differences in predicting words versus sentence meaning:Explaining N400 amplitudes using large-scale neural network models

Rabovsky, M.; Lopopolo, A.; Schad, D. J.

10.1101/2025.06.03.657727 — neuroscience — Posted on 2025-06-07

4110 Hippocampal reactivation of aversive experience enables safety learning and slow-breathing state for recovery from stress

Maheo, B.; Bagur, S.; Bryzgalov, D.; Hayhurst, C.; Chouvaeff, M.; Callas, E.; Carole, S.; Gallopin, T.; Benchenane, K.

10.1101/2025.06.03.657500 — neuroscience — Posted on 2025-06-07

4111 Development of a network formation assay for developmental neurotoxicity hazard screening using 3D human iPSC derived BrainSpheres

Boyd, S. L.; Vahanan, M. M.; Monroe, J.; Conley, J. A.; Carstens, K. E.; Shafer, T. J.

10.1101/2025.06.03.657699 — neuroscience — Posted on 2025-06-07

4112 Ablation of VEGFA following a lumbar intervertebral disc injury attenuates intradiscal neurovascular features and prevents chronic low back pain symptoms

Potter, R.; Clayton, S. W.; Walk, R.; Liefer, A. L.; Jing, L.; Stratman, A. N.; Setton, L. A.; Gupta, M. C.; Tang, S. Y.

10.1101/2025.06.03.657641 — neuroscience — Posted on 2025-06-07

4113 Cardiorespiratory mechanisms triggered during music perception in preterm infants and adults

Lavezzo, L.; Barcos-Munoz, F.; Benis, D.; Margaria, J.; Grandjean, D.; Scilingo, E. P.; Vollenweider, A.; Henriot, S.; Nardelli, M.; Hüppi, P.; Filippa, M.

10.1101/2025.06.03.657691 — physiology — Posted on 2025-06-07

4114 Proteomic characterization of major fish allergy responsive protein parvalbumins in Hilsa (Tenualosa ilisha): A commercially important fish in Southeast Asia

Shaheen, N.; Peng, Z.; Singh, A.; Wahab, A.; Gasset, M.; Islam, M. H.; Halima, O.; Ali, A. F.; Shah, S. M.; Salkini, M.; Saleemi, S.; Mallah, A. M.; Khan, A.; Mesiya, S.; Khandaker, M.; Zarif, A.; Ali, A.; Samour, A.; Peters, J. W.; Ahsan, N.; Yang, Z.

10.1101/2025.06.03.657624 — biochemistry — Posted on 2025-06-07

4115 Signatures of Motion: Decomposition of Adaptive Morphing Flight in Harris' Hawks

France, L. A.; Shelton, J.; Heerenbrink, M. K.; Brighton, C.; Taylor, G. K.

10.1101/2025.06.03.657611 — animal behavior and cognition — Posted on 2025-06-07

4116 Substructure and maturation of lamina-associated domains in neurons of the developing and adult human brain

Zhang, C.; Gil, E.; Ahanger, S. H.; Li, M.; Wang, L.; Huang, E. J.; Li, J.; Kriegstein, A. R.; Lim, D. A.

10.1101/2024.11.27.625786 — genomics — Posted on 2025-06-07

4117 Systemic organellar genome reconfiguration along the parasitic continuum in the Broomrape family (Orobanchaceae)

Feng, Y.; Wicke, S.

10.1101/2025.06.03.657626 — evolutionary biology — Posted on 2025-06-07

4118 A privileged ER compartment for post-translational heteromeric assembly of an ion channel

Kannan, S.; Kasberg, W.; Ernandez, L. R.; Audhya, A.; Robertson, G. A.

10.1101/2025.01.30.635714 — cell biology — Posted on 2025-06-07

4119 A New Pathway for the Decussation of Corticospinal Tracts

Li, H.-L.; Ahmed, M.; Zaghloul, N.

10.1101/2025.06.03.657394 — neuroscience — Posted on 2025-06-07

4120 Stochastic Misfolding Drives the Emergence of Distinct α-Synuclein Strains

So, R. W. L.; Frieg, B.; Camino, J. D.; Silver, N. R. G.; Mao, A.; Stuart, E.; Schröder, G. F.; Watts, J. C.

10.1101/2025.06.03.657690 — neuroscience — Posted on 2025-06-07

4121 Mapping the Transcriptional Landscape of Drug Responses in Primary Human Cells Using High-Throughput DRUG-seq

Baugh, L.; Vigneau, S.; Sridhar, S.; Boswell, S.; Pilitsis, G.; Bradley, J.; Allen, O.; Rand, L.; Riccardi, A.; Roach, K.; Lema, K.; Ergun, A.

10.1101/2025.06.03.657593 — systems biology — Posted on 2025-06-07

4122 Maize root growth, Oxygen and N availability drive formation of N2O hotspots in soil

Rummel, P. S.; Rasmussen, M. R.; Saghai, A.; Merl, T.; Hallin, S.; Mueller, C. W.; Koren, K.

10.1101/2025.06.03.657623 — plant biology — Posted on 2025-06-07

4123 Walking speed can be modulated on an adaptive split-belt treadmill

Kulkarni, R. N.; Bodt, B.; Higginson, J. S.

10.1101/2025.06.03.657157 — bioengineering — Posted on 2025-06-07

4124 Parkinson's disease-vulnerable and -resilient dopamine neurons display opposite responses to excitatory input

Hadjas, L. C.; Kollman, G. J.; Linderhof, L.; Xia, M.; Mansur, S.; Saint-Pierre, M.; Lim, B.; Lee, E. B.; Cicchetti, F.; Awatramani, R.; Hollon, N. G.; Hnasko, T. S.

10.1101/2025.06.03.657460 — neuroscience — Posted on 2025-06-07

4125 LINE-1 replication in a mouse TDP-43 model of neurodegeneration marks motor cortex neurons for cell-intrinsic and non-cell autonomous programmed cell death.

Korada, S.; Tam, O.; Greco, H.; Gale Hammell, M.; dubnau, j.; Sher, R.

10.1101/2025.06.06.658329 — neuroscience — Posted on 2025-06-07

4126 A conserved Arf-GEF modulates axonal integrity through RAB-35 by altering neuron-epidermal attachment

Bonacossa-Pereira, I.; Coakley, S.; Hilliard, M. A.

10.1101/2025.06.03.657768 — neuroscience — Posted on 2025-06-07

4127 Multimodal layer-crossing interrogation of brain circuits enabled by microfluidic axialtrodes

Sui, K.; Codadu, N. K.; Rathore, D.; Li, G.; Meneghetti, M.; Bocker, A. L.; Berg, R. W.; Wykes, R. C.; Markos, C.

10.1101/2024.10.18.619110 — neuroscience — Posted on 2025-06-07

4128 Human PAR1 expressed on mouse platelets contributes to hemostasis and arterial occlusion

Kanaji, S.; Zarpellon, A.; Aiolfi, R.; Morodomi, Y.; Orje, J.; Zampolli, A.; Won, E.; Ruggeri, Z. M.; Kanaji, T.

10.1101/2025.06.03.657740 — physiology — Posted on 2025-06-07

4129 HNF4α controls growth, identity and response to KRAS inhibition of invasive mucinous adenocarcinoma of the lung

Essel Dadzie, H.; Green, Y. S.; Camolotto, S.; Gumbleton, M.; Maeda, Y.; Spike, B. T.; Snyder, E. L.

10.1101/2025.06.06.658155 — cancer biology — Posted on 2025-06-07

4130 DNA Partitioning Modulates Liquid-to-Solid Transitions and the Internal Microstructure of FUS Condensates

Ilhamsyah, D.; Luong, C.; Qamar, S.; St George-Hyslop, P.; Ju, L. A.; Mackay, J.; Knowles, T.; Vigolo, D.; Shen, Y.

10.1101/2025.06.03.657213 — biophysics — Posted on 2025-06-07

4131 Single-cell transcriptomic integrated with machine learning reveals retinal cell-specific biomarkers in diabetic retinopathy

LIN, S.; Yang, L.; TAO, Y.; PAN, Q.; CAI, T.; Ye, Y.; Liu, J.; Zhou, Y.; Shao, Y.; Yi, Q.; Lu, Z. H.; Chen, L.; McKay, G.; Rankin, R.; Li, F.; Meng, W.

10.1101/2025.06.03.657753 — bioinformatics — Posted on 2025-06-07

4132 PreDSLpmo V2.0: A deep learning-based prediction tool for functional annotation of lytic polysaccharide monooxygenases

Arulselvan, K. S.; Pulavendran, P.; Saravanan, V.; Yennamalli, R. M.

10.1101/2025.06.05.658061 — bioinformatics — Posted on 2025-06-07

4133 Comparing phenotypic manifolds with Kompot: Detecting differential abundance and gene expression at single-cell resolution

Otto, D. J.; Arriaga-Gomez, E.; Thieme, E.; Yang, R.; Lee, S. C.; Setty, M.

10.1101/2025.06.03.657769 — bioinformatics — Posted on 2025-06-07

4134 Microbiome composition shapes temperature tolerance in a Hawaiian picture-winged Drosophila

Price, D. K.; West, K.; Cevallos-Zea, M.; Cahan, S.; Longman, E.; Nunez, J. C. B.; Yew, J.; Mederios, M. J.

10.1101/2025.06.03.657679 — evolutionary biology — Posted on 2025-06-07

4135 Lack of mRNA Methylation in Schwann Cells Results in Demyelination and Regenerative Failure

Sari, M. C.; Johnson, A.; Yu, A. T.; Mi, R.; Chen, W.; Hu, X.; Harris, T. G.; Tuffaha, S.; Swarup, V.; Kawaguchi, R.; Ming, G.-L.; Hoke, A.

10.1101/2025.06.03.657089 — neuroscience — Posted on 2025-06-07

4136 Spatiotemporal structure and substates underly emotional signalling in facial expressions and speech movements

Cuve, H. C. J.; Sowden-Carvalho, S.; Cook, J. L.

10.1101/2024.09.02.610622 — neuroscience — Posted on 2025-06-07

4137 Respiratory coordination of excitability states across the human wake-sleep cycle

Sanchez Corzo, A.; Bullon Tarraso, E.; Saltafossi, M.; Berther, T.; Staudigl, T.; Kluger, D. S.; Schreiner, T.

10.1101/2025.06.03.657770 — neuroscience — Posted on 2025-06-07

4138 Impairment in axonal translation and cytoplasmic viscosity during aging in sensory neurons

Emily, M. F.; Guillaud, L.; De la Fuente Ruiz, S.; Agrawal, R.; Boerner, S.; Akimoto, Y.; Turkki, T. H.; Rosti, M. E.; Terenzio, M.

10.1101/2025.06.03.657746 — neuroscience — Posted on 2025-06-07

4139 Disentangling the stomatal response to transpiration and relative humidity

Ben Zeev, B.; Shapira, O.; Yaaran, A.; Zait, Y.

10.1101/2025.06.03.657603 — plant biology — Posted on 2025-06-07

4140 Paracrine Signals from HIV-1 Infected Immune Cells Reprogram Cervical Cancer Pathways

Olwal, C. O.; Rathore, U.; Makanani, S.; Kaushal, P.; Ashley, I. A.; Ummadi, M. R.; Appiah, V.; Djomkam Zune, A. L.; Blanc, S.; Winters, D.; Delgado, Y.; Muthoka, K.; Fabius, J. M.; Eckhardt, M.; Kaake, R. M.; Su, M.; Fregoso, O. I.; Hultquist, J. F.; Orango, E. O.; Swaney, D. L.; Kyei, G. B.; Krogan, N. J.; Quashie, P. K.; Bediako, Y.; Bouhaddou, M.

10.1101/2025.06.06.658239 — cancer biology — Posted on 2025-06-07

4141 Development of a liposomal formulation of a TKI: the active loading of erlotinib.HCl

Schelker, C.; Trap, V.; Boechard, G.; Nowak-Sliwinska, P.

10.1101/2025.06.06.658400 — cancer biology — Posted on 2025-06-07

4142 Design principles of transcription factors with intrinsically disordered regions

Ji, W.; Hachmo, O.; Barkai, N.; Amir, A.

10.1101/2024.11.26.625383 — biophysics — Posted on 2025-06-07

4143 Single-cell imaging reveals spontaneous phenotypic sorting and bet-hedging in developing biofilms

Tai, J.-S. B.; Nam, K.-M.; Li, C.; Nijjer, J.; Zhang, S.; Waters, C. M.; Yan, J.

10.1101/2025.06.03.657734 — biophysics — Posted on 2025-06-07

4144 Examining the Role of Extrachromosomal DNA in 1,216 Lung Cancers

Khandekar, A.; Hoang, P. H.; Luebeck, J.; Diaz-Gay, M.; Zhao, W.; McElderry, J. P.; Hartman, C.; Miraftab, M.; Lee, O. W.; Barnao, K. M.; Bergstrom, E. N.; Yang, Y.; Nowak, M. A.; Rothman, N.; Homer, R.; Yang, S.-R.; Lan, Q.; Wedge, D. C.; Yang, L.; Chanock, S. J.; Zhang, T.; Alexandrov, L. B.; Landi, M. T.

10.1101/2025.06.03.657117 — bioinformatics — Posted on 2025-06-07

4145 Limits of deep-learning-based RNA prediction methods

Ludaic, M.; Elofsson, A.

10.1101/2025.04.30.651414 — bioinformatics — Posted on 2025-06-07

4146 Dynamic Magnetic Resonance Imaging of Whole-Stomach Motility in Rats

Wang, X.; Scheven, U. M.; Liu, Z.

10.1101/2025.06.03.657757 — bioengineering — Posted on 2025-06-07

4147 Intraspecific variation in the duration of epigenetic inheritance

Frejacques, F.; Saglio, M.; Aljohani, M.; Froekjaer-Jensen, C.; Frezal, L.; Felix, M.-A.

10.1101/2025.06.04.657799 — evolutionary biology — Posted on 2025-06-07

4148 An updated and spatially validated somatic single-cell atlas of Hydractinia symbiolongicarpus

Song, J.; de Jong, D.; Waletich, J.; Baxevanis, A. D.; Schnitzler, C. E.

10.1101/2025.06.03.657738 — evolutionary biology — Posted on 2025-06-07

4149 Heme-Mediated Selection of Encapsulated Streptococcus pneumoniae in the Lungs by Oxidative Stress

Alibayov, B.; Jop Vidal, A. G.; Murin, L.; Scasny, A.; Takeshita, K.; Beaton, K.; Edwards, K.; Punshon, T.; Jackson, B.; McDaniel, L. S.; Vidal, J. E.

10.1101/2023.11.14.567109 — microbiology — Posted on 2025-06-07

4150 Hyperpolarization-activated cation channels confer tonotopic specialization for temporal encoding of sound frequency in the cochlear nucleus

Owusu-Nyantakyi, K. O.; Hamlette, L.; Ashida, G.; Weimann, S.; Oline, S.; Burger, R. M.

10.1101/2025.06.03.657729 — neuroscience — Posted on 2025-06-07

4151 Inhibiting RhoA Activation via GDP-state Stabilization to Relieve Heart Failure

Xue, M.; Liang, Y.; Yuan, Z.; Liu, X.; Chang, L.; Wang, Y.; Xu, P.; Zhang, T.; Jiang, H.; Zhao, Z.; Liu, J.; Ruan, S.; Ye, T.; Pang, X.; Mei, W.; Wang, J.; Sun, X.; Wang, H.; Cui, J.; Zu, Y.; Lin, X.; Zhao, Z.; Wang, R.; Huang, H.; Luo, C.; Tao, S.; Wang, J.; Duan, Y.; Zhu, L.; Tang, H.; Zhang, J.; Wang, Y.; Li, C.; Li, H.

10.1101/2025.06.03.657556 — pharmacology and toxicology — Posted on 2025-06-07

4152 Integrative analysis of mRNA stability regulation uncovers a metastasis-suppressive program in breast cancer

Karner, H.; Mittmann, T. C.; Chen, V. W.; Borah, A. A.; Langen, A.; Yousefi, H.; Fish, L.; Zaro, B. W.; Navickas, A.; Goodarzi, H.

10.1101/2025.06.06.658309 — cancer biology — Posted on 2025-06-07

4153 TRPV4 Channels Mediate Bladder Cancer Cell Proliferation, Migration and Chemoresistance

Katari, V.; Dalal, K.; Kondapalli, N.; Paruchuri, S.; Nadiminity, N.; Thodeti, C.

10.1101/2025.06.05.657842 — cancer biology — Posted on 2025-06-07

4154 Acid ceramidase inhibition enhances BCL-2 targeting in venetoclax-resistant acute myeloid leukemia via a cytotoxic integrated stress response

Ung, J.; Tan, S.-F.; Shaw, J. J.; Taori, M.; Deddens, T. M.; Venancio, G. d. C.; Montgomery, M. M.; Hagen, J. T.; Aruleba, R. T.; Golla, U.; Sharma, A.; Paudel, B. B.; Lee, I. S.-A.; Ramamoorthy, B.; Janes, K. A.; Garrett-Bakelman, F. E.; Cabot, M. C.; Fisher-Wellman, K. H.; Fox, T. E.; Claxton, D. F.; Chalfant, C. E.; Feith, D. J.; Loughran, T. P.

10.1101/2025.06.06.657881 — cancer biology — Posted on 2025-06-07

4155 Pancreatic cancer cachexia is mediated by PTHrP-driven disruption of adipose de novo lipogenesis

Bhalerao, N. U.; Ogoti, Y.; Peura, J.; Johnson, C.; Chen, Q.; Korobkina, E.; Keller, F.; Wengyn, M.; Norgard, R. J.; Shamber, C.; Klute, K.; DiMaio, D.; Sellin, K.; Grandgenett, P. M.; Li, R.; Hollingsworth, M. A.; GUILHERME, A.; Czech, M.; Kremer, R.; Zhu, L. J.; Watson, E. V.; Ruscetti, M.; Guertin, D.; Pitarresi, J. R.

10.1101/2025.06.03.657464 — cancer biology — Posted on 2025-06-07

4156 Dietary lipids, not ketone body metabolites, influence intestinal tumorigenesis in a ketogenic diet

Shay, J. E. S.; Chi, F.; Tzouanas, C. N.; Hoeve-Scott, J. T.; Williams, K. J.; Sever, T.; Fuentes, I.; Yilmaz, O. H.

10.1101/2025.06.06.658169 — cancer biology — Posted on 2025-06-07

4157 Breast Cancer Clustering Integrating Complete Gene Expression Profiles and Genetic Ancestry

Stepanian, J.; Mejia-Garcia, A.; Orozco, C.; Duitama, J.

10.1101/2025.06.05.658154 — cancer biology — Posted on 2025-06-07

4158 METTL5 Blockade Enhances Anti-Tumor Immune Response via Inducing Neoantigen Generation

Zhang, Y.; Shi, X.; Wang, Y.; Wang, R.; Cao, Y.; Chen, H.

10.1101/2025.06.06.658288 — cancer biology — Posted on 2025-06-07

4159 Multimodal profiling unveils a reversible basal-like breast cancer cell state resistant to AKT inhibition

Ratcliffe, C. D. H.; Sparks, H.; Boezio, G. L. M.; Alexandrov, Y.; Jenkins, R. P.; Le Marois, A.; Soro-Barrio, P.; Lee, R.; Strohbuecker, S.; Joshi, S.; Ellis, J. K.; Fortier, A.-M.; Gustafsson, N.; Cunha, A. C.; Park, M.; MacRae, J. I.; Serio, A.; Briscoe, J.; Riddell, A.; Barry, S. T.; Dunsby, C.; Sahai, E.

10.1101/2025.06.06.658331 — cancer biology — Posted on 2025-06-07

4160 Modeling acquired TKI resistance and effective combination therapeutic strategies in murine RET+ lung adenocarcinoma

Hinz, T. K.; Le, A. T.; Doan, T.; Ast, A.; Jaramillo, S.; Haines, S.; Navarro, A.; Patil, T.; Nemenoff, R. A.; Heasley, L. E.

10.1101/2025.06.04.657911 — cancer biology — Posted on 2025-06-07

4161 Assessing target genes for homing suppression gene drive

Xu, X.; Fang, J.; Chen, J.; Yang, J.; Yang, X.; Hou, S.; Sun, W.; Champer, J.

10.1101/2024.12.06.627146 — genetics — Posted on 2025-06-07

4162 A Bias-Accounting Meta-Analytic Approach Refines and Expands the Cerebellar Behavioral Topography

Magielse, N.; Manoli, A.; Eickhoff, S. B.; Fox, P. T.; Saberi, A.; Valk, S. L.

10.1101/2024.10.31.621398 — neuroscience — Posted on 2025-06-07

4163 Live-cell analyses with unsegmented images to study cancer cell response to modified T cell therapy

Epstein, L.; Weiner, A. C.; Verma, A.; Saedi, M.; Carnevale, J.; Marson, A.; Engelhardt, B. E.

10.1101/2025.06.04.657687 — cancer biology — Posted on 2025-06-07

4164 Dual inhibition of EGFR and PI3Kinase signaling in EGFR amplified triple negative breast cancer cells induces apoptosis and reduces tumor growth

Wisniewski, D. J.; Voeller, D.; Addissie, Y. A.; Deshmukh, S. K.; Wangsa, D.; Wangsa, D.; Heselmeyer-Haddad, K.; Wu, S.; Lustberg, M. B.; Sledge, G. W.; Lipkowitz, S.

10.1101/2025.06.03.657674 — cancer biology — Posted on 2025-06-07

4165 Optimising Chemotherapy for Locally Advanced High-Grade Serous Ovarian Cancer via Delay-Differential Equations

Koprinski, C.; Hawi, G.; Kim, P. S.

10.1101/2025.06.05.658173 — cancer biology — Posted on 2025-06-07

4166 TATA box-based analysis reveals activation of growth programs in bladder cancer cells despite ferroptosis activation

Fernandez, M. A.; Armisen, R.; Fernandez, M. I.

10.1101/2025.06.05.658066 — cancer biology — Posted on 2025-06-07

4167 A multi-step immune-competent genetic mouse model reveals phenotypic plasticity in uveal melanoma

Xu, X.; Liu, X.; Dollar, J.; Liu, X.; Jasani, N.; Posorske, B.; Sriramareddy, S. N.; Jarajapu, V.; Kuznetsoff, J. N.; Sinard, J.; Bennett, R. L.; Licht, J.; Smalley, K.; Harbour, J. W.; Yu, X.; Karreth, F. A.

10.1101/2025.06.04.657841 — cancer biology — Posted on 2025-06-07

4168 Improving Differential Expression and Survival Analyses with Sample Specific Compartment Deconvolution.

Yurovsky, A.; Moffitt, R. A.

10.1101/2025.06.04.657908 — cancer biology — Posted on 2025-06-07

4169 LSH-mediated resolution of R-loops mitigates transcription-replication conflicts to preserve genomic stability in prostate cancer cells

Ni, K.; Zhang, Y.; Zheng, K.; Huang, J.; Xiong, N.; Liang, R.; Chen, Y.; Jin, H.; Hai, Y.; Li, W.; Ma, J.; Yang, R.; Xia, G.; Bai, Y.; Song, L.; Hu, X.; Tang, Z.; Fu, Q.

10.1101/2025.06.04.657812 — cancer biology — Posted on 2025-06-07

4170 Notch3 regulates pericyte phenotypic plasticity in colorectal cancer

Koliaraki, V.; Chalkidi, N.; Stavropoulou, A.; Arvaniti, V. Z.; Paraskeva, C.; Monogyiou, A.; Sakkou, M.; Nikolaou, C.

10.1101/2025.06.04.657823 — cancer biology — Posted on 2025-06-07

4171 Tumor-Educated-Platelets interact with Breast Cancer-Stem-Cells via P-selectin- PSGL1 and ensure stemness and metastasis through WNT-β-Catenin-VEGF-VEGFR2 intra-cellular signaling: Therapeutic modulation by aspirin

Guha, A.; Sultana, J.; Bhuniya, A.; Chakravarti, M.; Bera, S.; Sarkar, A.; Dhar, S.; Roy Choudhury, P.; Das, J.; Ganguly, N.; Guha, I.; Das, T.; Alam, N.; Ghosh, I.; Hajra, S.; Baral, R.; Bose, A.; Banerjee, S.

10.1101/2025.06.04.657784 — cancer biology — Posted on 2025-06-07

4172 LIMD1 Loss Confers a GPX4-Dependent Cell State in Lung Cancer

Saha, A.; Grevitt, P.; Marques, J. G.; Von Kriegsheim, A.; Shah, K. M.; Gao, Z.; Stockwell, B. R.; Finch, A. J.; Peck, B.; Sharp, T. V.

10.1101/2025.06.06.658274 — cancer biology — Posted on 2025-06-07

4173 In vivo investigation of STN1 downregulation in melanoma formation in adult mice following UV irradiation

Knowles, S.; Wang, F.; Bosland, M. C.; Gaddameedhi, S.; Chai, W.

10.1101/2025.06.04.657974 — cancer biology — Posted on 2025-06-07

4174 SP1 amplifies the effects of cellular proliferation via the Wnt/β-catenin pathway in colon development and cancer

Galande, S.; Sharma, A.; Dsliva, G. J.; Pradhan, S. J.; Mishra, S.; Santhakumar, K.

10.1101/2025.06.05.658012 — cancer biology — Posted on 2025-06-07

4175 Integrative Transcriptomic and miRNA Analysis Reveals Immune Suppression and Metabolic Reprogramming in FGFR3-TACC3 Fusion-Positive versus Fusion-Negative Bladder Cancer

Mishra, D.; Agrawal, S.; Malik, D.; Pathak, E.; Mishra, R.

10.1101/2025.06.05.658144 — cancer biology — Posted on 2025-06-07

4176 Calcium Dependent Conformational Changes in Human Transglutaminase 2 and its Implications in Celiac Disease

Srikanth, S.; Karthikeyan, P. P.; Sezen, M.; Sridhar, D. K.; Doppalapudi, K.; Sen, T. Z.; Ulaganathan, V.; Yennamalli, R. M.

10.1101/2025.06.04.657948 — bioinformatics — Posted on 2025-06-07

4177 Atypical features of the disordered N-terminal region of a bacterial outer membrane copper transporter.

Khochtali, A.; Ote, M.; Balon, H.; Dieu, M.; Renard, P.; Michaux, C.; Matroule, J.-Y.

10.1101/2025.06.04.657848 — molecular biology — Posted on 2025-06-07

4178 Loss of endothelial ALK1 signaling induces the emergence of a KIT+ angiogenic endothelial cluster driving brain arteriovenous malformations

Drape, E.; Carrier, L.; Cagnone, G.; Drissi Touzani Walali, H.; Bizou, M.; Van Vliet, P. P.; Andelfinger, G.; Larrivee, B.; Dubrac, A.

10.1101/2025.06.05.657957 — cell biology — Posted on 2025-06-07

4179 Structures of EHD2 filaments on curved membranes provide a model for caveolar neck stabilization

Vazquez-Sarandeses, E.; Mikirtumov, V.; Noel, J. K.; Kudryashev, M.; Daumke, O.

10.1101/2025.06.05.658037 — molecular biology — Posted on 2025-06-07

4180 Analysis of Essential Genes in Clostridioides difficile by CRISPRi and Tn-seq

Alberts, M.; Kurtz, M.; Müh, U.; Bernardi, J.; Bollinger, K.; Duncan, L.; Dobrila, H. A.; Laster, H.; Orea, A.; Pannullo, A.; Rivera-Rosado, J.; Torres, F.; Ellermeier, C. D.; Weiss, D. S.

10.1101/2025.06.04.657922 — microbiology — Posted on 2025-06-07

4181 Computer prediction and genetic analysis identifies retinoic acid modulation as a driver of conserved longevity pathways in genetically-diverse Caenorhabditis nematodes

Banse, S. A.; Sedore, C. A.; Coleman-Hulbert, A.; Johnson, E.; Onken, B.; Hall, D.; Segerdell, E.; Jackson, E. G.; Song, Y.; Osman, H. C.; Xue, J.; Basttistoni, E.; Guo, S.; Foulger, A.; Achanta, M.; Sheikh, M.; Fitzgibbon, T.; Willis, J. H.; Woodruff, G. C.; Driscoll, M.; Lithgow, G.; Phillips, P. C.

10.1101/2024.10.23.619838 — genetics — Posted on 2025-06-07

4182 Intestinal Stem Cells from Patients with Inflammatory Bowel Disease Retain an Epigenetic Memory of Inflammation

Hamdan, F. H.; Perez, I.; Kossick, K.; Smith, H.; Edwinson, A.; de Hoyos-Vega, J. M.; Gonzalez, M.; Chiang, D.; Klatt, E.; Rumer, K.; Perez Pachon, M.; Sagstetter, M.; Friton, J.; Kammer, E.; English, A.; Chini, L. C. S.; Carnahan, J. F.; Baca, N. A.; Mopuri, R.; Bhagwate, A.; Raffals, L. E.; Sun, Z.; Grover, M.; Revzin, A.; Faubion, W. A.; Druliner, B. R.

10.1101/2025.05.24.655923 — molecular biology — Posted on 2025-06-07

4183 TICKHUNTER: A Targeted Hybridization-Capture Sequencing Approach for the Detection and Characterization of Tick-borne Pathogens and Blood Meals

Wang, X.; Brown, J. J.; Lilly, M. V.; Plimpton, L.; Murrell, C. M.; Llanos-Soto, S. G.; Zehr, J. D.; Sun, Y.; Reboul, G.; Sams, K.; Sabaawy, A.; Singh, L.; Tallmadge, R. L.; Mitchell, P. K.; Anderson, R. R.; Ladd-Wilson, S. G.; Bourgikos, E.; Vogels, C. B.; Olarte-Castillo, X. A.; Diuk-Wasser, M.; Goodman, L. B.

10.1101/2025.06.06.658355 — microbiology — Posted on 2025-06-07

4184 The promise and peril of comparing fluorescence lifetime in biology revealed by simulations

Ma, P.; Chen, P.; Sternson, S.; Chen, Y.

10.1101/2023.12.20.572686 — neuroscience — Posted on 2025-06-07

4185 Exact linear theory of perturbation response in a space- and feature-dependent cortical circuit model

Chau, H. Y.; Miller, K. D.; Palmigiano, A.

10.1101/2024.12.27.630558 — neuroscience — Posted on 2025-06-07

4186 Frequency tagging evidence supports perceptual separation of rapid stimuli in human fetuses

Frohlich, J.; Moser, J.; Metaxas, D.; Sippel, K.; Batterink, L.; Preissl, H.

10.1101/2025.06.06.658307 — neuroscience — Posted on 2025-06-07

4187 Stress induces distinct social behavior states encoded by the ventral hippocampus

Sattler, K. P.; Conoscenti, M. A.; Hedges, A.; Ortega, J.; Miller, R.; Owen, E.; Hanson, R.; Zelikowsky, M.

10.1101/2025.06.06.658117 — neuroscience — Posted on 2025-06-07

4188 Neural coding of spectrotemporal modulations in the auditory cortex supports speech and music categorization

Ginzburg, J.; Debaque, E. C.; Borderie, A.; Morillon, B.; Martineau, L.; Bonaventure, P. L.; Zatorre, R. J.; Albouy, P.

10.1101/2025.06.05.657930 — neuroscience — Posted on 2025-06-07

4189 Causal Lesion Evidence for Two Motor Speech Coordination Networks in the Brain

Burns, W.; Strawderman, E.; Meyers, S. P.; Schmidt, T.; Walter, K. A.; Pilcher, W. H.; Mahon, B. Z.; Garcea, F. E.

10.1101/2025.06.05.658124 — neuroscience — Posted on 2025-06-07

4190 Targeting Neutrophil Extracellular Traps to inhibit Colon Cancer Tumor Necrosis and Metastasis

Gazzara, E.; Adrover, J. M.; Lui, A.; Han, S.; Aminzada, Z.; Bhandari, N.; Sivetz, N.; Shirue, V. S.; Shergill, B. S.; Curtis, M. B.; George, S. C.; Cicala, A.; Rishi, A.; Chung, C.; Devoe, C.; Huang, H.; Weiss, M.; Lou, E.; Tuveson, D. A.; Beyaz, S.; Westcott, P. M. K.; Egeblad, M.; Gholami, S.

10.1101/2025.05.30.657122 — cancer biology — Posted on 2025-06-07

4191 Automatic Phenotyping Using Exhaustive Projection Pursuit

Moore, W. A.; Meehan, S. W.; Meehan, C.; Parks, D. R.; Walther, G.; Herzenberg, L. A.

10.1101/2024.11.20.624581 — bioinformatics — Posted on 2025-06-06

4192 The flexible stalk domain of sTREM2 modulates its interactions with brain-based phospholipids

Saeb, D.; Lietzke, E. E.; Fuchs, D. I.; Aldrich, E. C.; Bruce, K. D.; Sprenger, K. G.

10.1101/2024.09.04.611223 — bioengineering — Posted on 2025-06-07

4193 AsCas12a Exhibits Intrinsic, DNA-Independent ATPase Activity

Bhattacharya, S.

10.1101/2025.06.05.658205 — biochemistry — Posted on 2025-06-06

4194 Behavioural flexibility and its drivers in semi-urban vervet monkeys

Barnes, P. E.; Robira, B.; Mercier, S.; Forss, S. I. F.

10.1101/2025.06.06.658231 — animal behavior and cognition — Posted on 2025-06-06

4195 Gene expression variation across genetically identical individuals predicts reproductive traits

Webster, A. K.; Willis, J. H.; Johnson, E.; Sarkies, P.; Phillips, P. C.

10.1101/2023.10.13.562270 — genomics — Posted on 2025-06-07

4196 Focus on single gene effects limits discovery and interpretation of complex trait-associated variants

Lawrence, K. A.; Gjorgjieva, T.; Montgomery, S. B.

10.1101/2025.06.06.658175 — genetics — Posted on 2025-06-06

4197 Human genetic ancestry, Mycobacterium tuberculosis diversity and tuberculosis disease severity in Dar es Salaam, Tanzania

Zwyer, M.; Xu, Z. M.; Ross, A.; Hella, J.; Sasamalo, M.; Rotival, M.; Hiza, H.; Rutaihwa, L. K.; Borrell, S.; Reither, K.; Fellay, J.; Portevin, D.; Quintana-Murci, L.; Gagneux, S.; Brites, D.

10.1101/2024.08.10.607244 — evolutionary biology — Posted on 2025-06-06

4198 Developmentally cascading structures do not lose evolutionary potential, but compound developmental instability in rat molars

Vitek, N. S.; Saks, E.; Dong, A.; Burroughs, R.; Ward, D. L.; Pomeroy, E.; Martin-Gronert, M.; Ozanne, S. E.

10.1101/2025.01.13.632740 — evolutionary biology — Posted on 2025-06-07

4199 Ancestral splice variation is a substrate for rapid diversifcation in African cichlids

Singh, P.; Ahi, E. P.; Duenser, A.; Durdevic, M.; Gessl, W.; Schaeffer, S.; Seehausen, O.; Sturmbauer, C.

10.1101/2025.05.13.653813 — evolutionary biology — Posted on 2025-06-07

4200 Species synonyms depict changing but taxon-independent taxonomic praxis

Iyer, V.; Prasad, A.

10.1101/2025.04.28.651127 — ecology — Posted on 2025-06-06

4201 Integrating predator energetic balance, risk-taking behavior and microhabitat in functional response: Untangling indirect interactions in a multispecies vertebrate community

Beardsell, A.; Dulude-de Broin, F.; Gauthier, G.; Gravel, D.; Legagneux, P.; DeLong, J. P.; Berteaux, D.; Bety, J.

10.1101/2024.12.20.629406 — ecology — Posted on 2025-06-07

4202 Short-term management of kelp forests for marine heatwaves requires planning

Hopf, J. K.; Giraldo-Ospina, A.; Caselle, J. E.; Kroeker, K. J.; Carr, M. H.; Botsford, L. W.; Hastings, A.; White, J. W.

10.1101/2025.01.30.634607 — ecology — Posted on 2025-06-07

4203 Cellular and transcriptional trajectories of neural fate specification in sea anemone uncover two modes of adult neurogenesis

Plessier, F.; Marlow, H.

10.1101/2025.06.06.655355 — developmental biology — Posted on 2025-06-06

4204 Unbiased profiling of multipotency landscapes reveals spatial modulators of clonal fate biases

Erickson, A. G.; Isaev, S.; He, J.; Artemov, A. V.; Semsch, B.; Murtazina, A.; Sun, J.; Mangold, K.; Chalou, A.; Frisen, J.; Ratz, M.; Andersson, E. R.; Kharchenko, P. V.; Adameyko, I.

10.1101/2024.11.15.623687 — developmental biology — Posted on 2025-06-06

4205 miR-133a and miR-338-3p Shape Neural Crest Derivatives in Zebrafish

Steeman, T. J.; Weiner, A. M. J.; Rubiolo, J. A.; Sanchez, L. E.; Calcaterra, N. B.

10.1101/2025.06.06.658297 — developmental biology — Posted on 2025-06-07

4206 Plat safeguards maternally aged oocytes against programmed cell death through activating the Erk1/2 pathway

He, X.; Zhang, H.; Wang, Y.; Yan, H.; Chen, Q.; Su, M.; Shi, Q.; Zeng, X.; Sheng, W.; Wang, Y.; Wang, C.; Hou, S.; Hu, Z.; He, Y.; Wang, X.

10.1101/2025.02.11.637629 — developmental biology — Posted on 2025-06-07

4207 Surface delivery quantification reveals distinct trafficking efficiencies among clustered protocadherin isoforms

May, E. J.; Gaudet, R.

10.1101/2024.09.23.614616 — cell biology — Posted on 2025-06-06

4208 Functional redundancy in Oxa1-family insertases supports robust membrane insertion of influenza A virus M2 viroporin

Diwo, C.; Alenquer, M.; Zhou, S.; Digard, P.; Adrain, C.; Amorim, M. J.

10.1101/2025.06.05.658076 — cell biology — Posted on 2025-06-07

4209 Membrane association prevents premature degradation and mitigates inefficient biogenesis of suboptimal membrane proteins

Diwo, C.; Alenquer, M.; Adrain, C.; Amorim, M. J.

10.1101/2025.06.05.658084 — cell biology — Posted on 2025-06-07

4210 Deep learning recognises antibiotic modes of action from brightfield images

Krentzel, D.; Kho, K.; Petit, J.; Mahtal, N.; Chiaravalli, J.; Shorte, S. L.; Wehenkel, A. M.; Boneca, I. G.; Zimmer, C.

10.1101/2025.03.30.645928 — microbiology — Posted on 2025-06-07

4211 NEUROLINGUA: A Neuroimaging Database Tailored to Unravel the Complexity of Multilingual Comprehension

Quinones, I.; Carrion-Castillo, A.; Diez-Zabala, I.; de Frutos-Sagastuy, L.; Costello, B.; Carcedo, D.; Manso-Ortega, L.; Slivka, M.; Sanchez, A.; Schüller, A.; Caballero Gaudes, C.; Paz Alonso, P. M.; Carreiras, M.

10.1101/2025.06.06.658050 — neuroscience — Posted on 2025-06-06

4212 Relative Timescale of Channel Voltage-Dependence and Channel Density Regulation Impacts Assembly and Recovery of Activity

Mondal, Y.; Calabrese, R. L.; Marder, E.

10.1101/2025.02.05.636744 — neuroscience — Posted on 2025-06-06

4213 Multidimensional components of impulsivity during early adolescence: Relationships with brain networks and future substance-use in the Adolescent Brian and Cognitive Development (ABCD) study

Cheng, A.; Riley, S. J.; Kohler, R. J.; Umutoni, F. A.; Potenza, M. N.; Lichenstein, S. D.; Holmes, A. J.; Bzdok, D.; Yip, S. W.

10.1101/2025.06.06.658318 — neuroscience — Posted on 2025-06-06

4214 Central nervous system atlas of larval zebrafish constructed using the morphology of single excitatory and inhibitory neurons

Du, X.; Yue, Z.; Wei, J.; Li, W.; Chen, M.; Chen, T.; Hu, H.; Ren, H.; Jia, Z.; Ning, X.; Zhong, Y.; Zheng, X.; Wang, R.; Wan, H.; Zhao, T.; Jin, C.; Huang, J.; Shen, X.; Zheng, M.; Shen, X.; Qiu, X.; Zhang, W.; Zhao, Q.; Ma, Y.; Li, D.; Chen, L.; Wang, Y.; Wang, S.; Gong, Y.; Mu, Y.; Ji, P.; He, J.; Wang, Y.; Du, J.

10.1101/2025.06.06.658008 — neuroscience — Posted on 2025-06-06

4215 The extended language network: Language selective brain areas whose contributions to language remain to be discovered

Wolna, A.; Wright, A.; Casto, C.; Lipkin, B.; Fedorenko, E.

10.1101/2025.04.02.646835 — neuroscience — Posted on 2025-06-06

4216 Synthetic Serum Markers Enable Noninvasive Monitoring of Gene Expression in Primate Brains

Lee, S.; Romac, M.; Watanabe, S.; Chernov, M.; Li, H.; Raisley, E.; Szablowski, J. O.; Costa, V. D.

10.1101/2025.06.01.657212 — neuroscience — Posted on 2025-06-06

4217 Convergent and divergent brain-cognition relationships during development revealed by cross-sectional and longitudinal analyses in the ABCD Study

Yeo, T.; Xie, Y.; Zhang, S.; Orban, C.; Ooi, L. Q. R.; Kong, R.; Floris, D. L.; Zuo, X.-N.; Dhamala, E.; Holmes, A. J.; Uddin, L. Q.; Nichols, T. E.; Di Martino, A.

10.1101/2025.06.06.658294 — neuroscience — Posted on 2025-06-07

4218 Aging modulates the effects of scene complexity on visual search and target selection in virtual environments

Lachica, I. J.; Kalkar, A.; Finley, J. M.

10.1101/2023.05.18.540524 — neuroscience — Posted on 2025-06-07

4219 Cell-Cell Communication and Gene Regulation of Stem Cell-Parenchymal Cell Fusion

Nazaryabrbekoh, F.; Huang, J.; Shoaib, S. S.; Tang, X.; Kim, J.; Ogle, B. M.; Jung, J. P.

10.1101/2025.02.11.637745 — systems biology — Posted on 2025-06-06

4220 Protein phase change batteries drive innate immune signaling and cell fate

Rodriguez Gama, A.; Miller, T.; Venkatesan, S.; Lange, J. J.; Wu, J.; Song, X.; Bradford, W. D.; Cook, M.; Unruh, J. R.; Halfmann, R.

10.1101/2023.03.20.533581 — biophysics — Posted on 2025-06-06

4221 Combinatorial prediction of therapeutic perturbations using causally-inspired neural networks

Gonzalez, G.; Lin, X.; Herath, I.; Veselkov, K.; Bronstein, M.; Zitnik, M.

10.1101/2024.01.03.573985 — bioinformatics — Posted on 2025-06-06

4222 Impact of multiple phosphorylations on the tau-R2/tubulin interface

Marien, J.; Prevost, C.; Sacquin-Mora, S.

10.1101/2025.02.19.638976 — biochemistry — Posted on 2025-06-06

4223 Dynamic strategic social learning in nest-building zebra finches and its generalisability

Breen, A. J.; Eckersley, T.; Camacho-Alpizar, A.; Lambert, C. T.; Balasubramanian, G.; Healy, S. D.; McElreath, R.; Guillette, L. M.

10.1101/2025.06.06.658225 — animal behavior and cognition — Posted on 2025-06-06

4224 Social environment affects vocal individuality in a non-learning species

Madhavan, M.; Hornatova, L.; Salek, M.; Pruchova, A.; Linhart, P.

10.1101/2025.06.06.658121 — animal behavior and cognition — Posted on 2025-06-06

4225 Substructure and maturation of lamina-associated domains in neurons of the developing and adult human brain

Zhang, C.; Gil, E.; Ahanger, S. H.; Li, M.; Wang, L.; Huang, E. J.; Li, J.; Kriegstein, A. R.; Lim, D. A.

10.1101/2024.11.27.625786 — genomics — Posted on 2025-06-06

4226 A generative language model decodes contextual constraints on codon choice for mRNA design

Faizi, M.; Sakharova, H.; Lareau, L. F.

10.1101/2025.05.13.653614 — genomics — Posted on 2025-06-06

4227 Single-nucleus RNA sequencing reveals the cellular diversity of cerebrospinal fluid in the context of intraventricular hemorrhage

Malaiya, S.; Serra, R.; Cortes-Gutierrez, M.; Wilhelmy, B. E.; Jusuf, E.; Somalinga, M.; Peprah, D.; Nambiar, H.; Kim, K. T.; Saadon, J. R.; Patel, P. D.; Yarmoska, S. K.; Rakovec, M.; Kim, J.; Lei, C.; Panchagnula, S.; Ambrocio, R. E.; Cherney, M.; Ayithan, N.; Fan, X.; Gerzanich, V.; Simard, J. M.; Badjatia, N.; Schwartzbauer, G.; Parikh, G. Y.; Ament, S. A.; Ciryam, P.

10.1101/2025.06.05.657834 — genomics — Posted on 2025-06-06

4228 Positioning of negative feedback loops within immune signaling pathways influences gene expression noise

Asgari, D.; Tate, A. T.

10.1101/2024.02.22.581613 — evolutionary biology — Posted on 2025-06-06

4229 Phosphatidylethanolamine is a phagocytic ligand implicated in the binding and removal of apoptotic and microbial extracellular vesicles

Kavianpour, A.; Ghasempour, S.; Meyer, K. J.; Le, T.; Cai, R.; Marques, P. E.; Nodwell, J. R.; Freeman, S. A.

10.1101/2024.11.18.624161 — cell biology — Posted on 2025-06-06

4230 Elucidating the mechanisms of action and evolutionary history of phage anti-defence proteins

Murtazalieva, K.; Karatzas, E.; Corona, F.; Wang, J.; Typas, A.; Finn, R. D.

10.1101/2025.06.06.658234 — microbiology — Posted on 2025-06-06

4231 Cross-species Standardised Cortico-Subcortical Tractography

Assimopoulos, S.; Warrington, S.; Folloni, D.; Bryant, K.; Tang, W.; Jbabdi, S.; Heilbronner, S.; Mars, R. B.; Sotiropoulos, S. N.

10.1101/2025.04.29.651254 — neuroscience — Posted on 2025-06-06

4232 High frequency spike inference with particle Gibbs sampling

Diana, G.; Sermet, B. S.; DiGregorio, D. A.; Wang, S. S.; Broussard, G. J.

10.1101/2022.04.05.487201 — neuroscience — Posted on 2025-06-06

4233 Functional organization of the primate prefrontal cortex reflects individual mnemonic strategies

Wang, X.; Hähnke, D.; Nieder, A.; Jacob, S. N.

10.1101/2024.08.05.606700 — neuroscience — Posted on 2025-06-06

4234 Stomach-brain coupling indexes a dimensional signature of mental health.

Banellis, L.; Rebollo, I.; Nikolova, N.; Allen, M.

10.1101/2024.06.05.597517 — neuroscience — Posted on 2025-06-06

4235 Dissecting surveying behavior of reactive microglia under chronic neurodegeneration

Subhramanian, S.; Bocharova, O.; Makarava, N.; Safadi, T.; Baskakov, I. V.

10.1101/2025.06.02.657382 — neuroscience — Posted on 2025-06-06

4236 BetaII-Spectrin Gaps and Patches Emerge from the Patterned Assembly of the Actin/Spectrin Membrane Skeleton in Human Motor Neuron Axons

Gazal, N. G.; Castellanos-Montiel, M. J.; Bruno, G.; Franco-Flores, A. K.; Lepine, S.; Gursu, L.; Haghi, G.; Maussion, G.; Anastasia, A.; Bisbal, M.; Gorostiza, E. A.; Durcan, T. M.; Unsain, N.

10.1101/2025.05.09.653215 — neuroscience — Posted on 2025-06-06

4237 Neural Adaptation to Expected Uncertainty in Neurotypical Adults and High-Functioning Adults with Autism Spectrum Disorder

Pultsina, K.; Kozunova, G.; Chernyshev, B.; Prokofyev, A.; Tretyakova, V.; Novikov, A.; Rytikova, A.; Stroganova, T.

10.1101/2025.03.30.646160 — neuroscience — Posted on 2025-06-06

4238 Exploring Protein Patterns, Cavity Interactions, and Therapeutic Insights in Cancer

Tejera Nevado, P.; Otero Carrasco, B.; Rodriguez Gonzalez, A.

10.1101/2025.06.03.657615 — bioinformatics — Posted on 2025-06-06

4239 Using supervised machine learning to quantify cleaning behaviour

Oliveira, R.; Garcia, N. C.; Paula, J. R.

10.1101/2025.06.03.657613 — animal behavior and cognition — Posted on 2025-06-06

4240 The study of the Drosophila innubila Nudivirus in cells and flies

Schedl, M. E.; Mulkey, K. M.; Unckless, R. L.

10.1101/2025.06.06.658368 — microbiology — Posted on 2025-06-06

4241 Mechanisms of 10-Hydroxyoctadecanoic acid resistance in Streptococcus pneumoniae

Johnson, C.; Frank, M. W.; Morrow, B. T.; Jia, Q.; Radka, C. D.; Rosch, J. W.

10.1101/2025.06.06.658354 — microbiology — Posted on 2025-06-06

4242 An improved viability assay for Acanthamoeba castellanii trophozoites reveals drug-induced pseudocyst formation

Flynn, C. A.; Colon-Rios, R. I.; Harmez, A.; Kazmierczak, B. I.

10.1101/2025.06.06.658351 — microbiology — Posted on 2025-06-06

4243 Student-led experimental evolution reveals novel biofilm regulatory networks underlying adaptations to multiple niches

Matela, A. M.; Siatkowski, C. W.; Yan, C.; Thiagarajan, S.; Cooper, V. S.

10.1101/2025.06.06.658356 — microbiology — Posted on 2025-06-06

4244 A multi-partner symbiotic community inhabits the emerging pest Pentastiridius leporinus

Vogel, H.; Weiss, B.; Rama, F.; Rinklef, A.; Engl, T.; Kaltenpoth, M.; Vilcinskas, A.

10.1101/2025.06.03.657594 — systems biology — Posted on 2025-06-06

4245 Decoding cell-type-specific alterations in Alzheimer's disease through scRNA-seq and network analysis

Alvarez-Perez, A.; Prieto-Santamaria, L.; Rodriguez-Gonzalez, A.

10.1101/2025.06.03.657612 — systems biology — Posted on 2025-06-06

4246 HEAL-KGGen: A Hierarchical Multi-Agent LLM Framework with Knowledge Graph Enhancement for Genetic Biomarker-Based Medical Diagnosis

Zuo, K.; Zhong, Z.; Huang, P.; Tang, S.; Chen, Y.; Jiang, Y.

10.1101/2025.06.03.657521 — bioinformatics — Posted on 2025-06-06

4247 Benchmarking Docking Tools on Experimental and Artificial Intelligence-Predicted Protein Structures

Tejera Nevado, P.; Junod, N.; Hyunjin Kwon, E.; Prieto Santamaria, L.; Rodriguez Gonzalez, A.

10.1101/2025.06.03.657620 — bioinformatics — Posted on 2025-06-06

4248 Targeted Computational Design of an Interleukin-7 Superkine with Enhanced Folding Efficiency and Immunotherapeutic Efficacy

Lim, S.-K.; Lin, W.-C.; Pan, Y.-C.; Huang, S.-W.; Yu, Y.-A.; Chang, C.-H.; Hu, C.-M. J.; Mou, C.-Y.; Mou, K. Y.

10.1101/2025.06.03.657627 — bioengineering — Posted on 2025-06-06

4249 AsCas12a Exhibits Intrinsic, DNA-Independent ATPase Activity

Bhattacharya, S.

10.1101/2025.06.05.658205 — biochemistry — Posted on 2025-06-06

4250 Structure of the central Staphylococcus aureus AAA+ protease MecA/ClpC/ClpP

Azinas, S.; Wallden, K.; Katikaridis, P.; Jenne, T.; Schahl, A.; Mogk, A.; Carroni, M.

10.1101/2025.06.06.658286 — biochemistry — Posted on 2025-06-06

4251 Profiling Cytosolic Drug Delivery in Mammalian Cells: A Generalizable Assay for Intracellular Accumulation

Bhandari, S.; Ongwae, G. M.; Dash, R.; Liu, Z.; He, Y.; Chordia, M. D.; Pires, M.

10.1101/2025.06.03.656700 — biochemistry — Posted on 2025-06-06

4252 Parallelization of single-molecule binding kinetic measurements via protein barcode sequencing

Hutchinson, S.; Mansour, G. H.; Rehan, A.; Pichard-Kostuch, A.; Redheuil, E.; Reed, B. D.; Griffiths, A. D.; Ribezzi-Crivellari, M.

10.1101/2025.06.05.658126 — biochemistry — Posted on 2025-06-06

4253 Single-stranded DNA binding proteins are essential components of the architectural LDB1 protein complex

Wang, X.; Aboreden, N. G.; Cai, Y.; Lam, J. C.; Henderson, K. A.; Xiang, J.; Giardine, B. M.; Hardison, R. C.; Keller, C. A.; Nagarajan, L.; Brandt, S. J.; Blobel, G. A.

10.1101/2025.06.05.658047 — genomics — Posted on 2025-06-06

4254 Integrating multi-covariate disentanglement with counterfactual analysis on synthetic data enables cell type discovery and counterfactual predictions.

Megas, S.; Amani, A.; Rose, A.; Dufva, O.; Shamsaie, K.; Asadollahzadeh, H.; Polanski, K.; Haniffa, M.; Teichmann, S. A.; Lotfollahi, M.

10.1101/2025.06.03.657578 — genomics — Posted on 2025-06-06

4255 Non-invasive measures of DNA methylation capture molecular aging in wild capuchin monkeys

Sadoughi, B.; Hernandez-Rojas, R.; Hamou, H.; Lopez, R.; Mah, M.; Slikas, E.; Simmons, S. M.; Orkin, J. D.; Higham, J. P.; Brosnan, S. F.; Jack, K. M.; Campos, F. A.; Snyder-Mackler, N.; Melin, A. D.

10.1101/2025.06.03.657357 — genomics — Posted on 2025-06-06

4256 The CYP71A, NIT, AMI, and IAMH gene families are dispensable for indole-3-acetaldoxime-mediated auxin biosynthesis in Arabidopsis

Fenech, M.; Brumos, J.; Pencik, A.; Edwards, B.; Belcapo, S.; DeLacey, J.; Patel, A.; Kater, M. M.; Li, X.; Ljung, K.; Novak, O.; Alonso, J. M.; Stepanova, A. N.

10.1101/2025.06.03.657619 — genetics — Posted on 2025-06-06

4257 Revealing Long-Term Multi-Factor Climate Impacts on Antarctic Phytoplankton: A Trend-Based Approach Using STL and Piecewise SEM

Tanaka, H.; Doi, H.; Iritani, R.

10.1101/2025.06.03.657605 — ecology — Posted on 2025-06-06

4258 Uncovering Host-Parasite Dynamics: Gene Expression Shifts in Hematodinium-infected Chionoecetes bairdi in Response to Temperature ChangeChanges in gene expression under differing temperature regimes of infected Chionoecetes bairdi and the parasitic dinoflagellate Hematodinium sp.

Coyle, A. E.; White, S. J.; Crandall, G.; Jensen, P. C.; Roberts, S.

10.1101/2025.06.05.658092 — molecular biology — Posted on 2025-06-06

4259 Negative epistasis limits current codon optimization approaches

Geees, M.; Raguz Nakic, Z.; Anisimova, M.; Garcia, V.; Peters, C.

10.1101/2025.06.03.657573 — molecular biology — Posted on 2025-06-06

4260 Dietary fibre promotes chronic whipworm infection through direct and time-dependent modulation of innate immunity

Myhill, L. J.; Jensen, P.; Arora, P.; Jensen, A. M.; Zhu, L.; Vedsted-Jakobsen, A.; Thormar, E. A.; von Munchow, A.; Poojary, M. M.; Lund, M. N.; Thamsborg, S. M.; Limborg, M. T.; Jensen, B. A. H.; Williams, A. R.

10.1101/2025.06.06.658267 — microbiology — Posted on 2025-06-06

4261 Post-sampling degradation of viral RNA in wastewater impacts the quality of PCR-based concentration estimates

Munday, J. D.; de Korne-Elenbaas, J.; Gan, C.; Lison, A.; Riou, J.; Ort, C.; Julian, T. R.; Stadler, T.

10.1101/2025.06.06.658243 — microbiology — Posted on 2025-06-06

4262 3'UTR-derived small RNA couples acid resistance to metabolic reprogramming of Salmonella within macrophages

Kanda, T.; Liu, F.; Kooshapour, H.; Reichardt, S.; Wang, M.; Icyishaka, P.; Obana, N.; Westermann, A. J.; Chao, Y.; Miyakoshi, M.

10.1101/2025.06.06.658255 — microbiology — Posted on 2025-06-06

4263 GeneChat: A Multi-Modal Large Language Model for Gene Function Prediction

Dhanasekar, S.; Saranathan, A.; Xie, P.

10.1101/2025.06.05.658031 — bioinformatics — Posted on 2025-06-06

4264 AlphaFold models of host-pathogen interactions elucidate the prevalence and structural modes of molecular mimicry

Baptista, D.; Gomez-Lucas, L.; Jänes, J.; Krogan, N. J.; Joao Amorim, M.; Ivarsson, Y.; Beltrao, P.

10.1101/2025.06.04.657796 — bioinformatics — Posted on 2025-06-06

4265 A conditional generative model to disentangle morphological variation from batch effects in model organism imaging studies

Valdarrago, R. M.; Hu, H.; Li, R.; Uribe-Salazar, J. M.; Dennis, M. Y.; Quon, G.

10.1101/2025.06.04.657966 — bioinformatics — Posted on 2025-06-06

4266 Reproducibility and Accuracy of Nanopore-Based Methylome Profiling of Streptococcus dysgalactiae subspecies equisimilis Strains from Cancer Patients

Schababerle, T.; Hayat, O.; Jung, J.; Le, M.; Polic, I.; Wees, H.; Bhatti, M.; Shelburne, S.; Liu, X.; Kalia, A.

10.1101/2025.06.04.657942 — genomics — Posted on 2025-06-06

4267 Tetraploid turnips (Brassica rapa ssp. rapa) are highly tolerant of tetravalent formation and aneuploidy

Lv, Z.; Schneider-Huether, I.; He, F.; Mason, A. S.

10.1101/2025.06.04.657904 — genetics — Posted on 2025-06-06

4268 Assessing the adaptative potential to temperature and precipitation along a steep environmental gradient in populations of European beech

Tost, M.; Grigoriadou Zormpa, O.; Wilhelmi, S.; Mueller, M.; Wildhagen, H.; Curtu, A. L.; Gailing, O.

10.1101/2025.06.03.657567 — genetics — Posted on 2025-06-06

4269 A resurrection experiment reveals reduced adaptive potential in a common agricultural weed

Bishop, S. G. D.; Stinchcombe, J. R.; Baucom, R. S.

10.1101/2025.06.03.657543 — evolutionary biology — Posted on 2025-06-06

4270 Dynamic DnaA-DnaB interactions at oriC coordinate the loading and coupled translocation of two DnaB helicases for bidirectional replication

Tsuruda, T.; Yoshida, R.; Hayashi, C.; Kasho, K.; Ozaki, S.; Katayama, T.

10.1101/2025.06.05.657979 — molecular biology — Posted on 2025-06-06

4271 IL-18 inhibition enlarges lesions, necrotic cores and thickens fibrous caps in Jak2V617F clonal hematopoiesis-driven atherosclerosis.

Tavallaie, M.; Hsu, C.-C.; Hardaway, B.; Dou, H.; Fidler, T.; Kim, E.; Wang, N.; Westerterp, M.; Tall, A. R.

10.1101/2025.06.03.657754 — molecular biology — Posted on 2025-06-06

4272 The HIV-1 envelope cytoplasmic tail protects infected cells from ADCC by downregulating CD4

Tauzin, A.; Belanger, E.; Prevost, J.; Medjahed, H.; Bourassa, C.; Bibollet-Ruche, F.; Richard, J.; Hahn, B. H.; Finzi, A.

10.1101/2025.06.06.658250 — microbiology — Posted on 2025-06-06

4273 Unraveling the prevalence and multifaceted roles of accessory peptide deformylases in bacterial adaptation and resistance

Lamberioux, M.; Ducos-Galand, M.; Kaminski, P.-A.; Littner, E.; Betton, J.-M.; Mechaly, A.; Haouz, A.; Mazel, D.

10.1101/2025.06.06.657839 — microbiology — Posted on 2025-06-06

4274 Identification of chaperone-independent outer membrane proteins and MtrA-assisted MtrB folding in Shewanella oneidensis

Kneuer, L.; Siebels, B.; Marin, L.; Philipp, L.-A.; Gescher, J.

10.1101/2025.06.06.657845 — microbiology — Posted on 2025-06-06

4275 Influenza A virus polymerase co-opts distinct sets of host proteins for RNA transcription or replication

Rasmussen, A. B.; Swann, O. C.; Sukhova, K.; Liu, N.; Brown, M. D.; Martin-Sancho, L.; Sheppard, C. M.; Barclay, W. S.

10.1101/2025.06.06.658254 — microbiology — Posted on 2025-06-06

4276 A high-throughput, image-based assay to assess drug sensitivity of Acanthamoeba castellanii cysts.

Flynn, C. A.; Harmez, A.; Colon-Rios, R.; Flynn, W. F.; Kazmierczak, B. I.

10.1101/2025.06.06.658337 — microbiology — Posted on 2025-06-06

4277 Bacteriocin-mediated prevention of secondary pneumococcal pneumonia by a human commensal Streptococcus mitis strain

Candeias, C.; Lanca, J.; Alenquer, M.; Bras, D.; Valente, C.; Amorim, M.-J. J.; Sa-Leao, R.

10.1101/2025.06.06.658310 — microbiology — Posted on 2025-06-06

4278 Bacterial peptide deformylase inhibitors induce prophages in competitors

Chen, J.; Pfeifer, K.; Steensen, K.; Crooke, A. M.; Wolfram, M.; Bobonis, J.; Lopatina, A.; Bartlau, N.; Hussain, F. A.; Balskus, E. P.; Polz, M. F.; Blainey, P. C.

10.1101/2025.06.06.656871 — microbiology — Posted on 2025-06-06

4279 Uncovering differences in rye and wheat degradation by human gut microbiota applying a quantitative multi-metaOmics in vitro approach

Hartung, C. B.; Kelder, A.; Woltemate, S.; Geffers, R.; von Felde, A.; Bach Knudsen, K. E.; Visscher, C.; Vital, M.

10.1101/2025.06.06.658233 — microbiology — Posted on 2025-06-06

4280 A Combined Chemo-Enzymatic Treatment for the Oxidation of Epoxy-Based Carbon Fiber-Reinforced Polymers (CFRPs)

Wongwattanarat, S.; Schorn, A.; Klose, L.; Carre, C.; Malvis Romero, A.; Liese, A.; Perez-Garcia, P.; Streit, W. R.

10.1101/2025.06.04.657587 — biochemistry — Posted on 2025-06-06

4281 Comparative genomics-driven design of virus-delivered short RNA inserts triggering robust gene silencing

Garcia, A.; Aragones, V.; Gioiosa, S.; Herraiz, F. J.; Ortiz-Garcia, P.; Prohens, J.; Daros, J.-A.; Pasin, F.

10.1101/2025.06.03.657697 — plant biology — Posted on 2025-06-06

4282 Gene-embedding-based prediction and functional evaluation of perturbation expression responses with PRESAGE

Littman, R.; Levine, J.; Maleki, S.; Lee, Y.; Ermakov, V.; Qiu, L.; Wu, A.; Huang, K.; Lopez, R.; Scalia, G.; Biancalani, T.; Richmond, D.; Regev, A.; Hütter, J.-C.

10.1101/2025.06.03.657653 — bioinformatics — Posted on 2025-06-06

4283 Coreset-based logistic regression for atlas-scale cell type annotation

Li, D.; Ko, Y. K.; Canzar, S.

10.1101/2025.06.04.655742 — bioinformatics — Posted on 2025-06-06

4284 Life at the extremes: Maximally divergent microbes with similar genomic signatures linked to extreme environments

Safari, M.; Butler, J.; Randhawa, G. S.; Hill, K. A.; Kari, L.

10.1101/2025.06.04.657665 — bioinformatics — Posted on 2025-06-06

4285 Three novel genomes broaden the wild side of the Capsicum pangenome

Papastolopoulou, C.; Nieuwenhuis, R.; Warris, S.; Bakker, L. V.; van Haarst, J.; Cordewener, J.; Hesselink, T.; van den Broeck, H. C.; van Dooijeweert, W.; de Jong, H.; Chunwongse, J.; Diaz Trivino, S.; Schijlen, E.; de Ridder, D.; Smit, S.; Peters, S.

10.1101/2025.06.03.657591 — genomics — Posted on 2025-06-06

4286 Improved genome assembly of double haploid Prunus persica siblings Lovell 2D and Lovell 5D and the peach NLRome

Gottschalk, C.; Brock, j. R.; Mansfeld, B. N.; Main, D.; Jung, S.; Zheng, P.; Vann, C.; Demuth, M.; Bennett, D.; Liu, Z.; Dardick, C.

10.1101/2025.06.03.657495 — genomics — Posted on 2025-06-06

4287 Drivers of genetic diversity across the marine tree of life

Toczydlowski, R. H.; Brennan, R. S.; Crandall, E. D.; Kelley, J. L.; Pringle, J. M.; Riginos, C.; Wares, J. P.; Bradburd, G. S.

10.1101/2025.06.03.657718 — evolutionary biology — Posted on 2025-06-06

4288 Detecting and quantifying rare sex in natural populations

Pieszko, T.; Kelleher, J.; Wilson, C. G.; Barraclough, T. G.

10.1101/2025.06.03.657731 — evolutionary biology — Posted on 2025-06-06

4289 Selective breeding enhances coral heat tolerance even over small spatial scales

Kler-Lago, A.; Kiefer, K.; Strader, M.; Baptista Nobre, T.; Hendricks, S.; Richter, C.; Wild, C.; Quigley, K.

10.1101/2025.06.04.657771 — ecology — Posted on 2025-06-06

4290 An optimized rabies vaccine vehicle for orotopical administration to wild vampire bats.

Knuese, C.; Cardenas-Canales, E. M.; McDevitt-Galles, T.; Ramirez-Martinez, M. M.; Limonta, D.; Powers, L. E.; Walsh, D. P.; Streicker, D. G.; Osorio, J. E.; Zamanian, M.; Rocke, T. E.

10.1101/2025.06.03.657068 — ecology — Posted on 2025-06-06

4291 Heterogeneity of Sox2-expressing cells in mouse pituitary and their roles in postnatal gonadotroph differentiation

Smiljanic, K.; Constantin, S.; Nessa, N.; Stojilkovic, S. S.

10.1101/2025.06.03.657631 — developmental biology — Posted on 2025-06-06

4292 Spatially organized inflammatory myeloid-CD8+ T cell aggregates linked to Merkel-cell Polyomavirus driven Reorganization of the Tumor Microenvironment

Haist, M.; Matusiak, M.; Tan, Y.; Zimmer, S.; Stege, H.; Kempchen, T. N.; Mitschke, S.; Chu, P.; Weidenthaler-Barth, B.; Barlow, G. L.; Rogall, F.; Delgado Gonzalez, A.; Baertsch, M. A.; Albertini, S.; Gariglio, M.; Borgogna, C.; Goltsev, Y.; Grabbe, S.; Hickey, J. W.; Nolan, G. P.

10.1101/2025.06.06.657162 — immunology — Posted on 2025-06-06

4293 Enhancing protective efficacy and immunogenicity of hemagglutinin-based influenza vaccine utilizing adjuvants developed by BECC

Das, S.; Tenaglia, B. M.; Riley, D.; Speed, S.; Baracco, L.; Gardner, F. M.; Varisco, D. J.; Yang, H.; Nijhuis, H.; Kerstetter, L.; Krammer, F.; Sun, W.; Frieman, M. B.; Ernst, R. K.

10.1101/2025.06.03.657703 — immunology — Posted on 2025-06-06

4294 Gene therapies alleviate absence epilepsy associated with Scn2a deficiency in DBA/2J mice

Zhang, Z.; Zhang, J.; Chen, X.; Deming, B. A.; Kant, S.; Mandal, P.; Kothandaraman, H.; SanMiguel, P. J.; Halurkar, M. S.; Abeyaratna, A. D.; Robinson, M. J.; Zhao, Y.; Vitko, Y.; Gaykema, R. P.; Yuan, C.; Lanman, N. A.; Tegtmeyer, M. T.; Wang, D.; Gao, G.; Shi, R.; Perez-Reyes, E.; Yang, Y.

10.1101/2025.06.03.657652 — neuroscience — Posted on 2025-06-06

4295 Intermingled representation of oral cavity in mouse trigeminal ganglion

Matunis, A.; Iwamoto, R.; Stacy, E.; Abe, K.; Tamura, S.; Kambe, Y.; Itokazu, T.; Hikida, T.; Sato, T.; Sato, T.

10.1101/2025.06.03.657656 — neuroscience — Posted on 2025-06-06

4296 Implantable CMOS Deep-Brain Fluorescence Imager with Single-Neuron Resolution

Yilmaz, S.; Choi, J.; Uguz, I.; Kim, J.; Akrouh, A.; Taal, A. J.; Andino-Pavlovsky, V.; Yin, H.; Fabbri, J. D.; Moreaux, L.; Roukes, M. L.; Shepard, K. L.

10.1101/2025.06.03.657675 — neuroscience — Posted on 2025-06-06

4297 High-dimensional neuronal activity from low-dimensional latent dynamics: a solvable model

Schmutz, V.; Haydaroglu, A.; Wang, S.; Feng, Y.; Carandini, M.; Harris, K. D.

10.1101/2025.06.03.657632 — neuroscience — Posted on 2025-06-06

4298 PP2A METHYLESTERASE, PME-1, AND PP2A METHYLTRANSFERASE, LCMT-1, CONTROL SENSITIVITY TO IMPAIRMENTS CAUSED BY INJURY-RELATED OLIGOMERIC TAU

Sundaresh, S. N.; Vogel, E. W.; Hue, C. D.; Zhang, H.; Staniszewski, A.; Berman, H. L.; Gill, Z.; Asam, K.; Liang, S.; Shen, L.; Gnanaprakash, M.; Acquarone, E.; Fa, M.; Kanaan, N. M.; Morrison, B.; Arancio, O.; Nicholls, R. E.

10.1101/2025.06.05.657660 — neuroscience — Posted on 2025-06-06

4299 RNA-seq reveals transcriptomic differences in circadian-related genes of the choroid plexus in a preclinical chronic migraine model.

Woldeamanuel, Y. W.; Xia, C.; Ding, S.; Fonteh, A.; Arakaki, X.

10.1101/2025.06.03.657705 — neuroscience — Posted on 2025-06-06

4300 The representation of emotion knowledge in hippocampal-prefrontal systems

Ma, Y.; Kragel, P. A.

10.1101/2025.06.03.657722 — neuroscience — Posted on 2025-06-06

4301 Effects of binge-like ethanol drinking on nest building behavior in mice

Silva-Borges, A. L.; Barkley-Levenson, A. M.

10.1101/2025.06.03.657694 — neuroscience — Posted on 2025-06-06

4302 Genome-Wide Discovery and Characterization of Terpene Synthases Contributing to Strawberry Aroma Metabolism

Madera, M. M.; Becker, K. L.; Weissman, J. D.; Famula, R. A.; Bjornson, M.; Cole, G. S.; Feldmann, M. J.; Knapp, S. J.; Zerbe, P.

10.1101/2025.06.03.654341 — plant biology — Posted on 2025-06-06

4303 Microneedle-based precision payload delivery in plants

Li, M.; Poonam, A. D.; Singh, D.; Whitfield, A. E.; Wei, Q.

10.1101/2025.06.04.657704 — plant biology — Posted on 2025-06-06

4304 Double knockout of rice OsVIT1 and OsVIT2 genes reveals a trade-off between iron biofortification and iron excess tolerance

Benato, B. D.; Rativa, A. G. S.; Olsson, R. V.; Lima-Melo, Y.; Santos, E.; Montanha, G. S.; Alves, J. d. S.; Ponte, L. R.; Fiorentini, V. H. R.; Betin, F. M. M.; Ortolan, F.; Marques, J. P. R.; Sperotto, R. A.; Pereira de Carvalho, H. W. W. P.; Cesco, S.; Mimmo, T.; Tiziani, R.; Beone, G. M.; Navarro, N.; Roschzttardtz, H.; Perez, C. A.; Giehl, R. F. H.; Margis-Pinheiro, M.; Maraschin, F. d. S.; Ricachenevsky, F. K.

10.1101/2025.06.04.657710 — plant biology — Posted on 2025-06-06

4305 SLAB: Simultaneous Labeling And Binding affinity prediction for protein-ligand structures

Ranganath, A.; Kim, H.; Shim, H.; Allen, J. E.

10.1101/2025.06.03.657720 — pharmacology and toxicology — Posted on 2025-06-06

4306 Astrocyte reprogramming drives tumor progression and chemotherapy resistance in agent-based models of breast cancer brain metastases

Kaur, R.; Barker-Clarke, R.; Dhawan, A.

10.1101/2025.06.05.654750 — cancer biology — Posted on 2025-06-06

4307 Lactate cannot replace glucose for maintaining the viability of mouse and human glioma cells

Miller, E. Y.; Duraj, T.; Ta, N. L.; Lee, D. C.; Mukherjee, P.; Shaver, O.; Seyfried, T. N.

10.1101/2025.06.03.655413 — cancer biology — Posted on 2025-06-06

4308 Folding and knotting of biotic and pre-biotic amino acid sequences through reverse evolution

Especial, J. N.; Faisca, P. F.

10.1101/2025.06.04.657801 — biophysics — Posted on 2025-06-06

4309 TORCphysics: A physical model of DNA-topology-controlled gene expression

Velasco Berrelleza, V. M.; Faulkner Rainford, P.; Mogre, A.; Benham, C. J.; Dorman, C. J.; Kroger, C.; Stepney, S.; Harris, S. A.

10.1101/2025.06.04.656888 — biophysics — Posted on 2025-06-06

4310 In silico design and validation of high-affinity RNA aptamers for SARS-CoV-2 comparable to neutralizing antibodies

Yang, Y.; Qiao, L.; Jiang, Y.; Wang, Z.; Zhang, D.; Buratto, D.; Huang, L.; Zhou, R.

10.1101/2025.06.04.657802 — biophysics — Posted on 2025-06-06

4311 TESS: A Forward Simulation Framework for Studying the Role of Transposable Elements in Genome Expansion and Contraction

Benson, C. W.; Chen, T.-H.; Lu, T.; Angelin-Bonnet, O.; Thomson, S. J.; Deng, C. H.; Ou, S.

10.1101/2025.06.04.657780 — bioinformatics — Posted on 2025-06-06

4312 CCC-GPU: A graphics processing unit (GPU)-optimized nonlinear correlation coefficient for large transcriptomic analyses

Zhang, H.; Fotso, K.; Pividori, M.

10.1101/2025.06.03.657735 — bioinformatics — Posted on 2025-06-06

4313 A Self-Supervised Foundation Model for Robust and Generalizable Representation Learning in STED Microscopy

Bilodeau, A.; Beaupre, F.; Chabbert, J.; Bellavance, J.-M.; Lessard, K.; Deschenes, A.; Bernatchez, R.; De Koninck, P.; Gagne, C.; Lavoie-Cardinal, F.

10.1101/2025.06.06.656993 — bioinformatics — Posted on 2025-06-06

4314 Integrative cross-sample alignment and spatially differential gene analysis for spatial transcriptomics

Tan, Y.; Wang, Z.; Wang, A.; Yan, Y.; Lin, W.; Nie, Q.; Shi, J.

10.1101/2025.06.05.653933 — bioinformatics — Posted on 2025-06-06

4315 Ultrasensitive quantitative protein detection using Eu-ion doped vanadate nanoparticles

Kuhner, R.; Cardone, C.; Perrella, R.; Mousseau, F.; Mohammedi, R.; Sintes, J.-M.; Bourgeois, C.; Lambotte, O.; Gacoin, T.; Bouzigues, C. I.; Alexandrou, A.

10.1101/2025.06.03.657629 — bioengineering — Posted on 2025-06-06

4316 An insect brain-based bioelectronic neural sensor for the systemic detection and precise classification of endometriosis

Saha, D.; Sanchez, S. W.; Vegter, E. L.; Parnas, M.; Song, Y.; Fazleabas, A. T.

10.1101/2025.06.03.657650 — bioengineering — Posted on 2025-06-06

4317 Hidden Bias: GPCR Polymorphisms and the Genomic Landscape of β- Arrestin Signaling

Zhou, Y.; Sozat, A. K.; Wetsel, W. C.; Slosky, L.; Gross, J.; Barak, L. S.

10.1101/2025.06.03.657708 — biochemistry — Posted on 2025-06-06

4318 Comprehensive Analysis of RFID Performance of the iID BEEscience system

Magnay, J.; Cipriano, A. P.; Macro Versteeg, S.; Segers, F.; Grueter, C.

10.1101/2025.06.03.657638 — animal behavior and cognition — Posted on 2025-06-06

4319 A progressive ratio task with costly resets reveals adaptive effort-delay tradeoffs

Rivera, Z. M. G.; Guerrero Leon, K.; Cervera, M.; Aguayo, B.; Izquierdo, A.; Wikenheiser, A. M.

10.1101/2025.06.03.657635 — animal behavior and cognition — Posted on 2025-06-06

4320 Widefield Acoustics Heuristic: Advancing Microphone Array Design for Accurate Spatial Tracking of Echolocating Bats

Umadi, R.

10.1101/2025.06.03.657701 — animal behavior and cognition — Posted on 2025-06-06

4321 CrossFilt: A Cross-species Filtering Tool that Eliminates Alignment Bias in Comparative Genomics Studies

Barr, K. A.; Gilad, Y.

10.1101/2025.06.05.654938 — genomics — Posted on 2025-06-06

4322 Vascular smooth muscle cell atherosclerosis trajectories characterized at single cell resolution identify causal transcriptomic and epigenomic mechanisms of disease risk

Li, D. Y.; Kundu, S.; Cheng, P.; Gu, W.; Jackson, W. R.; Zhao, Q.; Nguyen, T.; Worssam, M.; Monteiro, J. P.; Caceres, R. D.; Dale, S.; Palmisano, B.; Weldy, C. S.; Kundu, R.; Wirka, R. C.; Quertermous, T.

10.1101/2025.06.04.655863 — genomics — Posted on 2025-06-06

4323 Unique ecology of co-occurring functionally and phylogenetically undescribed species in the infant oral microbiome

Pucci, N.; Kaan, A. M.; Ujcic-Voortman, J.; Verhoeff, A. P.; Zaura, E.; Mende, D.

10.1101/2025.06.03.657575 — genomics — Posted on 2025-06-06

4324 CladeOScope-GSA: A Tool for Predicting Functional Gene Interactions via Phylogenetic Profiling

Braun, M.; Bloch, I.; Sherill-Rofe, D.; Canavati, C.; Sharon, E.; Tabach, Y.

10.1101/2025.06.03.657590 — evolutionary biology — Posted on 2025-06-06

4325 Phylogenetically-informed crayfish conservation in the face of climate change

Pipins, S.; Bohm, M.; Bland, L.; Crandall, K. A.; Hossain, M. A.; Rosindell, J.; Gumbs, R.

10.1101/2025.06.03.657651 — ecology — Posted on 2025-06-06

4326 Fungal and algal lichen symbionts show different transcriptional expression patterns in two climate zones

Valim, H. F.; Schmitt, I.; Otte, J.

10.1101/2025.06.05.657779 — ecology — Posted on 2025-06-06

4327 A Characterization of Axolotl Digit Regeneration: Conserved Mechanisms, Divergent Patterning, and a Critical Role for Hedgehog Signaling

Griffiths, J. R.; Miller, M.; Duerr, T. J.; Owen, A. E.; Monaghan, J. R.

10.1101/2025.06.03.657663 — developmental biology — Posted on 2025-06-06

4328 Sex-Specific Ethylene Responses and Convergent Plasticity: Multi-Omic Insights into Cannabis Sexual Plasticity

Monthony, A. S.; Roy, J.; de Ronne, M.; Carlson, O.; Murch, S. J.; Torkamaneh, D.

10.1101/2025.06.03.657661 — developmental biology — Posted on 2025-06-06

4329 Designing a broad-spectrum four-helix bundle targeting different strains of SARS-CoV-2 Spike Receptor Binding Domains with ACE2-like binding interface

Nie, Q.; Zhou, Y.; Yin, H.; Chen, K.; Tang, J.; Zhang, J. Z. H.; Zhan, J.; Qi, J.; Li, W.; Zhang, C.

10.1101/2025.06.04.657798 — molecular biology — Posted on 2025-06-06

4330 The longevity effects of reduced IGF-1 signaling depend on the stability of the mitochondrial genome

Shemtov, S. J.; McGann, E.; Carrillo, L.; Lee, S.; Anson, H.; Chung, C. S.; Anagnostou, M.-E.; Lai, G.-J. D.; Verheijen, B. M.; Wan, J.; Vorobyova, I.; Sanchez-Contreras, M.; Conover, C. A.; Thorwald, M. A.; Cohen, P.; Kennedy, S. R.; Gout, J.-F.; Haroon, S.; Vermulst, M.

10.1101/2025.06.03.656903 — molecular biology — Posted on 2025-06-06

4331 Rationally Designed, ACE2 Mimetic Binder to the SARS Cov-2 Associated Spike Protein for COVID-19 Therapeutics and Beyond

Peters, M. H.; Pei, X. Y.

10.1101/2025.06.05.658001 — microbiology — Posted on 2025-06-06

4332 Metabolic controls on the carbon isotope fractionations of bacterial fermentation

Mueller, E.; Heuer, V. B.; Leadbetter, J. R.; Hinrichs, K.-U.; Sessions, A. L.

10.1101/2025.06.06.655161 — microbiology — Posted on 2025-06-06

4333 Novel Body-Selective Regions Responsive to Bodies Away from the Center of Gaze

Zhao, Y.; Shinkle, M. W.; Lescroart, M. D.

10.1101/2025.06.05.654364 — neuroscience — Posted on 2025-06-06

4334 Neuronal or vascular receptive fields? On the relation between BOLD-fMRI population receptive field (pRF) estimates and cortical vascularization.

Schellekens, W.; Nota, M.; Groen, I. I. A.; Piantoni, G.; Winawer, J.; Petridou, N.

10.1101/2025.06.03.657640 — neuroscience — Posted on 2025-06-06

4335 Pangenome-aware DeepVariant

Asri, M.; Chang, P.-C.; Mier, J. C.; Siren, J.; Eskandar, P.; Kolesnikov, A.; Cook, D. E.; Brambrink, L.; Hickey, G.; Novak, A. M.; Dorfman, L.; Webster, D. R.; Carroll, A.; Paten, B.; Shafin, K.

10.1101/2025.06.05.657102 — bioinformatics — Posted on 2025-06-06

4336 Whole chloroplast genomes reveal a complex genetic legacy of lost lineages, past radiations and secondary contacts in the dominant temperate deciduous tree genus Fagus

Worth, J. R. P.; Grimm, G. W.; Ihara-Udino, T.; Li, P.; Papageorgiou, A. C.; Simeone, M. C.; Shanjani, P. S.; Lopez-Saez, J. A.; Chiang, Y.-C.; Kitamura, K.; Tomaru, N.; Denk, T.

10.1101/2025.06.03.653586 — evolutionary biology — Posted on 2025-06-06

4337 Early neuronal reprogramming and cell cycle reentry shape Alzheimer's disease progression

Meir, R.; Schwartz, G.; Adam, M.; Avni Lapidot, A.; Cain, A.; Green, G. S.; Menon, V.; Bennett, D. A.; De Jager, P.; Habib, N.

10.1101/2025.06.04.653670 — neuroscience — Posted on 2025-06-06

4338 Expert-guided multi-objective optimization: an efficient strategy for parameter estimation of biological systems with limited data.

Da Costa Fernandes, L.; Bernard, D.; Peres, F.; Monsarrat, P.; Cousin, B.; Cussat-Blanc, S.

10.1101/2025.06.03.656243 — systems biology — Posted on 2025-06-06

4339 Fitting photosynthetic carbon dioxide and irradiance response curves for C4 leaves

Woodford, R.; Ermakova, M.; Furbank, R. T.; von Caemmerer, S.

10.1101/2025.06.03.657559 — plant biology — Posted on 2025-06-06

4340 Spatial and single-cell transcriptomics capture two distinct cell states in plant immunity

Hu, Y.; Schaefer, R.; Rendleman, M.; Slattery, A.; Cramer, A.; Nahiyan, A.; Breitweiser, L.; Shah, M.; Kaehler, E.; Yao, C.; Bowling, A.; Crow, J.; May, G.; Tabor, G.; Thatcher, S.; Uppalapati, S. R.; Muppirala, U.; Deschamps, S.

10.1101/2025.06.03.657683 — plant biology — Posted on 2025-06-06

4341 Evolutionary origin and functional diversification of plant GBF1-type ARF guanine-nucleotide exchange factors

Singh, M. K.; Lauster, T.; Huhn, K.; Richter, S.; Kientz, M.; Neher, R. A.; Juergens, G.

10.1101/2025.06.03.657657 — plant biology — Posted on 2025-06-06

4342 Enhancing salt tolerance in a hybrid poplar (Populus nigra x maximowiczii) through exogenous putrescine application: Growth, physiological, and biochemical responses

Kundu, S.; Weerasinghe, M.; Gagne, M.; Long, S.; Minocha, R.; Minocha, S.

10.1101/2025.06.04.657897 — plant biology — Posted on 2025-06-06

4343 Cooperation between a root fungal endophyte and host-derived coumarin scopoletin mediates Arabidopsis iron nutrition

Van Dijck, L.; Esposto, D.; Huelsmann, C.; Malisic, M.; Piro, A.; Giehl, R. F. H.; Balcke, G. U.; Tissier, A.; Parker, J. E.

10.1101/2025.06.04.657782 — plant biology — Posted on 2025-06-06

4344 Redesigning petal shape, size, and color in soybean reveals unexpected phenotypes for floral organ development

Szeluga, N.; AlBader, N.; Pelletier, S.; Weis, K.; Johnson, A.; Fahlgren, N.; Neequaye, M.; Vogt, G.; DelPercio, R.; Baldrich, P.; Byers, K. J. R. P.; Meyers, B. C.; Frank, M.

10.1101/2025.06.05.657847 — plant biology — Posted on 2025-06-06

4345 Accurately Programming Complex Light Regimes with Multi-channel LEDs

Vong, G. Y. W.; Scott, P.; Claydon, W.; Daff, J.; Denby, K.; Ezer, D.

10.1101/2025.06.06.658293 — plant biology — Posted on 2025-06-06

4346 FLOE1 maintains cellular viscosity in rehydrating Arabidopsis embryos

Field, S.; Ramirez, J. F.; Dorone, Y.; Cox, J. A.; Boothby, T. C.; Rhee, S. Y.

10.1101/2025.06.03.657678 — plant biology — Posted on 2025-06-06

4347 Unraveling the cis-regulatory code controlling abscisic acid-dependent gene expression in Arabidopsis using deep learning

Opdebeeck, H.; Smet, D.; Thierens, S.; Minne, M.; De Beukelaer, H.; Zuallaert, J.; Van Bel, M.; Van Montagu, M.; Degroeve, S.; De Rybel, B.; Vandepoele, K.

10.1101/2025.06.03.657584 — plant biology — Posted on 2025-06-06

4348 Constitutive expression of full-length or partial of SOC1 genes for yield enhancement in tomato

Danial, G. H.; Jaikham, J.; Song, G.-q.

10.1101/2025.06.03.657751 — plant biology — Posted on 2025-06-06

4349 A workflow for absolute apoplastic pH assessment during live cell imaging in plant roots.

Roessling, a.-k.; mayle, n.; Barbez, E.

10.1101/2025.06.06.658240 — plant biology — Posted on 2025-06-06

4350 Clade I TGA transcription factors are negative regulators of sulfate uptake and metabolism

Shukla, V.; Basu, S.; Koprivova, A.; Ristova, D.

10.1101/2025.06.06.658247 — plant biology — Posted on 2025-06-06

4351 TREM2 Hit Discovery Using TRIC Technology: A Proof-of-Concept High-Throughput Screening Approach

Fuchs, N.; Kuncewicz, K.; El gaamouch, F.; Gabr, M.

10.1101/2025.06.03.657564 — pharmacology and toxicology — Posted on 2025-06-06

4352 Statin-dye conjugates for selective targeting of KRAS mutant cancer cells

Moon, H.-r.; Cai, Z.; Cho, B. K.; Chang, H.; Hong, S. T.; Zhao, J. J.; Kwon, I. C.; Roberts, T. M.; Han, B.; Ryu, J. H.

10.1101/2025.06.03.657329 — cancer biology — Posted on 2025-06-06

4353 Sequential Activation of Senescence and Apoptosis by ONG41008 Eliminated the Human Pancreatic Ductile Adenocarcinoma in nude mice and xenografted human lung cancer

Youn, B.-S.; Kim, K.; Kim, Y.

10.1101/2025.06.03.657005 — cancer biology — Posted on 2025-06-06

4354 All-optical Diamond Heater-Thermometer enables versatile and reliable thermal modulation of ion channels at the single-cell level

Rougier, J.-S.; Glushkov, E.; Guichard, S.; Kucera, J.; Zeeb, V.; Abriel, H.

10.1101/2025.06.03.657561 — biophysics — Posted on 2025-06-06

4355 Amendable decisions in living systems

Neri, I.; Pigolotti, S.

10.1101/2025.06.03.657747 — biophysics — Posted on 2025-06-06

4356 Postnatal Pulmonary Artery Development from Transcript to Tissue

Schwarz, E. L.; Ramachandra, A. B.; Yeung, N.; Manning, E. P.; Weiss, D.; Humphrey, J. D.

10.1101/2025.06.03.657639 — bioengineering — Posted on 2025-06-06

4357 Indistinguishable mitochondrial phenotypes after exposure of healthy myoblasts to myalgic encephalomyelitis or control serum

Ryback, A. A.; Hillier, C.; Loureiro, C. M.; Ponting, C. P.; Dalton, C. F.

10.1101/2025.06.03.657595 — biochemistry — Posted on 2025-06-06

4358 Unlocking the Forgotten Dimension of Biodiversity: A Scalable Genetic Diversity Index for Multi-Species Analysis

Karunarathne, P.; Kluempen, M.; Rose, L.

10.1101/2025.06.03.657643 — genetics — Posted on 2025-06-06

4359 NTCmatch: R package for searching synonyms of plants listed under list of Normally Traded as Commodities

Paul, P.; Pradhan, P.

10.1101/2025.06.03.657558 — ecology — Posted on 2025-06-06

4360 Antigen-specific Th17 T cells offset the age-related decline in durable T cell immunity

Sturmlechner, I.; Jain, A.; Jiang, J.; Okuyama, H.; Mu, Y.; Own, M.; Weyand, C.; Goronzy, J.

10.1101/2025.06.05.658069 — immunology — Posted on 2025-06-06

4361 Spatial transcriptomic analysis of muscle biopsy from treatment-naive juvenile dermatomyositis patients reveals mitochondrial abnormalities despite disease-related interferon driven signature

Syntakas, A. E.; Kartawinata, M.; Evans, N. M. L.; Nguyen, H. D.; Papadopoulou, C.; Al Obaidi, M.; Pilkington, C.; Glackin, Y.; Mahony, C. B.; Croft, A. P.; Eaton, S.; Cortina-Borja, M.; Ogunbiyi, O.; Merve, A.; Wedderburn, L. R.; Wilkinson, M. G. L.; UK JDM Cohort and Biomarker Study (JDCBS),

10.1101/2025.06.03.657601 — immunology — Posted on 2025-06-06

4362 Synthetic Serum Markers Enable Noninvasive Monitoring of Gene Expression in Primate Brains

Lee, S.; Romac, M.; Watanabe, S.; Chernov, M.; Li, H.; Raisley, E.; Szablowski, J. O.; Costa, V. D.

10.1101/2025.06.01.657212 — neuroscience — Posted on 2025-06-06

4363 A discontinuity in motion perception during fixational drift

D'Angelo, J. C.; Tiruveedhula, P.; Weber, R. J.; Arathorn, D. W.; Otero-Millan, J.; Roorda, A.

10.1101/2025.06.02.657265 — neuroscience — Posted on 2025-06-06

4364 Pupil size correlates with near-threshold detection performance irrespective of stimulus colour, eccentricity, or retinal adaptation-state

Ruuskanen, V.; Mathot, S.

10.1101/2025.06.03.657576 — neuroscience — Posted on 2025-06-06

4365 GPX4 Promotes Optic Nerve Regeneration and RGC Neuroprotection

Yang, M.; Bian, F.; Feng, X.; Li, L.; Huang, H.; Liu, L.; Dalal, R.; Yang, H.; Suraparaju, P. V.; Cao, F.; Ong, P.; Luo, A.; Liu, D.; Hu, Y.

10.1101/2025.06.03.657677 — neuroscience — Posted on 2025-06-06

4366 The spatial coding of touch is defined in intrinsic, limb-specific coordinates: an EEG study

Peviani, V. C.; Elmas, H. H.; Medendorp, W. P.; Miller, L. E.

10.1101/2025.06.03.657562 — neuroscience — Posted on 2025-06-06

4367 Telomere-driven senescence accelerates tau pathology, neuroinflammation and neurodegeneration in a tauopathy mouse model

Palomares, D.; Vanparys, A.; Jorgji, J.; Paitre, E.; Kienlen-Campard, P.; Suelves, N.

10.1101/2025.06.03.657581 — neuroscience — Posted on 2025-06-06

4368 Heterogeneity in human brain clearance adds resilience against tauopathy -- a computational model informed by glymphatic MRI

Brennan, G. S.; Thompson, T. B.; Oliveri, H.; Vinje, V.; Ringstad, G.; Eide, P. K.; Goriely, A.; Rognes, M. E.

10.1101/2025.06.03.657596 — neuroscience — Posted on 2025-06-06

4369 Physiological and functional characterization for high-throughput optogenetic skeletal muscle exercise assays

Heisser, R.; Bu, A.; Schwendeman, L.; Rossy, T.; Raman, R.

10.1101/2025.06.02.657505 — bioengineering — Posted on 2025-06-06

4370 A State-Dependent Drift Diffusion Model Reveals Mice Actively Explore A Speed-Accuracy Continuum During Decision-Making

Senne, R. A.; Delgado-Sallent, C.; Ramirez, S.; Scott, B. B.; DePasquale, B.

10.1101/2025.06.02.657156 — animal behavior and cognition — Posted on 2025-06-06

4371 Diencephalic and white matter knock-on effects in hippocampal amnesia - why they matter

Argyropoulos, G. P. D.; Aggleton, J. P.; Butler, C. R.

10.1101/2025.05.21.655297 — neuroscience — Posted on 2025-06-06

4372 Extracting Reproducible Components from Electroencephalographic Responses to Transcranial Magnetic Stimulation with Group Task-Related Component Analysis

Couto, B. A. N.; Fecchio, M. N.; Russo, S.; De Martino, E.; Parmigiani, S.; Sarasso, S.; Graven-Nielsen, T.; de Andrade, D. C.; Massimini, M.; Rosanova, M.; Casali, A. G.

10.1101/2025.06.02.657489 — neuroscience — Posted on 2025-06-06

4373 Galectin-3 C-epitope, ANP, PPIA, and albumin function as drug-responsive panel biomarkers and therapeutic targets in aging and pressure overload-induced cardiac hypertrophy

Shinde, P. L.; Kumar, V.; Singh, S.; Sivakumar, K. C.; Mishra, R.

10.1101/2025.05.31.657024 — pathology — Posted on 2025-06-06

4374 8-Oxoguanine Disrupts G-Quadruplex DNA Stability and Modulates FANCJ AKKQ Binding

Campbell, L.; Lowran, K.; Cismas, E.; Wu, C.

10.1101/2024.12.20.629766 — biochemistry — Posted on 2025-06-06

4375 The Neurofibrillary Tangle Maturity Scale: A Novel Framework for Tangle Pathology Evaluation in Alzheimer's Disease

Moloney, C. M.; Rutledge, M. H.; Labuzan, S. A.; Peng, Z.; Tranovich, J. F.; Wood, A. C.; Rothberg, D. M.; Duara, R.; Lachner, C.; Graff-Radford, N. R.; Dickson, D. W.; Kanaan, N. M.; Carter, R. E.; Murray, M. E.

10.1101/2025.06.02.657435 — neuroscience — Posted on 2025-06-06

4376 Cue Integration of Texture and Elasticity Induces Roughness Metamers in Touch

Driller, K. K.; Fradet, C.; Hayward, V.; Hartcher-O'Brien, J.

10.1101/2025.06.02.657485 — neuroscience — Posted on 2025-06-06

4377 Interindividual variations in peak alpha frequency do not predict the magnitude or extent of secondary hyperalgesia induced by high-frequency stimulation

Lebrun, L.; Ricci, G.; Courtin, A. S.; van den Broeke, E. N.; Lenoir, C.; Mouraux, A.

10.1101/2025.06.02.657417 — neuroscience — Posted on 2025-06-06

4378 Yolk steroid concentrations decline in Japanese Quail (Coturnix japonica) eggs throughout incubation

Winnicki, S. K.; Hauber, M. E.; Paitz, R. T.; Benson, T. J.

10.1101/2025.06.02.657472 — physiology — Posted on 2025-06-06

4379 bstinence and Extinction Drive Opposing Changes in Striatal Activity and Dopamine Signaling During Alcohol Relapse

Xie, X.; Cheng, R.; Wang, X.; Wang, J.

10.1101/2025.06.02.657507 — neuroscience — Posted on 2025-06-06

4380 Uncovering the invisible giant: Amyloid β plaques and their proposed association with waste removal in Alzheimer-affected human hippocampus

Fabian-Fine, R.; Roman, A. G.; Winters, M. J.; Lathram, K. J.; Bennett, C. H.; Kipingi, L. K.; Braennare-Gran, S. M.; Whitley, A. E.; Paul, C. M.; Altman, L. M.; Carrillo, I. C.; Joyce, F. M.; Kragh, L. A.; McKnight, T. J.; Reding, C. J.; Reiderer, L. J.; Rivera, L. J.; Steen, H. A.; Weaver, A. L.

10.1101/2025.06.01.657219 — neuroscience — Posted on 2025-06-06

4381 Iron retention coupled with trade-offs in localized symbiotic effects confers tolerance to combined iron deficiency and drought in soybean

Hasan, M. R.; Thapa, A.; Kabir, A. H.

10.1101/2025.01.02.631154 — plant biology — Posted on 2025-06-06

4382 An improved model for prediction of de novo designed proteins with diverse geometries

Orr, B.; Crilly, S. E.; Akpinaroglu, D.; Zhu, E.; Keiser, M. J.; Kortemme, T.

10.1101/2025.06.02.657515 — bioinformatics — Posted on 2025-06-06

4383 Behavioral and Pharmacological Validation of the Differential Reinforcement of Low-Rate Behavior Paradigm in Non-Human Primates

Vanderlip, C. R.; Dunn, S. R.; Wettstein, J. G.; Vivian, J. A.; Glavis-Bloom, C.

10.1101/2025.06.02.657510 — animal behavior and cognition — Posted on 2025-06-06

4384 Comparative population genomics of relictual Caribbean island Gossypium hirsutum

Ning, W.; Hu, G.; Yuan, D.; Arick, M. A.; Hsu, C.-Y.; Magbanua, Z. V.; Pechanova, O.; Peterson, D. G.; Dong, Y.; Udall, J.; Grover, C.; Wendel, J.

10.1101/2025.06.02.657498 — evolutionary biology — Posted on 2025-06-06

4385 Habitat use of juvenile green turtles along the North Pacific coast of Costa Rica

Wu, F.; Valverde-Cantillo, V.; Durr, C.; Espinoza, M.; Lowe, C.; Heidemeyer, m.; Spotila, J. R.; Paladino, F.

10.1101/2025.06.02.657549 — ecology — Posted on 2025-06-06

4386 Temporally-segregated dual functions for Gfi1 in the development of retinal direction-selectivity

Chaudhari, K.; Guzman-Clavel, L. E.; Kolodkin, A. L.

10.1101/2025.06.03.657700 — neuroscience — Posted on 2025-06-06

4387 The Impact of Coronary Artery Disease on Brain Vascular and Metabolic Health: Links to Cognitive Function

Sanami, S.; Tremblay, S. A.; Rezaei, A.; Potvin-Jutras, Z.; Sabra, D.; Intzandt, B.; Gagnon, C.; Mainville-Berthiaume, A.; Wright, L.; Gayda, M.; Iglesies-Grau, J.; Nigam, A.; Bherer, L.; Gauthier, C.

10.1101/2025.06.02.657532 — biophysics — Posted on 2025-06-06

4388 Pharmacological Reversal of Attention Deficits in Non-Human Primates: Implications for Alzheimer's Disease

Vanderlip, C. R.; Dunn, S. R.; Cefalu, J. S.; Ballard, T. M.; Wettstein, J. G.; Glavis-Bloom, C.

10.1101/2025.06.02.657483 — animal behavior and cognition — Posted on 2025-06-06

4389 The phylogenetic position of the extinct Hawaiian honeyeaters: Overcoming the limitations of antique DNA

Zhao, M.; Kimball, R. T.; Braun, E. L.

10.1101/2025.06.02.657453 — evolutionary biology — Posted on 2025-06-06

4390 Personalized mapping of inhibitory spinal cord circuits in vivo via non-invasive neural decoding and in silico modelling

Pascual-Valdunciel, A.; Consul, N.; Brownstone, R. M.; Beato, M.; Farina, D.; Nascimento, F.; Ozyurt, M. G.

10.1101/2025.03.25.645235 — neuroscience — Posted on 2025-06-06

4391 PQBP1-dependent alternative RNA splicing underlies high calorie diet-induced cognitive impairment

Huan, Y.; Homma, H.; Chen, X.; Tanaka, H.; Fujita, K.; La Spada, A. R.; Okazawa, H.

10.1101/2025.06.02.657545 — neuroscience — Posted on 2025-06-06

4392 Pressure-distance curves of identical and dissimilar lipid membrane surfaces in water

Bange, L.; Soltwedel, O.; Seibel, D.-E.; von Klitzing, R.; Schneck, E.

10.1101/2025.06.02.656637 — biophysics — Posted on 2025-06-06

4393 SCNT: An R Package for Data Analysis and Visualization of Single-Cell and Spatial Transcriptomics

Qing, J.; Wu, J.; Li, Y.; Wu, J.

10.1101/2025.06.02.657520 — bioinformatics — Posted on 2025-06-06

4394 Limitations of Current Machine-Learning Models in Predicting Enzymatic Functions for Uncharacterized Proteins

de Crecy-Lagard, V.; Dias, R.; Sexson, N.; Friedberg, I.; Yuan, Y.; Swairjo, M.

10.1101/2024.07.01.601547 — bioinformatics — Posted on 2025-06-06

4395 OrganoidChip+: a Microfluidic Platform for Culturing, Staining, Immobilization, and High-Content Imaging of Adult Stem Cell-Derived Organoids

Moshksayan, K.; Khanna, R.; Camli, B.; Yakay, Z. N.; Harihara, A.; Zdyrski, C.; Mondal, S.; Hegarty, E.; Mochel, J. P.; Allenspach, K.; Ben-Yakar, A.

10.1101/2025.06.02.657499 — bioengineering — Posted on 2025-06-06

4396 Direct HPLC Method for Reduced Pyrroloquinoline Quinone in Functional and Biological Matrices

Mohamad Ishak, N. S.; Ikemoto, K.

10.1101/2025.06.02.657534 — biochemistry — Posted on 2025-06-06

4397 Developmental dynamic transcriptomics reveals multiple effectors and transcription factors critical for Ditylenchus destructor parasitism

Dai, D.; Chen, Y.; Zhang, S.; Zhou, Y.; Wang, X.; Bo, D.; Liao, Y.; Hu, B.; Zhang, Y.; Ashry, N. M.; Peng, D.; Sun, M.

10.1101/2025.06.02.657539 — genomics — Posted on 2025-06-06

4398 Carotenoid-based immune response in sea cucumbers relies on newly identified coelomocytes -- the carotenocytes

Wambreuse, N.; Bossiroy, E.; David, F.; Vanwinge, C.; Fievez, L.; Bureau, F.; Gabriele, S.; Karasiewicz, T.; Mascolo, C.; Wattiez, R.; Eeckhaut, I.; Caulier, G.; Delroisse, J.

10.1101/2025.06.02.657395 — evolutionary biology — Posted on 2025-06-06

4399 A comparison shopper's guide to forest datasets

Lee, L. G.; Pasquarella, V. J.; Glass, B.; Morreale, L. L.; Chung, N.; Gao, X.; Thompson, J.

10.1101/2025.06.02.657445 — ecology — Posted on 2025-06-06

4400 Robotics-assisted acoustic surveys could deliver reliable, landscape-level biodiversity insights

Bevan, P.; Sethi, S. S.; Lawson, J.; Banks-Leite, C.; Kovac, M.; Picinali, L.

10.1101/2025.06.02.657416 — ecology — Posted on 2025-06-06

4401 Bacterial metabolic signatures in MASLD predicted through gene-centric studies in stool metagenomes

Medina, J. M.; Iruzubieta, P.; Fernandez-Lopez, R.; Crespo, J.; de la Cruz, F.

10.1101/2025.05.03.652020 — microbiology — Posted on 2025-06-06

4402 Branched actin networks in innate immune cells mediate host microbiota homeostasis.

Vasconcellos, L. R.; Huang, S. C. M.; Suarez-Bonnet, A.; Priestnall, S.; Chakravarty, P.; Varsani-Brown, S.; Winder, M. L.; Shah, K.; Kogata, N.; Stockinger, B.; Way, M.

10.1101/2024.07.18.604111 — immunology — Posted on 2025-06-06

4403 Retinal tau phosphorylation in Alzheimer's disease: a mass spectrometry study

Santiago, J.; Poceviciute, D.; Vogel, J.; The Netherlands Brain Bank, ; Brinkmalm, G.; Wennstrom, M.

10.1101/2025.02.17.638688 — neuroscience — Posted on 2025-06-06

4404 Metabolic reprogramming and altered ATP content impair neuroprotective functions of microglia in β-glucocerebrosidase deficiency models

Brunialti, E.; Villa, A.; Szego, E. M.; La Vitola, P.; Drago, D.; Pavlovic, R.; Fontana, L.; Tuna, D.; Panzeri, A.; Meda, C.; Rondinone, O.; Pitasi, M.; Miozzo, M.; Andolfo, A.; Di Monte, D. A.; Ciana, P.

10.1101/2025.05.26.656111 — neuroscience — Posted on 2025-06-06

4405 An open-source co-adaptive training framework to improve performance during fMRI decoded neurofeedback

Abdennour, N.; Margolles, P.; Soto, D.

10.1101/2025.02.21.639408 — neuroscience — Posted on 2025-06-06

4406 CAN TRANSFER LEARNING IMPROVE SUPERVISED SEGMENTATIONOF WHITE MATTER BUNDLES IN GLIOMA PATIENTS?

Riccardi, C.; Ghezzi, S.; Amorosino, G.; Zigiotto, L.; Sarubbo, S.; Jovicich, J.; Avesani, P.

10.1101/2023.07.31.551318 — neuroscience — Posted on 2025-06-06

4407 Two routes from the Fertile Crescent led to the introduction of common vetch into Europe.

Xi, H.; Llamas, B.; Nguyen, V.; Li, M.; Zhou, Q.; Liu, Z.; Searle, I. R.

10.1101/2025.06.02.657542 — plant biology — Posted on 2025-06-06

4408 BEHAV3D Tumor Profiler to map heterogeneous cancer cell behavior in the tumor microenvironment

Rios-Jimenez, E.; Zomer, A.; Collot, R.; Barrera Roman, M.; Ariese, H.; L. van Ineveld, R.; Kleinnijenhuis, M.; Bessler, N.; Johnson, H.; Dawson, C.; Rios, A.; Alieva, M.

10.1101/2024.08.23.609358 — cancer biology — Posted on 2025-06-06

4409 Tissue-like compression stiffening in biopolymer networks induced by aggregated and irregularly shaped inclusions

Shi, X.; Shivers, J. L.; MacKintosh, F. C.; Janmey, P. A.

10.1101/2025.06.02.657447 — biophysics — Posted on 2025-06-06

4410 OriGene: A Self-Evolving Virtual Disease Biologist Automating Therapeutic Target Discovery

Zhang, Z.; Qiu, Z.; Wu, Y.; Li, S.; Wang, D.; Zhou, Z.; An, D.; Chen, Y.; Li, Y.; Wang, Y.; Ou, C.; Wang, Z.; Chen, J. X.; Zhang, B.; Hu, Y.; Zhang, W.; Wei, Z.; Ma, R.; Liu, Q.; Dong, B.; He, Y.; Feng, Q.; Bai, L.; Gao, Q.; Sun, S.; Zheng, S.

10.1101/2025.06.03.657658 — bioinformatics — Posted on 2025-06-06

4411 Amira: detection of AMR genes directly from long reads using gene-space de Bruijn graphs

Anderson, D.; Lima, L.; Le, T.; Judd, L. M.; Wick, R. R.; Iqbal, Z.

10.1101/2025.05.16.654303 — bioinformatics — Posted on 2025-06-06

4412 Development of a PEGylated Parylene Nanopocket Membrane for the Capture and Release of Lipid Vesicles

Alsudais, M.; Petersen, K.; Hosseinifakhr, A.; Frasch, L.; Gholizadeh, S.; Dehghani, M.; Gaborski, T. R.

10.1101/2025.06.02.657433 — bioengineering — Posted on 2025-06-06

4413 Comparison of a computer vision model to a human observer in detecting African mammals in camera trap images within a safari park

Davies Walsh, N.; Chalmers, C.; Fergus, P.; Longmore, S.; Johnson, B.; Wich, S.

10.1101/2025.06.02.656988 — animal behavior and cognition — Posted on 2025-06-06

4414 Variation in genome architecture and epigenetic modification across the microsporidia phylogeny

Angst, P.; Ebert, D.; Fields, P. D.

10.1101/2025.01.20.633886 — evolutionary biology — Posted on 2025-06-06

4415 TGF-beta coordinates changes in Keratin gene expression during complex tissue regeneration.

Meshram, D. D.; Liu, Y.; Worth, M.; Zhang, C.; Carney, T. J.; Roehl, H. H.

10.1101/2025.06.02.657343 — developmental biology — Posted on 2025-06-06

4416 Possible exposure to unidentified coronaviruses in roe deer (Capreolus capreolus) populations suggested by SARS-CoV-2 serological investigation in France

10.1101/2025.02.19.639030 — immunology — Posted on 2025-06-06

4417 c-Myc inhibits macrophage antimycobacterial response in Mycobacterium tuberculosis infection

Sarti, E.; Dolle, C.; Wolfensberger, R.; Kusejko, K.; Russenberger, D.; Bredl, S.; Speck, R. F.; Greter, M.; Rueschoff, J. H.; Boeck, L.; Mai, D.; Diercks, A. H.; Sander, P.; Olson, G. S.; Nemeth, J.

10.1101/2025.01.09.632095 — immunology — Posted on 2025-06-06

4418 Interindividual variations in peak alpha frequency do not predict the magnitude or extent of secondary hyperalgesia induced by high-frequency stimulation

Lebrun, L.; Ricci, G.; Courtin, A. S.; van den Broeke, E. N.; Lenoir, C.; Mouraux, A.

10.1101/2025.06.02.657417 — neuroscience — Posted on 2025-06-06

4419 Endophytes induce systemic spatial reprogramming of metabolism in poplar roots under drought

Aufrecht, J. A.; Velickovic, D.; Tournay, R.; Couvillion, S. P.; Balasubramanian, V. K.; Winkler, T.; Herrera, D.; Stanley, R.; Doty, S.; Ahkami, A. H.

10.1101/2025.06.02.657501 — plant biology — Posted on 2025-06-06

4420 The architecture of resilience: a genome assembly of Myrothamnus flabellifolia sheds light on desiccation tolerance and sex determination

Marks, R.; Lovell, J. T.; Carey, S. B.; Van Der Pas, L.; Chimukuche, N. M.; Bruna, T.; Plott, C.; Webber, J.; Lipzen, A.; Yan, J.; Bauer, D.; Bentley, J.; Talag, J.; Barry, K.; Grimwood, J.; Jenkins, J. W.; Schmutz, J.; Harkess, A.; VanBuren, R.; Leebens-Mack, J.; Farrant, J. M.

10.1101/2025.06.02.657439 — plant biology — Posted on 2025-06-06

4421 New alleles of Arabidopsis BIK1 reinforce its predominant role in pattern-triggered immunity and caution interpretations of other reported functions

Song, B.; Choi, S.; Kong, L.; Kim, S.-I.; Fliegmann, J.; Li, X.; DeFalco, T. A.; Hu, M.; Li, M.; Zhao, Y.; Wang, H.; Shan, L.; Nuernberger, T.; He, P.; zipfel, c.; Zhou, J.-M.

10.1101/2025.06.02.657414 — plant biology — Posted on 2025-06-06

4422 A myosin hypertrophic cardiomyopathy mutation disrupts the super-relaxed state and boosts contractility by enhanced actin attachment

Cail, R. C.; Barua, B.; Baez-Cruz, F. A.; Winkelmann, D. A.; Goldman, Y. E.; Ostap, E. M.

10.1101/2025.06.02.657466 — biophysics — Posted on 2025-06-06

4423 A High-Throughput, Flow Cytometry Approach to Measure Phase Behavior and Exchange in Biomolecular Condensates

He, Y.; Ongwae, G. M.; Mondal, A.; Mittal, J.; Pires, M.

10.1101/2025.06.02.657082 — biophysics — Posted on 2025-06-06

4424 Optimization of functional genetics tools for a model tetraploid Capsella bursa-pastoris, with focus on homoeolog-aware gene editing

Omelchenko, D. O.; Anastasia, B. M.; Omelchenko, L. V.; Klepikova, A. V.; Penin, A. A.; Logacheva, M. D.

10.1101/2025.06.02.657020 — bioengineering — Posted on 2025-06-06

4425 A closed feedback between tissue phase transitions and morphogen gradients drives patterning dynamics

Autorino, C.; Khoromskaia, D.; Harari, L.; Floris, E.; Booth, H.; Pallares-Cartes, C.; Petrasiunaite, V.; Dorrity, M.; Corominas-Murtra, B.; Hadjivasiliou, Z.; Petridou, N.

10.1101/2025.06.06.658228 — developmental biology — Posted on 2025-06-06

4426 In vivo nuclear envelope adaptation during cell migration across confining embryonic tissue environments

Haekkinen, H.-M.; Villaseca, S.; Alhashem, Z.; Chomiczewski, S.; Desevedavy, M.; Leleux, S.; Hamidzadeh, A.; Gallo, F.; El-Zohiry, D.; Petre, V. G.; Scarpa, E.

10.1101/2025.06.05.658077 — developmental biology — Posted on 2025-06-06

4427 Global profiling of the proteome and acetylome in mice with abdominal aortic aneurysms

Yang, J.; Zhang, L.; Yang, B.; Ding, T.; Zhao, Y.; Yang, Y.; Tang, X.; Wu, Y.; Wang, Q.; Zhang, Z.; Shi, C.; Han, R.; Zhang, X.; Liu, J.

10.1101/2025.06.02.657536 — bioinformatics — Posted on 2025-06-06

4428 The effects of intense light on Caenorhabditis elegans.

Kniazeva, M.; Ruvkun, G.

10.1101/2025.06.05.658132 — developmental biology — Posted on 2025-06-06

4429 A window of cell cycle plasticity enables imperfect regeneration of an adult postmitotic organ in Drosophila

Ramesh, N. A.; Buttitta, L.

10.1101/2025.06.05.658044 — developmental biology — Posted on 2025-06-06

4430 Functional redundancy in Oxa1-family insertases supports robust membrane insertion of influenza A virus M2 viroporin

Diwo, C.; Alenquer, M.; Zhou, S.; Digard, P.; Adrain, C.; Amorim, M. J.

10.1101/2025.06.05.658076 — cell biology — Posted on 2025-06-06

4431 Membrane association prevents premature degradation and mitigates inefficient biogenesis of suboptimal membrane proteins

Diwo, C.; Alenquer, M.; Adrain, C.; Amorim, M. J.

10.1101/2025.06.05.658084 — cell biology — Posted on 2025-06-06

4432 Cardiac fibroblasts counterbalance cardiomyocytes in LMNA cardiomyopathy pathogenesis

Sikder, K.; Phillips, E.; Bouhrira, N.; Mothy, D.; Wang, N.; Bonne, G.; Margulies, K. B.; Choi, J. C.

10.1101/2025.06.05.657412 — cell biology — Posted on 2025-06-06

4433 Wolbachia induces host cell identity changes and determines symbiotic fate in Drosophila

Jacobs, J.; Mirchandani, C. D.; Seligmann, W. E.; Sacco, S.; Escalona, M.; Green, R. E.; Russell, S.

10.1101/2025.06.05.658111 — cell biology — Posted on 2025-06-06

4434 Stem Cell Secretomes from Surgical Waste: A Novel Approach to Cancer Therapy : An In Vitro Study

verma, v. k.; Beevi, S. S.; Panchal, N. K.; Reddy, K. S.; Darapuneni, R. C.

10.1101/2025.06.05.656255 — cell biology — Posted on 2025-06-06

4435 ezscore-f: A Set of Freely Available, Validated Sleep Stage Classifiers for Forehead EEG

Coon, W. G.; Zerr, P.; Milsap, G.; Sikder, N.; Smith, M.; Dresler, M.; Reid, M.

10.1101/2025.06.02.657451 — neuroscience — Posted on 2025-06-06

4436 Characterization of FLOWERING LOCUS T related genes and their putative gene regulatory network in semi-winter Brassica napus cultivar Zhongshaung11

Wang, J.; Zhou, H.-R.; Taenzler, P.; Ding, N.; Wang, J.; Turck, F. K.

10.1101/2024.11.13.623477 — plant biology — Posted on 2025-06-06

4437 The microRNA regulatory landscape of skeletal muscle-derived extracellular vesicles

Kawamoto, Y.; Yamaguchi, A.; Ma, X.; Fujino, H.; Maeshige, N.

10.1101/2025.06.02.657546 — physiology — Posted on 2025-06-06

4438 Modelling medulloblastoma pathogenesis and treatment in human cerebellar organoids.

Willott, T. O.; Nicholson, J. G.; Xiao, Y.; Ogunbiyi, O. K.; Draper, B.; Mistry, T.; Donovan, L.; Zabet, N. R.; Merve, A.; Badodi, S.; Marino, S.

10.1101/2024.08.14.607977 — cancer biology — Posted on 2025-06-06

4439 sCIN: A Contrastive Learning Framework for Single-Cell Multi-omics Data Integration

Ebrahimi, A.; Siahpirani, A. F.; Montazeri, H.

10.1101/2025.02.03.636095 — bioinformatics — Posted on 2025-06-06

4440 A photostable genetically encoded voltage indicator for imaging neural activities in tissue and live animals

Cao, C.; Zhu, R.; Zhou, S.; Zhao, Z.; Lin, C.; Liu, S.; Peng, L.; Subach, F. V.; Piatkevich, K. D.; Zou, P.

10.1101/2025.05.29.656768 — bioengineering — Posted on 2025-06-06

4441 Plug-and-Play automated behavioral tracking of zebrafish larvae with DeepLabCut and SLEAP: pre-trained networks and datasets of annotated poses

Scholz, L. A.; Mancienne, T. G.; Stednitz, S. J.; Scott, E. K.; Lee, C. C. Y.

10.1101/2025.06.04.657938 — animal behavior and cognition — Posted on 2025-06-06

4442 A high-quality reference genome for the Ural Owl (Strix uralensis) enables investigations of cell cultures as a genomic resource for endangered species

Chrysostomakis, I.; Mozer, A.; Bruno Di-Nizo, C.; Fischer, D.; Sargheini, N.; von der Mark, L.; Huettel, B.; Astrin, J. J.; Toepfer, T.; Boehne, A.

10.1101/2025.01.22.633903 — genomics — Posted on 2025-06-06

4443 Comprehensive molecular impact mapping of common and rare variants at GWAS loci

Balderson, B.; Tule, S.; Okino, M.-L.; Rieger, W. J.; Corban, S.; Jaureguy, J.; Palpant, N.; Gaulton, K. J.; Boden, M.; McVicker, G.

10.1101/2025.06.05.658079 — genetics — Posted on 2025-06-06

4444 Complex genetic determinism of male-fertility restoration in the gynodioecious snail Physa acuta

Skarlou, E.; Laugier, F.; Bethune, K.; Chenin, T.; Donnay, J.-M.; Froissard, C.; David, P.

10.1101/2024.08.08.607164 — evolutionary biology — Posted on 2025-06-06

4445 Mechanical force locally damages, remodels and stabilizes the lattice of spindle microtubules

Rux, C. J.; Chong, M. K.; Myers, S.; Cho, N. H.; Dumont, S.

10.1101/2025.06.05.657915 — cell biology — Posted on 2025-06-06

4446 A distinct phase of cyclin B (Cdc13) nuclear export at mitotic entry in S. pombe

Chethan, S. G.; Rogers, J. M.; Vijayakumari, D.; Williams, W.; Gligorovski, V.; Rahi, S. J.; Hauf, S.

10.1101/2025.06.05.658100 — cell biology — Posted on 2025-06-06

4447 In-vivo dendrite injury drives local mitochondrial contraction and dendrite branching

Hwu, P. T.; Kim, L. A.; Wood, M. A.; Thompson-Peer, K. L.

10.1101/2025.06.05.658131 — cell biology — Posted on 2025-06-06

4448 Homeorhetic regulation of cellular phenotype

Yadav, M.; Koch, D.; Koseska, A.

10.1101/2025.06.06.658216 — cell biology — Posted on 2025-06-06

4449 A single factor for safer cellular rejuvenation

de Lima Camillo, L. P.; Gam, R.; Maskalenka, K.; LeBlanc, F. J.; Urrutia, G. A.; Mejia, G. M.; Miller, H. E.; Wardlaw, C. P.; Pickles, A.; Everton, L.; Zaksauskaite, R.; Khan, R. B.; Welsh, A.; Gambo, S.; Gallardo, S.; Oliynyk, Z.; Varankar, S. S.; Epstein, A. E.; Bendall, A.; Mowatt, J.; Ives, D.; Swain, B. M.

10.1101/2025.06.05.657370 — cell biology — Posted on 2025-06-06

4450 Oxidative DNA Damage Drives Apoptotic Photoreceptor Loss in NMNAT1-Associated Inherited Retinal Degeneration: A Therapeutic Opportunity

Zhang, H.; Valestil, K.; Pierce, E. A.

10.1101/2025.06.05.658162 — cell biology — Posted on 2025-06-06

4451 Isolation of a nanobody specific to the PstS-1 protein and evaluation of its immunoreactivity with structural components of Mycobacterium tuberculosis granuloma

Dhekale, Y. P.; Jothivel, K.; Ghorui, S. K.; Gupta, G. D.; Singh, S.; Baghel, N. S.; Kulkarni, S.; Gupta, P. K.

10.1101/2025.06.05.658172 — microbiology — Posted on 2025-06-06

4452 Phage intervention improves colitis and response to corticosteroids by attenuating virulence of Crohn's disease-associated bacteria

Jackson, K.; Galipeau, H.; Hann, A.; Constante, M.; Zangara, M.; Bording-Jorgensen, M.; Fuentes, A.; Ho, H.; Wang, J.; Shimbori, C.; Moayyedi, P.; Surette, M. G.; Bercik, P.; Coombes, B.; Hosseinidoust, Z.; Verdu, E. F.

10.1101/2025.06.05.658057 — microbiology — Posted on 2025-06-06

4453 Ultra-high field strength electroporation enables efficient DNA transformation and genome editing in nontuberculous mycobacteria

Tang, D.; Wang, M.-G.; Wang, D.; Yang, D.; Cai, Y.; Luo, T.; He, J.-q.; Wang, Q.

10.1101/2025.06.04.657955 — microbiology — Posted on 2025-06-06

4454 Unipolar polysaccharide-mediated attachment of the N2O-reducing bacterium Bradyrhizobium ottawaense SG09 to plant roots.

Takeguchi, Y.; Shibuya, R.; Kondo, M.; Betsuyaku, E.; Itakura, M.; Minamisawa, K.; Sugawara, M.; Betsuyaku, S.

10.1101/2025.06.05.658015 — microbiology — Posted on 2025-06-06

4455 Establishment of an antimetabolite-based transformation system for the wood-decaying basidiomycete Phanerochaete chrysosporium

Masumoto, K.; Banko, P.; Yamamoto, A.; Miwa, K.; Hori, C.

10.1101/2025.06.05.658208 — microbiology — Posted on 2025-06-06

4456 Bidirectional modulation of accumbens dopamine by MCH neurons during learning and consummatory behavior

Potter, L. E.; Toth, B. A.; Manna, J.; Lyons, H. C.; Evans, J. R.; Burgess, C. R.

10.1101/2025.06.05.658170 — neuroscience — Posted on 2025-06-06

4457 Dendritic inhibition terminates plateau potentials in CA1 pyramidal neurons

Vaasjo, L. O.; Kotermanski, S. E.; Patel, T.; Shi, H. J.; Machold, R.; Chamberland, S.

10.1101/2025.06.05.657434 — neuroscience — Posted on 2025-06-06

4458 Simultaneous cortical responses to multiple written words

Chauhan, V. S.; McCook, K.; Latif, M.; White, A. L.

10.1101/2025.06.05.658099 — neuroscience — Posted on 2025-06-06

4459 Two time scales of adaptation in human learning rates

Simoens, J.; Braem, S.; Verbeke, P.; Chen, H.; Mattioni, S.; Chai, M.; Schuck, N. W.; Verguts, T.

10.1101/2025.06.05.658048 — neuroscience — Posted on 2025-06-06

4460 Widespread cortical representations of innate behaviors in the mouse

Michelson, N. J.; Gupta, P. K.; Murphy, T. H.

10.1101/2025.06.05.657711 — neuroscience — Posted on 2025-06-06

4461 Estrogen profiling in blood and brain: effects of season and an aggressive interaction in a songbird

Jalabert, C.; Liu, M. Q.; Soma, K.

10.1101/2025.06.05.658188 — neuroscience — Posted on 2025-06-06

4462 Neurogenesis-dependent transformation of hippocampal memory traces during systems consolidation

Golbabaei, A.; Coelho, C. A. O.; de Snoo, M.; Josselyn, S.; Frankland, P.

10.1101/2025.06.05.658072 — neuroscience — Posted on 2025-06-06

4463 Extracellular Vesicles from Multiple Sclerosis White Matter Exhibit Synaptic, Mitochondrial, Complement, and Aging-related Pathway Dysregulation

Jank, L.; Satheesh Kumar, M. K.; Ryu, T.; Thapa, R.; Gololobova, O.; Niepokny, T.; Calabresi, P. A.; Witwer, K. W.; Dutta, R.; Na, C. H.; Bhargava, P.

10.1101/2025.06.02.657509 — neuroscience — Posted on 2025-06-06

4464 Heritable Large Deletions Using Type I-E CRISPR-Cas3 in Rice

Saika, H.; Hara, N.; Yasumoto, S.; Muranaka, T.; Yoshimi, K.; Mashimo, T.; Toki, S.

10.1101/2025.06.05.658196 — plant biology — Posted on 2025-06-06

4465 aNy-way ICA and its application to estimate cortico-thalamo-cerebellar functional links in schizophrenia

Duan, K.; Silva, R. F.; Rahaman, M. A.; Fu, Z.; Liu, J.; Kochunov, P.; van Erp, T. G. M.; Shultz, S.; Calhoun, V. D.

10.1101/2025.06.02.657541 — neuroscience — Posted on 2025-06-06

4466 Regulators of Interferon-Responsive Microglia Uncovered by Genome-wide CRISPRi Screening

McQuade, A.; Castillo, V. C.; Hagan, V.; Liang, W.; Ta, T.; Mishra, R.; Teter, O.; Teyssier, N.; Leng, K.; Kampmann, M.

10.1101/2025.06.05.658176 — neuroscience — Posted on 2025-06-06

4467 Neural coding of spectrotemporal modulations in the auditory cortex supports speech and music categorization

Ginzburg, J.; Debaque, E. C.; Borderie, A.; Morillon, B.; Martineau, L.; Bonaventure, P. L.; Albouy, P.; Zatorre, R.

10.1101/2025.06.05.657930 — neuroscience — Posted on 2025-06-06

4468 Working memory modulates auditory perceptual sensitivity during speech planning

Merrikhi, Y.; Daliri, A.

10.1101/2025.06.05.658114 — neuroscience — Posted on 2025-06-06

4469 Increasing Stemness Drives Prostate Cancer Progression, Plasticity, Therapy Resistance and Poor Patient Survival

Liu, X.; Cortes, E.; Ji, Y.; Zhao, K.; Ho, J.; Liu, Y. S.; Davicioni, E.; Feng, F. Y.; Alumkal, J. J.; Spratt, D. E.; Sweeney, C. J.; Yu, H.; Hu, Q.; Cheng, Z.; Zhang, D.; Chatta, G.; Nastiuk, K. L.; Goodrich, D. W.; Rycaj, K.; Jamroze, A.; Kirk, J. S.; Puzanov, I.; Liu, S.; Wang, J.; Tang, D. G.

10.1101/2025.04.27.650697 — cancer biology — Posted on 2025-06-06

4470 Molecular Dynamics Reveal Base Flipping as a Key Mechanism in Tc3a Transposase DNA Recognition

Watkins, S. L.; Nakaya, H. I.

10.1101/2025.03.27.645863 — biochemistry — Posted on 2025-06-06

4471 Fentanyl reinforcement history has sex-specific effects on multi-step decision-making

Garr, E.; Cheng, Y.; Dong, A.; Janak, P. H.

10.1101/2024.10.10.617707 — animal behavior and cognition — Posted on 2025-06-05

4472 Pervasive Horizontal Transfer of Adeno-Associated Virus Capsid Genes.

Gifford, R. J.

10.1101/2025.03.15.643461 — evolutionary biology — Posted on 2025-06-06

4473 Spontaneous cell morphogenesis via self-propelled actin filaments

Yagami, K.; Baba, K.; Minegishi, T.; Misu, S.; Katsuno-Kambe, H.; Okano, K.; Sakumura, Y.; Hosokawa, Y.; Inagaki, N.

10.1101/2024.02.28.582450 — cell biology — Posted on 2025-06-06

4474 Towards Unified Neural Decoding with Brain Functional Network Modeling

Wu, D.; Bu, L.; Jia, Y.; Cao, L.; Li, S.; Zhou, Y.; Fan, S.; Ren, W.; Wu, D.; Wang, K.; Zhang, Y.; Ma, Y.; Yang, J.; Sawan, M.

10.1101/2025.06.02.657011 — neuroscience — Posted on 2025-06-05

4475 Task-related changes in aperiodic activity are related to visual working memory capacity independent of event-related potentials and alpha oscillations

Virtue-Griffiths, S. E.; Fornito, A.; Thompson, S.; Biabani, M.; Tiego, J.; Thapa, T.; Rogasch, N. C.

10.1101/2022.01.18.476852 — neuroscience — Posted on 2025-06-05

4476 Phosphoproteome modifications and cortical circuit dysfunction are linked to the early-stage progression of alpha-synuclein aggregation.

Dutta, S.; Hensel, J.; Scott, A.; Mohallem, R.; Rossitto, L.-A. M.; Khan, H. F.; Johnson, T.; Ferreira, C. R.; Diehl, L. A.; Marmolejo, J. F.; Chen, X.; Jayant, K.; Aryal, U. K.; Volpicelli-Daley, L.; Rochet, C.

10.1101/2025.01.24.634820 — neuroscience — Posted on 2025-06-06

4477 A continuous landscape of signaling encodes a corresponding landscape of CAR T cell phenotype

Cho, W.; Liu, J. Y.; Beckett, A. N.; Lunger, J. C.; Xu, P.; Ho, K.; Chen, E. E.; Salcido-Alcantar, A.; Sant'Anna, L. E.; Obbad, K.; Po, N.; Sotillo, E.; Mackall, C. L.; Daniels, K. G.

10.1101/2025.06.05.658149 — synthetic biology — Posted on 2025-06-05

4478 Non-Invasive Mechanical-Functional Analysis of Individual Liver Mitochondria by Atomic Force Microscopy

Zorikova, E. O.; Chourasia, S.; Rosenhek-Goldian, I.; Cohen, S. R.; Nesterov, S. V.; Gross, A.

10.1101/2025.06.01.657242 — biophysics — Posted on 2025-06-05

4479 A ggplot-based single-gene viewer reveals insights into the translatome and other nucleotide-resolution omics data

Wu, H.-Y. L.; Kaufman, I. D.; Hsu, P. Y.

10.1101/2025.01.30.635743 — bioinformatics — Posted on 2025-06-05

4480 De novo design of miniprotein agonists and antagonists targeting G protein-coupled receptors

Muratspahic, E.; Feldman, D.; Kim, D. E.; Qu, X.; Bratovianu, A.-M.; Rivera-Sanchez, P.; Dimitri, F.; Cao, J.; Cary, B. P.; Belousoff, M. J.; Keov, P.; Chen, Q.; Ren, Y.; Fine, J.; Sappington, I.; Schlichthaerle, T.; Zhang, J. Z.; Pillai, A.; Mihaljevic, L.; Bauer, M.; Torres, S. V.; Motmaen, A.; Lee, G. R.; Tran, L.; Wang, X.; Goreshnik, I.; Vafeados, D. K.; Svendsen, J. E.; Hosseinzadeh, P.; Lindegaard, N.; Brandt, M.; Waltenspühl, Y.; Deibler, K.; Oostdyk, L.; Cao, W.; Anantharaman, L.; Stewart, L.; Halloran, L.; Spangler, J. B.; Sexton, P. M.; Roth, B. L.; Krumm, B. E.; Wootten, D.; Tate,

10.1101/2025.03.23.644666 — bioengineering — Posted on 2025-06-05

4481 Deciphering the thiolactonization mechanism in thiolactomycin biosynthesis

Guo, J.; Zhang, Q.; Shen, Y.; Cheng, F.; Sang, M.; Wang, X.; Pan, Y.; Liu, M.; Yu, H.-B.; Hu, B.; Wang, S.; Zheng, L.; Geng, C.; Yang, C.; Luo, L.; Zhang, G.; Du, L.; Li, Y.; Zhang, W.; Zhang, Y.; Wang, B.; Li, S.; Zhang, X.

10.1101/2024.12.18.629141 — biochemistry — Posted on 2025-06-05

4482 Eph Receptor Tyrosine Kinases Are Functional Entry Receptors for Murine Gammaherpesvirus 68

Grosskopf, A. K.; Tobiasson, V.; Krug, L. T.

10.1101/2025.06.05.657996 — microbiology — Posted on 2025-06-05

4483 Inhalable Perfluorocarbon Nanocapsules for RNA-based Immunotherapeutic Treatment of Lung Metastases

10.1101/2025.06.05.658088 — bioengineering — Posted on 2025-06-05

4484 Aromatic Patch in WhiB-Like Transcription Factors Facilitates Primary Sigma Factor Interaction in Mycobacterium tuberculosis

Beltran, D. G.; Wan, T.; Seravalli, J.; Horova, M.; Jones, C.; Li, S.; Ma, P.; Becker, D.; Mower, J. P.; Yao, Q.; Pan, Y.; Yu, H.; Steyn, A. J.; Zhang, L.

10.1101/2025.06.05.653497 — biochemistry — Posted on 2025-06-05

4485 Changes in biophysical characteristics of YghA from E. coli due to variation in pH

Hasan, N.; Jilani, S. B.; Saeed, S.; Stoner, M. R.; Yazdani, S. S.; Choi, Y.; Khan, R. H.

10.1101/2025.06.05.657471 — biochemistry — Posted on 2025-06-05

4486 HSP90α is specifically required for rod photoreceptor function and cannot be replaced by HSP90β.

Hoda, J.; Aliff, H.; Deng, W.-T.; Ramamurthy, V.

10.1101/2025.06.05.657739 — biochemistry — Posted on 2025-06-05

4487 GENERanno: A Genomic Foundation Model for Metagenomic Annotation

Li, Q.; Wu, W.; Zhu, Y.; Feng, F.; Ye, J.; Wang, Z.

10.1101/2025.06.04.656517 — genomics — Posted on 2025-06-05

4488 Establishing a DNA reference library for the identification of elasmobranchs in the Indian Ocean using Oxford Nanopore Sequencing

Anjani, L.; Tanna, A.; Humble, E.; Sandamalika, G.; Johri, S.; Fernando, D.

10.1101/2025.06.03.657733 — genetics — Posted on 2025-06-05

4489 Transcriptome-wide RNA accessibility mapping reveals structured RNA elements and pervasive conformational rearrangements under stress

Farenhem, K.; Whitfield, T. W.; Chouloute, A.; Jain, A.

10.1101/2025.06.05.658101 — molecular biology — Posted on 2025-06-05

4490 RNA structure directs RNA partitioning and is actively disrupted inside stress granules to enable cellular recovery

Zhu, B.; Lim, J. J. A.; Zhang, Y.; Tan, W. T.; Zhang, J.; Xiang, J. S. N.; Huber, R.; Khong, A.; Wan, Y.

10.1101/2025.06.05.658090 — molecular biology — Posted on 2025-06-05

4491 Intratumoral microbiota-derived S1P sensitizes the combination therapy of Capecitabine and Nivolumab

Dai, C.; Pan, S.; Qi, T.; Shang, H.; Xie, R.; Liu, H.; Liu, Z.; Cui, Y.; Zhang, Y.

10.1101/2025.06.05.658030 — microbiology — Posted on 2025-06-05

4492 A new component of the DNA damage response biofilm axis is a TetR-like DNA damage response regulator in Acinetobacter baumannii

Nguyen, B.; Soo, M. W.; Antunez Tierney, G.; Amorelli, E. A.; Herlihy, A. L.; Godoy, V. G.

10.1101/2025.06.05.658052 — microbiology — Posted on 2025-06-05

4493 Growth of Paracoccus aminovorans is restricted by L-ascorbic acid (LA) and human gut isolate

Heer, K.; Kayet, P.; Sharma, N.; Basak, S.; Raychaudhuri, S.

10.1101/2025.06.04.657967 — microbiology — Posted on 2025-06-05

4494 Loratadine decreases virulence of methicillin-resistant Staphylococcus aureus by widespread disruption of hemolysis in both Stk1-dependent and -independent fashions

Marshall, I.; Henkel, M.; Balogh, H.; Stempel, R.; Monge, E. R.; Valenzano, G. Z.; Blackledge, M. S.; Miller, H. B.

10.1101/2025.06.05.657702 — microbiology — Posted on 2025-06-05

4495 Differential roles of the type I and II secretion systems for the intracellular ABC141 Acinetobacter baumannii infection, which elicits an atypical hypoxia response in endothelial cells

Debruyne, C.; Hodge, L.; Hokamp, K.; Ershova, A. S.; Kröger, C.; Salcedo, S. P.

10.1101/2025.06.05.658002 — microbiology — Posted on 2025-06-05

4496 A continuous landscape of signaling encodes a corresponding landscape of CAR T cell phenotype

Cho, W.; Liu, J. Y.; Beckett, A. N.; Lunger, J. C.; Xu, P.; Ho, K.; Chen, E. E.; Salcido-Alcantar, A.; Sant'Anna, L. E.; Obbad, K.; Po, N.; Sotillo, E.; Mackall, C. L.; Daniels, K. G.

10.1101/2025.06.05.658149 — synthetic biology — Posted on 2025-06-05

4497 An experimentally verified mechanistic model for predicting quorum sensing-based switches

De Baets, J.; De Paepe, B.; De Mey, M.

10.1101/2025.06.05.658036 — synthetic biology — Posted on 2025-06-05

4498 Prevalence of dual-donating amines in key regions of functional RNAs

Veenis, A. J.; Saon, M. S.; Bevilacqua, P. C.

10.1101/2025.06.05.658080 — bioinformatics — Posted on 2025-06-05

4499 Correlating membrane-protein dynamics with function: Integrating bioinformatics, molecular dynamics, and single-molecule FRET

Higinbotham, H. R.; Arbour, C. A.; Imperiali, B.

10.1101/2025.06.05.658054 — biochemistry — Posted on 2025-06-05

4500 The Immunophenotype and Proviral Landscape of HIV-infected CD4 T Cells During Antiretroviral Therapy

Delley, C. L.; Shah, S.; Joslin, K. M.; Park, Y. P.; Busch, M. P.; Stone, M.; Demaree, B.; Deeks, S. G.; Boritz, E. A.; Abate, A. R.; Clark, I. C.

10.1101/2025.06.05.657210 — genomics — Posted on 2025-06-05

4501 IL-6 Evades KSHV-Mediated Hyperadenylation repression via CRM1-Dependent Nuclear Export.

Schultz, S.; Miles, J.; Dwyer, W.; MacVeigh-Fierro, D.; Muller, M.

10.1101/2025.06.05.657986 — microbiology — Posted on 2025-06-05

4502 Early Candida - Oral Tumor Interactions Suggest miRNA-Mediated Regulation of Inflammatory and Tumor-associated processes

Toth, R.; Horvath, M.; Naglik, J. R.; Gacser, A.

10.1101/2025.06.05.657835 — microbiology — Posted on 2025-06-05

4503 Evaluation of Enterobacterales carrying Acinetobacter-associated blaOXA genes--United States, 2017-2022

Orazi, G.; Kent, A. G.; Wilmott, N.; Berhe, D.; Longo, C.; Bumpus-White, P.; Rutledge, D.; Hovan, G.; Villegas Correa, I. M.; Otero Pagan, I.; Coe, P.; Therrien, M.; Bhatnagar, A.; McKay, S. L.; Brown, A. C.; Laufer Halpin, A.; Sabour, S.

10.1101/2025.06.05.655513 — microbiology — Posted on 2025-06-05

4504 Structural analysis of the NifL-NifA complex reveals the molecular basis of anti-activation of nitrogen fixation gene expression in Azotobacter vinelandii

Batista, M. B.; Richardson, J.; Webster, M. W.; Ghilarov, D.; Peters, J. W.; Lawson, D. M.; Dixon, R.

10.1101/2025.06.05.658055 — microbiology — Posted on 2025-06-05

4505 Training-induced alterations in the modulation of human motoneuron discharge patterns with contraction force

Skarabot, J.; Thomason, H.; Nazaroff, B. M.; Connelly, C. D.; Valencic, T.; Ho, M. L.; Tyagi, K.; Beauchamp, J. A.; Pearcey, G. E.

10.1101/2025.06.02.657380 — neuroscience — Posted on 2025-06-05

4506 Cell-surface proteomic profiling identifies CD72 as a regulator of microglial tiling

Chan, T. C.; Rastogi, M.; Williams, M. X.; Zhang, S.; Shi, S. M.; Shuken, S. R.; Bartling, T.; Wild, K.; Atkins, M.; Hahn, O.; Paulo, J. A.; Jereb, S.; Shuster, S. A.; Yoo, Y.; Napole, A.; Hernandez, V. G.; Luo, L.; Buckwalter, M. S.; Stevens, B.; Deverman, B. E.; Kronenberg-Versteeg, D.; Gygi, S. P.; Wyss-Coray, T.; Wernig, M.

10.1101/2025.06.02.657480 — neuroscience — Posted on 2025-06-05

4507 Why not both? Measuring cortisol and corticosterone in poison frogs

Westrick, S. E.; Paitz, R. T.; Fischer, E. K.

10.1101/2023.06.19.545597 — physiology — Posted on 2025-06-05

4508 A resource and computational approach for quantifying gene editing allelism at single-cell resolution

Ung, M. H.; Angelini, G.; Wang, R.; Pyclik, A.; Lydeard, J. R.; Ferrucio, J. X.; Lin, M. I.; Chakraborty, T.; Ge, H. G.

10.1101/2025.05.22.653824 — bioinformatics — Posted on 2025-06-05

4509 MBCO PathNet: Integration and visualization of networks connecting functionally related pathways predicted from transcriptomic and proteomic datasets

Hansen, J.; Iyengar, R.

10.1101/2025.02.19.638900 — bioinformatics — Posted on 2025-06-05

4510 Natural variation in phospholipase IPLA2-VIA contributes to starvation sensitivity in Drosophila melanogaster

Rand, D. M.; Williams, S. B.; Franklin, B.; Lemieux, F. A.

10.1101/2024.07.05.602254 — genetics — Posted on 2025-06-05

4511 Plasma insulin-like growth-factor 1 (IGF-1) concentrations predict early life-history traits in a wild mammal

Ravindran, S.; Corripio-Miyar, Y.; Pick, J. L.; Bal, X.; Pilkington, J. G.; Pemberton, J. M.; Nussey, D. H.; Froy, H.

10.1101/2025.06.02.656453 — ecology — Posted on 2025-06-05

4512 Mid-infrared chemical imaging of living cells enabled by plasmonic metasurfaces

Huang, S. H.; Shen, P.-T.; Mahalanabish, A.; Sartorello, G.; Li, J.; Liu, X.; Shvets, G.

10.1101/2024.09.17.613596 — cell biology — Posted on 2025-06-05

4513 Immunofocusing on the conserved fusion peptide of HIV envelope glycoprotein in rhesus macaques

Pratap, P. P.; Cottrell, C. A.; Quinn, J.; Carnathan, D. G.; Bader, D. L. V.; Tran, A. S.; Enemuo, C. A.; Ngo, J. T.; Richey, S. T.; Gao, H.; Shen, X.; Greene, K. M.; Hurtado, J.; Michaels, K. K.; Ben-Akiva, E.; Lemnios, A.; Melo, M. B.; Allen, J. D.; Ozorowski, G.; Crispin, M.; Briney, B.; Montefiori, D.; Silvestri, G.; Irvine, D. J.; Crotty, S.; Ward, A. B.

10.1101/2024.11.27.625755 — immunology — Posted on 2025-06-05

4514 PointTree: Automatic and accurate reconstruction of long-range axonal projections of single-neuron

Cai, L.; Fan, T.; Qu, X.; Zhang, Y.; Gou, X.; Ding, Q.; Feng, W.; Cao, T.; Lv, X.; Liu, X.; Huang, Q.; Quan, T.; Zeng, S.

10.1101/2024.09.23.614432 — neuroscience — Posted on 2025-06-05

4515 In situ structure of bacterial 50S ribosomes at 2.98 A resolution from vitreous sections.

Al-Amoudi, A.; Baradaran, R.; Yuan, X.; Naschberger, A.

10.1101/2025.06.03.657669 — biochemistry — Posted on 2025-06-05

4516 Algebraic invariants for inferring 4-leaf semi-directed phylogenetic networks

Martin, S.; Moulton, V.; Leggett, R. M.; Holtgrefe, N.

10.1101/2023.09.11.557152 — evolutionary biology — Posted on 2025-06-05

4517 Redistribution of fragmented mitochondria ensure symmetric organelle partitioning and faithful chromosome segregation in mitotic mouse zygotes

Gekko, H.; Nomura, R.; Kuzuhara, D.; Kaneyasu, M.; Koseki, G.; Adhikari, D.; Mio, Y.; Carroll, J.; Kono, T.; Funahashi, H.; Wakai, T.

10.1101/2024.06.13.598818 — developmental biology — Posted on 2025-06-05

4518 Novel Adomaviruses Associated with Blotchy Bass Syndrome in Black Basses (Micropterus spp.)

Iwanowicz, L. R.; Raines, C. D.; Young, K. T.; Blazer, V. S.; Walsh, H. L.; Smith, G.; Holt, C.; Odenkirk, J.; Jones, T.; Hessenauer, J.-M.; Biggs, M.; Buck, C. B.; Greer, J.; Cornman, R. S.

10.1101/2025.06.01.657292 — microbiology — Posted on 2025-06-05

4519 Characterization of Sex-Based Differences in Integrin-Mediated Endothelial Cell Adhesion to Bioactive Hydrogels

Nkansah, A.; Budhwani, A.; Grammer, N.; Ang, N.; Fairley, A.; Salazar, S. P.; Anand, A.; Yedalla, A. C.; Seidlits, S.; Allen, J.; Cosgriff-Hernandez, E.

10.1101/2025.06.02.656802 — bioengineering — Posted on 2025-06-05

4520 The impact of RNA chemical probing reagents on RNA binding proteins

Klingler, D.; Fallon, L.; Cohn, D.; Crawford, A.; Marcus, L.; Jones, A. N.

10.1101/2024.03.21.586119 — biochemistry — Posted on 2025-06-05

4521 The danger zone: the joint trap of incomplete lineage sorting and long-branch attraction in resolving the Gondwanan origin of Rafflesiaceae and Apodanthaceae

Cai, L.; Pabon-Mora, N.; Alzate, J. F.; Liu, L.; DAVIS, C. C.

10.1101/2024.08.07.606681 — evolutionary biology — Posted on 2025-06-05

4522 CBP-IDRs regulate acetylation and gene expression.

Gelder, K. L.; Carruthers, N. A.; Gilbert, G.; Harrison, L. J.; Evans, T.; Ball, S. S.; Dunning, M.; Craggs, T. D.; Twelvetrees, A. E.; Bose, D. A.

10.1101/2024.06.04.597392 — molecular biology — Posted on 2025-06-05

4523 Mutant Huntingtin exon1 protein detected in mouse brain with neoepitope antibody: effects of CAG repeat expansion, MSH3 silencing, and aggregation

Sapp, E.; Boudi, A.; Iwanowicz, A.; Belgrad, J.; Miller, R.; Robertson, R.; O'Reilly, D.; Yamada, K.; Deng, Y.; Joni, M.; Li, X.; Kegel-Gleason, K.; Khvorova, A.; Reiner, A.; Aronin, N.; DiFiglia, M.

10.1101/2024.12.31.630891 — neuroscience — Posted on 2025-06-05

4524 Endothelin B receptor inhibition rescues aging-dependent neuronal regenerative decline

Feng, R.; Rosen, S. F.; Ansari, I.; John, S.; Thomsen, M. B.; Avraham, O.; Geoffroy, C. G.; Cavalli, V.

10.1101/2024.06.08.597928 — neuroscience — Posted on 2025-06-05

4525 Inferring cell dynamics in stress-induced neuroblastoma cell cultures

Hafiichuk, K.; Hamis, S.; Karlsson, J.; Gisselsson, D.; Chattopadhyay, S.

10.1101/2025.03.17.643601 — cancer biology — Posted on 2025-06-05

4526 Making AI accessible for forensic DNA profile analysis

de Wit, A. K. J. G.; Wagenaar, C. D.; Janssen, N. A.; Hoegen, B.; van de Wetering, J.; Hoofs, H.; Ariëns, S.; Benschop, C. C.; Ypma, R. J.

10.1101/2025.06.02.656996 — bioinformatics — Posted on 2025-06-05

4527 Machine learning driven acceleration of biopharmaceutical formulation development using Excipient Prediction Software (ExPreSo)

Vidal-Henriquez, E.; Holder, T.; Lee, N. F.; Pompe, C.; Teese, M. G.

10.1101/2025.02.12.637685 — bioinformatics — Posted on 2025-06-05

4528 Mixotrophy for carbon-conserving waste upcycling

Weldon, M.; Euler, C.

10.1101/2025.02.22.639639 — bioengineering — Posted on 2025-06-05

4529 Deep learning from videography as a tool for measuring E. coli infection in poultry

Scheidwasser, N.; Poulsen, L. L.; Leow, P. R.; Khurana, M. P.; Iglesias-Carrasco, M.; Laydon, D. J.; Donnelly, C. A.; Bojesen, A. M.; Bhatt, S.; Duchene, D. A.

10.1101/2024.11.20.624075 — animal behavior and cognition — Posted on 2025-06-05

4530 Aggressive trait selection influences life-history trade-offs, favoring survival over reproductive success in Drosophila melanogaster males

Defert, A.; Gout, R.; Pennot, G.; Jamme, F.; Castex, A.; Handjar, A.; Guilleman, T.; Billeter, J.-C.; Trannoy, S.

10.1101/2025.06.02.657383 — animal behavior and cognition — Posted on 2025-06-05

4531 Shola Sky Islands Survey 2025

P, S. M.; L, R. R.; K, S. E.; K, V. C.

10.1101/2025.05.29.656751 — ecology — Posted on 2025-06-05

4532 Cell fate specification during respiratory development requires ARID1A-containing canonical BAF complex activity

Lee, H.; Jaquish, A.; Fernandes, S.; Zhao, B.; Elitz, A.; Cook, K.; Trovillion, S.; Arias, N. M. B.; Han, S.; Goodwin, S.; Russell, N.; Zacharias, A. L.; Brugmann, S. A.; Whitsett, J. A.; Sinner, D. I.; Sun, X. I.; Swarr, D. T.; Zacharias, W. J.

10.1101/2025.06.02.657302 — developmental biology — Posted on 2025-06-05

4533 Characterisation of cell-scale signalling by the core planar polarity pathway during Drosophila wing development

Carayon, A.; Strutt, H.; Strutt, D.

10.1101/2024.10.14.618159 — developmental biology — Posted on 2025-06-05

4534 C-terminal tagging, transmembrane domain hydrophobicity, and an ER retention motif influence the secretory trafficking of the inner nuclear membrane protein emerin

Mella, J.; Volk, R. F.; Zaro, B. W.; Buchwalter, A.

10.1101/2025.01.19.633811 — cell biology — Posted on 2025-06-05

4535 Novel infection by Mucor hiemalis kills Caenorhabditis hosts through intestinal perforation

Ni, J.; Sowa, J. N.

10.1101/2025.06.04.657490 — microbiology — Posted on 2025-06-04

4536 Novel infection by Mucor hiemalis kills Caenorhabditis hosts through intestinal perforation

Ni, J.; Sowa, J. N.

10.1101/2025.06.04.657490 — microbiology — Posted on 2025-06-05

4537 Perimenopause promotes neuroinflammation in select hippocampal regions in a mouse model of Alzheimers disease

Marongiu, R.; Platholi, J.; Park, L.; Yu, F.; Sommer, G.; Woods, C.; Milner, T. A.; Glass, M. J.

10.1101/2025.03.14.643317 — neuroscience — Posted on 2025-06-05

4538 Leveraging autophagy and pyrimidine metabolism to target pancreatic cancer

Dufresne, S.; Kuna, R. S.; Wong, K.; Komarla, A.; Rock, A.; Rosada-Encarnacion, J.; Shen, C.; Mondal, P.; Parham, L. R.; Layng, F. I.; Peck, K. L.; Fowler, A.; Lowy, A. M.; Engle, D.; Tiriac, H.; Shaw, R.; Cosford, N.; Metallo, C.; Towers, C. G.

10.1101/2025.05.29.656904 — cancer biology — Posted on 2025-06-05

4539 Domain-specific DNA binding activities of BRCA1 reveal substrate preferences for homologous recombination and telomere regulation

Lowran, K.; Campbell, L.; Cismas, E.; Wu, C. G.

10.1101/2024.05.30.594759 — biochemistry — Posted on 2025-06-05

4540 Two de novo transcriptome assemblies and functional annotations from juvenile cuttlefish (Sepia officinalis) under various metal and pCO2 exposure conditions

Sol Dourdin, T.; Minet, A.; Pante, E.; Lacoue-Labarthe, T.

10.1101/2025.06.03.657592 — genomics — Posted on 2025-06-05

4541 Population size estimation when multiple samples carrying the risk of misidentification are taken simultaneously from the same individual

Fraysse, R.; Choquet, R.; Pradel, R.

10.1101/2024.06.12.598605 — ecology — Posted on 2025-06-05

4542 SOX2 and SOX9 as Transcriptional Regulators of human Galectin-3 in SW1353 Cells: Potential Implications for Osteoarthritis

Alba, B.; Schmidt, S.; Kaltner, H.; Toegel, S.

10.1101/2025.06.03.657610 — molecular biology — Posted on 2025-06-05

4543 An Evaluation of the Tumor Microenvironment through CALR,IL1R1,IFNB1,and IFNG to Assess Prognosis and Immunotherapy Response in Bladder Cancer Patients

Lilong, L.; Zhenghao, L.; Lei, F.; Zhipeng, Y.; Junyi, H.; Yaxin, H.; Yang, L.; Yuhong, D.; Yingchun, K.; Ke, C.; Yi, H.; Zheng, L.

10.1101/2024.01.24.577030 — immunology — Posted on 2025-06-05

4544 Wheat - black-grass competition is a non-zero-sum game influenced by root growth

Clark, J.; Tatnell, L.; Bennett, T.

10.1101/2025.06.02.657396 — plant biology — Posted on 2025-06-05

4545 A spatial transcriptomic atlas of acute neonatal lung injury across development and disease severity

Mallapragada, S.; Lyu, R.; Williams-Katek, A. L.; Fischer, B. K.; Vannan, A.; Hadad, N.; Mee, E. D.; Shirazi, S. P.; Jetter, C. S.; Negretti, N. M.; Hilgendorff, A.; Eldredge, L. C.; Deutsch, G. H.; McCarthy, D. J.; Kropski, J. A.; Sucre, J. M. S.; Banovich, N. E.

10.1101/2025.06.02.656433 — genomics — Posted on 2025-06-05

4546 Crosslinked CXCR4 Signals Decreased Motility and Increased Adhesion of T Cells

Pearson, J.; Yang, J.-I.; Krivitsky, S.; Kelley, Z.; Fearon, D. T.

10.1101/2025.06.04.652236 — immunology — Posted on 2025-06-05

4547 Chronic benzodiazepine treatment triggers gephyrin scaffold destabilization and GABAAR subsynaptic reorganization

Chapman, C. A.; Povysheva, N.; Tarr, T. B.; Nuwer, J. L.; Meriney, S. D.; Johnson, J. W.; Jacob, T. C.

10.1101/2025.06.02.653073 — neuroscience — Posted on 2025-06-05

4548 Gamma radiation-induced molecular toxicity and effects on pluripotent stem cells of the radiosensitive conifer Norway spruce (Picea abies)

Bhattacharjee, P.; Gillard, G. B.; Hvidsten, T. R.; Sandve, S. R.; Lind, O. C.; Brede, D. A.; Olsen, J. E.

10.1101/2025.06.02.653021 — plant biology — Posted on 2025-06-05

4549 Cytokinin overcomes spikelet-driven inhibition of tillering in wheat and barley by delaying meristem development

Wakeman, A.; Bennett, T.

10.1101/2025.06.02.657399 — plant biology — Posted on 2025-06-05

4550 Environmental fluctuations trigger faster evolution and turnover

Duchen, P.; Salamin, N.; Silvestro, D.

10.1101/2025.06.04.657978 — evolutionary biology — Posted on 2025-06-05

4551 Oxytocin release modulates acute neuroinflammation and improves brain development after pediatric traumatic brain injury

Knoop, M.; Trak, E.; Possovre, M.-L.; Van de Looij, Y.; Schirmbeck, G.; Ceyzeriat, K.; Pitetti, J.-L.; Farias Sanches, E.; Musardo, S.; Millet, P.; Tsartsalis, S.; Tournier, B. B.; Bellone, C.; Sizonenko, S. V.; Jacquens, A.; Baud, O.

10.1101/2025.06.02.652172 — neuroscience — Posted on 2025-06-05

4552 Dissecting surveying behavior of reactive microglia under chronic neurodegeneration

Subhramanian, S.; Bocharova, O.; Makarava, N.; Safadi, T.; Baskakov, I. V.

10.1101/2025.06.02.657382 — neuroscience — Posted on 2025-06-05

4553 Increased circulating TREM2+ microglia extracellular vesicles in aged APP/PS1 Alzheimer's disease rats

Myers, S. J.; Allman, B. L.; Pasternak, S. H.; Whitehead, S. N.; Roseborough, A. D.

10.1101/2025.06.02.657443 — neuroscience — Posted on 2025-06-05

4554 LOSS OF ARGINASE 2 DISRUPTS STRIATUM-SPECIFIC POLYAMINE HOMEOSTASIS

Nalepa, M.; Basheer, O.; Radkiewicz, M.; Skowronska, K.; Skweres, A.; Owczarek, A.; Dalka, A.; Hilgier, W.; Zielinska, M.; Samborowska, E.; Wegrzynowicz, M.

10.1101/2025.06.02.657391 — neuroscience — Posted on 2025-06-05

4555 Learning Genetic Perturbation Effects with Variational Causal Inference

Liu, E.; Zhang, J.; Uhler, C.

10.1101/2025.06.05.657988 — bioinformatics — Posted on 2025-06-05

4556 iPSC-derived skeletal muscle spheroids for Duchenne Muscular Dystrophy modeling

Esposito, J.; Leite, F. d. S.; Barbosa, I. N.; Martins, T. M. d. M.; Olberg, G. G. d. O.; Tanoury, Z. A.; Telles-Silva, K. A.; Pardo, M. C. d. S.; Jazedje, T.; Bortolin, R. H.; Hirata, M. H.; Pourquie, O.; Zatz, M.

10.1101/2025.06.05.657880 — cell biology — Posted on 2025-06-05

4557 Dcaf17 knockdown integrates mitochondrial-lysosomal dysfunction with ferroptosis, NLRP3 inflammasome signaling and necroptosis

Alyacoub, n.; Almohanna, F.; Alqassem, A.; Awad Mahmoud, S.; Assiri, A. m.

10.1101/2025.06.04.657829 — molecular biology — Posted on 2025-06-05

4558 Group 2 Innate lymphoid cells promote allograft survival by constraining and inducing anergy in alloreactive CD4+ T cells

Ge, J.; Pan, W.; Xu, Z.; Boccia, T.; Markmann, J. F.; Zanoni, I.; Cuenca, A. G.

10.1101/2025.06.03.657622 — immunology — Posted on 2025-06-05

4559 Candida albicans infection suppresses Lipopolysaccharide or Pseudomonas aeruginosa stimulated murine bone marrow derived macrophage (BMDM) responses

Baker, C. P.; Laba, S.; Warner, J.; Shepherd, K.; Wilson, H. M.; Arthur, J. S. C.

10.1101/2025.06.05.657992 — immunology — Posted on 2025-06-05

4560 Neural Tracking of Audiovisual Effects in Noise Using Deep Neural Network-Generated Virtual Humans

Cooper, J. K.; Vanthornhout, J.; van Wieringen, A.; Francart, T.

10.1101/2025.06.02.656280 — neuroscience — Posted on 2025-06-05

4561 Brain-Penetrating Peptide and Antibody Radioligands for Proof-of-Concept PET Imaging of Fibrin in Alzheimer's Disease

Sehlin, D.; Aguilar, X.; Cortes-Canteli, M.; Syvanen, S.; Lopes van den Broek, S.

10.1101/2025.06.02.657356 — neuroscience — Posted on 2025-06-05

4562 Kv2/Kv6.4 heteromeric potassium channels are expressed in spinal motor neurons and localized at C-bouton synapses

Lacey, T.; Murray, K. D.; Trimmer, J.; Sack, J. T.; Ferns, M.

10.1101/2025.06.04.657913 — neuroscience — Posted on 2025-06-05

4563 The Cerebellum and Striatum in Reward Processing: Caring About Being Right vs. Caring About Reward

Popal, H.; Quarmley, M.; Smith, D. V.; Jarcho, J.; Olson, I. R.

10.1101/2025.06.04.657253 — neuroscience — Posted on 2025-06-05

4564 Prediction, Syntax and Semantic Grounding in the Brain and Large Language Models

Koelbl, N.; Rampp, S.; Kaltenhaeuser, M.; Tziridis, K.; Maier, A.; Kinfe, T.; Chavarriaga, R.; Krauss, P.; Schilling, A.

10.1101/2025.06.05.658007 — neuroscience — Posted on 2025-06-05

4565 Integrating Multimodal Data for a Comprehensive Knowledge Graph to Advance Infectious Disease Research

Fan, H.; Guo, L.; Li, F.; Yuan, Z.; Deng, Y.; Xiao, Y.; Li, H.; Li, S.

10.1101/2025.06.02.657361 — bioinformatics — Posted on 2025-06-05

4566 A genetically encoded bifunctional enzyme mitigates redox imbalance and lipotoxicity via engineered Gro3P-Glycerol shunt

Pan, X.; Munan, S.; Zuckerman, A. L.; Pon, A.; Violante, S.; Cross, J. R.; Shah, H.; Cracan, V.

10.1101/2025.06.02.657195 — bioengineering — Posted on 2025-06-05

4567 Pathwise approximations to solving the filtering problem for the stochastic chemostat

Fontenele Magalhaes, J. A.; Emzir, M. F.; Corona, F.

10.1101/2023.01.17.524503 — bioengineering — Posted on 2025-06-05

4568 Engineered Fluorescent Carbon Dots for Selective Cellular Bioeffects: A Comparative Study of Cancer and epithelial Cells

Kumar, A.; Yadav, P.; Bhatia, D. D.

10.1101/2025.06.02.657379 — bioengineering — Posted on 2025-06-05

4569 Solo songs, duets, and territory defense across seasons in female Galapagos Yellow Warblers (Setophaga petechia aureola)

Yelimlies, A.; Alban Morales, K.; Akcay, C.; Kleindorfer, S.

10.1101/2025.06.02.657377 — animal behavior and cognition — Posted on 2025-06-05

4570 An ultrasensitive spatial tissue proteomics workflow exceeding 100 proteomes per day

Klingeberg, M.; Krisp, C.; Fritzsche, S.; Schallenberg, S.; Hornburg, D.; Coscia, F.

10.1101/2025.06.02.657389 — systems biology — Posted on 2025-06-05

4571 Contrastive Learning-Enhanced Drug Metabolite Prediction Drives the Discovery of an Orally Bioavailable RSK4 Inhibitor for Esophageal Cancer

He, H.; Zhang, M.; Yang, X.; He, S.; Shi, X.; Hu, F.; Liu, C.; Zhang, X.; Chen, N.; Zhu, X.; Zhang, L.; Ye, T.; Zhang, R.; Yang, Y.; Wang, R.; Zhao, Z.; Chen, Z.; Qian, X.; Li, H.; Wang, Z.; Zhang, K.; Liu, K.; Li, S.

10.1101/2025.06.02.657523 — cancer biology — Posted on 2025-06-05

4572 Hepatocyte expression of fetal insulin receptor isoform contributes to the promotion of liver cancer through non-cell autonomous mechanisms

Leandre, F.; Iddir, A.; Godart, C.; Lagoutte, I.; Caldiero, A.; Souid, S.; Pinto, S.; Augustin, J.; Bou Malham, V.; Alves, A.; Aubry, R.; Imbeaud, S.; Zucman-Rossi, J.; Colnot, S.; Gougelet, A.; Desbois-Mouthon, C.

10.1101/2025.06.02.655477 — cancer biology — Posted on 2025-06-05

4573 Identifying Space-Resolved Proteins of the Murine Thymus, by Combining MALDI Mass Spectrometry Imaging and Proteomics

Aguilan, J. T.; Madrid-Aliste, C.; Lagou, M. K.; Sidoli, S.; Karagiannis, G. S.

10.1101/2025.06.02.657511 — cancer biology — Posted on 2025-06-05

4574 Supervised Deep Learning for Efficient Cryo-EM Image Alignment in Drug Discovery with cryoPARES

Sanchez-Garcia, R.; Berndt, A.; Apelbaum, A.; Reeks, J.; Williams, P. A.; Poelking, C.; Deane, C.; Saur, M.

10.1101/2025.03.04.641536 — bioinformatics — Posted on 2025-06-05

4575 Characterization of Sex-Based Differences in Integrin-Mediated Endothelial Cel Adhesion to Bioactive Hydrogels

Nkansah, A.; Budhwani, A.; Grammer, N.; Ang, N.; Fairley, A.; Salazar, S. P.; Anand, A.; Yedalla, A. C.; Seidlits, S.; Allen, J.; Cosgriff-Hernandez, E.

10.1101/2025.06.02.656802 — bioengineering — Posted on 2025-06-05

4576 Precise MRI-Histology Coregistration of Paraffin-Embedded Tissue with Blockface Imaging

Wang, Y.; Ho, W.; Huszar, I. N.; DiGiacomo, P.; Taghavi, H. M.; Tao, L.; Choi, M.; Nguyen, N.; Leventis, S.; Camarillo, D. B.; Schlomer, P.; Axer, M.; Shao, W.; Rusu, M.; Cobos, I.; Nirschl, J.; Georgiadis, M.; Zeineh, M.

10.1101/2025.06.02.657335 — bioengineering — Posted on 2025-06-05

4577 Leech Speciation and Detection of Hirudin Gene among the Leech Population in Asejire Oyo State, Nigeria

Olajide, T. H.; Ajileye, A. O.; Bamikole, O. J.; Olufeagba, M.-d. B.; Adedeji, B. A.; Ademola, S. A.; Amodu, O. k.

10.1101/2025.06.02.657427 — genetics — Posted on 2025-06-05

4578 Isolation of Cyclotide Gene from Solanaceae Family and Its Bioinformatics Analysis

Hussain, M.; Ahmad, M.

10.1101/2025.06.02.657358 — genetics — Posted on 2025-06-05

4579 Contributions of m6A RNA methylation to germline development in the planarian Schmidtea mediterranea

Tasaki, J.; Rouhana, L.

10.1101/2025.06.02.657537 — developmental biology — Posted on 2025-06-05

4580 The Sphingosine-1-phosphate pathway is differentially activated in human gestational tissues.

Mbadhi, M. N.; Fujiwara, H.; Gill, R.; Mitchum, K. T.; Lin, C.; Raghuraman, N.; Frolova, A. I.

10.1101/2025.06.02.657487 — developmental biology — Posted on 2025-06-05

4581 PRPF8-associated retinitis pigmentosa variant induces human neural retina-autonomous photoreceptor defects

Zimmann, F.; Banik, P.; Kubovciak, J.; Thakur, P. K.; Capek, M.; Kolar, M.; Hruba, E.; Dobrovolny, R.; Cvackova, Z.; Barta, T.; Stanek, D.

10.1101/2025.06.04.657822 — cell biology — Posted on 2025-06-05

4582 Investigating Cobalt Corrosion Mechanisms in a Phenazine Producing Bacterium

DeJager, A.; Kirkland, A.; Hinz, A.; McMullin, D. R.; Gregoire, D. S.

10.1101/2025.06.04.657868 — microbiology — Posted on 2025-06-05

4583 Disruption of undecaprenyl phosphate recycling suppresses ampC beta-lactamase induction in Pseudomonas aeruginosa

Klycheva, K.; Gyger, J.; Frund, M.; Torrens, G.; Cava, F.; Fumeaux, C.

10.1101/2025.06.03.657773 — microbiology — Posted on 2025-06-05

4584 Gut colonization by Bacteroides fragilis at juvenile age alters microbiota composition and accelerates type 1 diabetes progression in non-obese diabetic mice

Gudi, R. R.; Taylor, H.; Johnson, B. M.; Maurya, R.; Mulligan, M. E.; Carter, L.; Westwater, C.; Vasu, C.

10.1101/2025.06.02.657398 — immunology — Posted on 2025-06-05

4585 A dendritic cell population responsible for transglutaminase 2-mediated gluten antigen presentation in celiac disease

Yang, F.-C.; Besser, H. A.; Chun, H. R.; Albertelli, M. A.; Fernandez-Becker, N. Q.; Jabri, B.; Khosla, C.

10.1101/2025.06.02.657527 — immunology — Posted on 2025-06-05

4586 CD14 plays a critical role in pain and inflammation across multiple models of post-traumatic osteoarthritis

Burt, K. G.; South, S. M.; Adamczyk, N. S.; Nguyen, V.; Ishihara, S.; Zhou, C.; Sharp, K. L.; Kim, S. Y.; Rapp, A. E.; Hu, B.; Murphy, L. A.; Hung, L.-Y.; Herbert, D.; Baker, J.; Mauck, R. L.; Griffin, T. M.; Malfait, A.-M.; Miller, R. E.; Scanzello, C. R.

10.1101/2025.06.02.657478 — immunology — Posted on 2025-06-05

4587 Replaying germinal center evolution on a quantified affinity landscape

DeWitt, W. S. S.; Vora, A. A.; Araki, T.; Galloway, J. G.; Alkutkar, T.; Bortolatto, J.; Castro, T. B.; Dumm, W.; Jennings-Schaffer, C.; Jia, T.; Mesin, L.; Ozorowski, G.; Pae, J.; Ralph, D. K.; Bloom, J. D.; Nourmohammad, A.; Song, Y. S.; Ward, A.; Starr, T. N.; Matsen, F. A.; Victora, G. D.

10.1101/2025.06.02.656870 — immunology — Posted on 2025-06-05

4588 A High-Resolution Atlas of the Brain Predicts Lineage and Birth Order Underly Neuronal Identity.

Allen, A. M.; Neville, M. C.; Nojima, T.; Alejevski, F.; Agarwal, D.; Sims, D.; Goodwin, S. F.

10.1101/2025.06.04.657818 — neuroscience — Posted on 2025-06-05

4589 Systems modeling and uncertainty quantification of AMP-activated protein kinase signaling

Linden-Santangeli, N.; Zhang, J.; Kramer, B.; Rangamani, P.

10.1101/2025.06.02.657503 — systems biology — Posted on 2025-06-05

4590 Primary tumor microbiomes predict distant metastasis of colorectal cancer

Parajuli, B.; Midya, V.; Kiddle, R.; De Jager, N.; Eggers, S.; Spakowicz, D.; Hoyd, R.; Salhia, B.; Chan, C. H.; Churchman, M.; Rounbehler, R. J.; Yao, S.; Rutkowski, M. R.; Tarhini, A. A.; Mudaranthakam, D. P.; Masood, A.; Bocklage, T. J.; Lentz, R. W.; Hatoum, H.; Ilozumba, M. N.; Hardikar, S.; Ulrich, C. M.; Round, J. L.; Riedlinger, G.; Shriver, C. D.; Bosch, D. E.

10.1101/2025.06.02.654060 — cancer biology — Posted on 2025-06-05

4591 Biologically-informed machine learning identifies a new clinically-actionable bladder cancer subgroup characterised by NRF2 overactivity

Ungureanu, V. V.; Gawne, R. T.; Baker, S. C.; Eriksson, P.; Halliday, D. M.; Smith, S. L.; Southgate, J.; Mason, A. S.

10.1101/2025.06.03.657659 — cancer biology — Posted on 2025-06-05

4592 Association of GADD45A and favorable outcome in hormone positive breast cancer

Lin, C.-Y.; Liu, C.-Y.; Chao, T.-C.; Huang, C.-C.; Tsai, Y.-F.; Tseng, L.-M.; Lai, J.-I.

10.1101/2025.06.02.657315 — cancer biology — Posted on 2025-06-05

4593 Mechanism of Lipid-Dependent Thermosensation in an Ion Channel

Li, C.-C.; Nimigean, C. M.

10.1101/2025.06.03.657524 — biophysics — Posted on 2025-06-05

4594 Macrophage-derived reactive oxygen species promote Salmonella aggresome formation contributing to bacterial antibiotic persistence

Chen, X.; Fang, K.; Li, B.; Li, Y.; Ke, Y.; Ke, W.; Tian, T.; Zhao, Y.; Wang, L.; Geng, J.; Leake, M. C.; Bai, F. C.

10.1101/2025.06.03.657582 — biophysics — Posted on 2025-06-05

4595 Inference of VEGFR2 dimerization kinetics on the cell surface by integrating single-molecule imaging and mathematical modeling

Guerrero, J.; Malik, Z.; Bilal, F.; Jana, S.; Dasgupta, A.; Jaqaman, K.

10.1101/2025.06.03.657760 — biophysics — Posted on 2025-06-05

4596 Structural and temporal dynamics analysis on PANoptosis in sepsis: a bibliometric analysis

Li, Z.; Nie, D.; Yin, L.; Qin, Q.; Yang, C.; Li, R.; Gao, X.; Yu, X.; Wang, Y.

10.1101/2025.06.02.657552 — bioinformatics — Posted on 2025-06-05

4597 10 Years of Variational Autoencoder: Insights from Cancer Temporal Progression Studies, a Systematic Literature Review

Prol-Castelo, G.; Cirillo, D.; Valencia, A.

10.1101/2025.05.29.656750 — bioinformatics — Posted on 2025-06-05

4598 TCRanalyzer: A user-friendly tool for comprehensive analysis of T-cell diversity, dynamics and potential antigen targets

Seifert, N.; Reinke, S.; Kurz, N. S.; Demmer, J. A.; Kornrumpf, K.; Beissbarth, T.; Klapper, W.; Altenbuchinger, M.

10.1101/2025.05.09.652820 — bioinformatics — Posted on 2025-06-05

4599 Genome-Bench: A Scientific Reasoning Benchmark from Real-World Expert Discussions

Yin, M.; Qu, Y.; Liu, D.; Yang, L.; Cong, L.; Wang, M.

10.1101/2025.06.02.657538 — genomics — Posted on 2025-06-05

4600 Exploring the Spatiotemporal Influence of Climate on American Avian Migration with Random Forests

Bick, I. A.; Bakkestuen, V.; Pedersen, M.; Raja, K.; Sethi, S. S.

10.1101/2023.03.27.534441 — ecology — Posted on 2025-06-05

4601 Mechanical force-mediated cellular crosstalk maintains the integrity of the lung gas exchange niche

Shen, C.; Morley, M. P.; Zhao, G.; Jones, D. L.; Schaefer, S. E.; Planer, J. D.; Chembazhi, U. V.; Kim, M.; Ying, Y.; Zhou, S.; Li, S.; Hallquist, H.; Lange, A.; Basil, M. C.; Morrisey, E. E.

10.1101/2025.06.04.657878 — cell biology — Posted on 2025-06-05

4602 Caveolin-1 dependent regulation of cell-matrix interphase in 3D collagen gels.

Mazumdar, D.; Kataria, S.; Panda, G. P.; Kulkarni, A.; Patil, S. P. V.; Dash, M.; Balasubramanian, N.

10.1101/2025.06.04.657900 — cell biology — Posted on 2025-06-05

4603 Toll receptors mediate tissue intrinsic surveillance against aberrant cells by detecting cell fate aberrations

Frey, A.; Ernst, L.; Fischer, F.; Alpar, L.; Bellaiche, Y.; Classen, A.-K.

10.1101/2025.06.04.657585 — cell biology — Posted on 2025-06-05

4604 TGF-β serves as a critical signaling determinant of liver progenitor cell fate and function

Tong, C.; Lin, T.; Wang, H.; La Torre, C. D.; Liu, H.; Shao, C.; Hammad, S.; Liebe, R.; Ebert, M. P.; Ding, H.; Dooley, S.; Weng, H.-L.

10.1101/2025.06.04.657336 — cell biology — Posted on 2025-06-05

4605 Senescent mast cells contribute to the progression of benign prostatic hyperplasia via SCF/c-KIT mediated endothelial-mesenchymal transition

Jing, Y.; Li, L.; Guo, W.; Cao, T.; Tang, J.; Zhou, D.; Yao, C.; Xu, J.; Liu, Y.; Feng, C.; Shi, Y.; Wang, M.; Chao, W.; Liao, H.; He, J.; Qin, L.; Luan, J.; Wang, X.; Cui, D.; Zhu, Y.; Ruan, Y.; Xia, S.; Han, B.

10.1101/2025.06.02.657200 — cell biology — Posted on 2025-06-05

4606 The gut microbiota metabolite isovalerate enhances the epithelial barrier function in cell monolayers derived from porcine ileum organoids

Beaumont, M.; Vicente, C.; Lencina, C.; Jones, E.; Lecuelle, S.; Chalvon-Demersay, T.

10.1101/2025.06.04.657803 — cell biology — Posted on 2025-06-05

4607 RB dependent transcriptional regulation at mitotic centromeres preserves genome stability

Manning, A. L.; Crowley, E. A.

10.1101/2025.06.04.657825 — cell biology — Posted on 2025-06-05

4608 Forward genetics in C. elegans reveals genetic adaptations to polyunsaturated fatty acid deficiency

Kaper, D.; Radovic, U.; Bergh, P.-O.; Qvist, A.; Henricsson, M.; Boren, J.; Pilon, M.

10.1101/2024.11.08.622646 — cell biology — Posted on 2025-06-05

4609 Quantitative Real-Time PCR Detection of Inactivated H5 Avian Influenza Virus in Raw Milk Samples by Miniaturized Instruments Designed for On-Site Testing

Hsiao, C.-C.; Lin, C.-C.; Chen, Y.-M.; Cheng, M.-C.; Davison, S.; Ma, J.; Dai, H.-L.

10.1101/2025.06.02.657307 — microbiology — Posted on 2025-06-05

4610 Receptor-enriched analysis of functional connectivity (REACT) for understanding cannabinoid neuropsychopharmacology

Shatalina, E.; Ertl, N.; Petrilli, K.; Ofori, S.; Borisova, A.; Mokrysz, C.; Curran, V.; Lawn, W.; Freeman, T. P.; Howes, O.; Wall, M. B.

10.1101/2025.06.02.657387 — neuroscience — Posted on 2025-06-05

4611 Linking offline learning mechanisms to anxiety traits

Yu, Q.; Luo, Y.; Dolan, R. J.; Ou, J.; Huang, C.; Wang, H.; Xiao, Z.; Nour, M.; Liu, Y.

10.1101/2023.06.21.546031 — neuroscience — Posted on 2025-06-05

4612 Network-based Near-Scalp Personalized Brain Stimulation Targets

Kong, R.; Xue, A.; Ooi, L. Q. R.; Asplund, C.; Tan, X. W.; Goh, S. E.; Lee, J. J.; Koh, J. Z. J.; Tan, R. S. Y.; Singh, H. K. G.; Tan, T. W. K.; Webler, R. D.; Fox, M. D.; Siddiqi, S. H.; Tor, P.-C.; Yeo, B. T. T.

10.1101/2025.05.15.654391 — neuroscience — Posted on 2025-06-05

4613 Remodeling of purinergic signaling in the paraventricular hypothalamus promotes hyperphagic obesity and insulin resistance

Liu, Y.; Bondarenko, A.; Zhang, H.; Luan, P.; Zhang, Q.; Wang, B.; Najam, S. S.; Liang, X.; Syed, A. A. S.; Lin, D.; Huang, S.; Konovalov, R.; Konopka, W.; Zhang, Z.; Zhang, Y.; Wu, S.; Jing, M.; Vinnikov, I. A.

10.1101/2024.07.02.601503 — neuroscience — Posted on 2025-06-05

4614 OPM quantum sensors enhance non-invasive neuroimaging performance

Brickwedde, M.; Anders, P.; Krueger, P.; Sander, T.; Uhlhaas, P.

10.1101/2025.05.30.657044 — neuroscience — Posted on 2025-06-05

4615 Prognostic significance of Ki-67, BAX, Caspase-3, and VEGF expression in feline intestinal lymphoma

Faraldo, N. C.; Rosenfeld, A. d. F. S.; Brombatti, K. G.; Amorim, R. L.; Battaglia, S. T. H.; Sobral, R. A.; Fonseca Alves, C. E.

10.1101/2025.06.01.657294 — pathology — Posted on 2025-06-05

4616 Bit-Reproducible Phylogenetic Tree Inference under Varying Core-Counts via Reproducible Parallel Reduction Operators

Stelz, C.; Huebner, L.; Stamatakis, A.

10.1101/2025.06.02.656320 — bioinformatics — Posted on 2025-06-05

4617 The Syncytial Mesh Model: A Biophysical Framework for Scale-Dependent Coherence in the Brain

Ballus Santacana, A.

10.1101/2024.11.22.624908 — neuroscience — Posted on 2025-06-05

4618 Depth-resolved fiber photometry of amyloid plaque signals in freely behaving Alzheimer's disease mice

Byron, N.; McAlinden, N.; Pisano, F.; Pisanello, M.; Ferreira, J.; Montinaro, C.; Mathieson, K.; De Vittorio, M.; Pisanello, F.; Sakata, S.

10.1101/2025.04.08.647900 — neuroscience — Posted on 2025-06-05

4619 Col6 deficiency in a zebrafish model of Bethlem myopathy leads to dysfunction of the muscle dihydropyridine receptor

Idoux, R.; Exbrayat-Heritier, C.; Shivaraman, S.; Jaque-Fernandez, F.; Ducret, A.; Berthier, C.; Jacquemond, V.; Sohm, F.; bretaud, s.; Ruggiero, F.; ALLARD, B.

10.1101/2025.06.02.657388 — pathology — Posted on 2025-06-04

4620 Gene specificity landscapes for comparative transcriptomic analysis across tissues, cell types, and species

Bot, E.; Davila-Velderrain, J.

10.1101/2025.06.04.657813 — bioinformatics — Posted on 2025-06-04

4621 The mutational dynamics of the Arabidopsis centromeres

Dong, X.; Jiao, W.-B.; Campoy, J. A.; Rabanal, F. A.; Ton, J.; Smith, L. M.; Weigel, D.; Schneeberger, K.

10.1101/2025.06.02.657473 — genomics — Posted on 2025-06-04

4622 Oligo-FISH Validates Genome Assemblies and Delivers the Most Precise Karyotype for Lens Mill. Species

Silvestrini, A. J. A.; Ramsay, L.; von Wettberg, E. B.; Bett, K.

10.1101/2025.06.02.657502 — genomics — Posted on 2025-06-04

4623 Comparative transcriptomics of iPSC-derived cardiomyocytes in a high and a low altitude population

Gray, O. A.; Witonsky, D. B.; Di Rienzo, A.

10.1101/2025.06.04.657917 — genomics — Posted on 2025-06-04

4624 Persistent cortical excitatory neuron dysregulation in adult Chd8 haploinsufficient mice.

Canales, C. P.; Lozano, S.; Frost, N. A.; Cichewicz, K.; Amaral, W.; Seban, N.; Fenton, E.; Wade, A.; Chu, N.; Smith, E.; Ardekani, C.; Frank, S.; Bennett, J.; Lavenex, P.; Kopley-Smith, A.; Rahbarian, D.; Corea, M.; Perla, D.; Davis, L.; Zhu, J.; Ortiz, R.; Beauregard, P.; Moyer, C.; Baker, J.; Sun, J.; Ma, B.; Lu, J.; Sohal, V. S.; Amaral, D. G.; Zuo, Y.; Nord, A. S.

10.1101/2025.06.04.657776 — genomics — Posted on 2025-06-04

4625 Single-nucleus epigenomic dysregulation unmasks genetic risk-associated neurodegenerative glia states

Han, X.; Zhang, T.; Lee, C.-Y.; Ravi, A.; Spina, S.; Li, A. N.; Grinberg, L. T.; Seeley, W. W.; Huckins, L. M.; Raj, T.; Brennand, K. J.; Rexach, J. E.

10.1101/2025.06.02.657512 — genomics — Posted on 2025-06-04

4626 The Insertion of an ATTTC Repeat in an Alu Element Hyperactivates a Primate-Specific Neurodevelopmental Enhancer in Spinocerebellar Ataxia Type 37

Loureiro, J. R.; Castro, A. F.; Figueiredo, A. S.; Eufrasio, A.; Dhingra, A.; Galhardo, M.; Marcelino, H.; Rodrigues, C.; Sampaio, P.; Azevedo, M. M.; Sousa, M.; Doria, S.; Rizzu, P.; Heutink, P.; Bessa, J.; Silveira, I.

10.1101/2025.06.03.657633 — genetics — Posted on 2025-06-04

4627 Molecular characterisation of neurons across animals identify conserved gene expression.

Rivera-Rivera, C. J.; Feuda, R.; Pisani, D.

10.1101/2025.06.04.657789 — evolutionary biology — Posted on 2025-06-04

4628 Malaria shaped human spatial organisation for the last 74 thousand years

Colucci, M.; Leonardi, M.; Blinkhorn, J.; Irish, S. R.; Padilla-Iglesias, C.; Kaboth-Bar, S.; Gosling, W. D.; Snow, R. W.; Manica, A.; Scerri, E. M. L.

10.1101/2025.06.04.657870 — evolutionary biology — Posted on 2025-06-04

4629 Sp Transcription Factors Establish the Signaling Environment in the Neuromesodermal Progenitor Niche During Axial Elongation

Chalamalasetty, R. B.; Tran, H.; Kelly, R.; Kuo, S.; Kennedy, M. W.; Lee, M.; Thomas, S.; Mandalos, N.; Koparde, V.; Pereira Lobo, F.; Yamaguchi, T. P.

10.1101/2025.06.03.657492 — developmental biology — Posted on 2025-06-04

4630 Cell fate specification during respiratory development requires ARID1A-containing canonical BAF complex activity

10.1101/2025.06.02.657302 — developmental biology — Posted on 2025-06-04

4631 Human microglia in brain assembloids display region-specific diversity and respond to hyperexcitable neurons carrying SCN2A mutation

Wu, J.; Chen, X.; Zhang, J.; Wettschurack, K. W.; Robinson, M. J.; Li, W.; Zhao, Y.; Yoo, Y.-E.; Deming, B. A.; Abeyaratna, A. D.; Que, Z.; Du, D.; Tegtmeyer, M. T.; Yuan, C.; Skarnes, W. C.; Rochet, J.-C.; Wu, L.-J.; Yang, Y.

10.1101/2025.06.04.657874 — neuroscience — Posted on 2025-06-04

4632 Dendrite-targeting inhibitory interneurons form biased circuits with deep and superficial pyramidal cells in hippocampal CA1

Johantges, A. C.; Hanson, M. A.; Marshall, A. H.; Safa, A.; Payne, E. K.; Bibi, N.; Wester, J. C.

10.1101/2025.06.04.657895 — neuroscience — Posted on 2025-06-04

4633 Alterations in auditory midbrain processing is observed in both female andmale mouse model of Fragile X Syndrome

Abdullah, A.; Liu, X.; Murari, K.; Yan, J.; Cheng, N.

10.1101/2025.06.04.657855 — neuroscience — Posted on 2025-06-04

4634 Animate-inanimate object categorization from minimal visual information in the human brain, human behavior, and deep neural networks

Spriet, C.; Rostami, F.; Hochmann, J.-R.; Papeo, L.

10.1101/2025.06.02.657367 — neuroscience — Posted on 2025-06-04

4635 A Role for Exaptation in Sculpting Sexually Dimorphic Brains from Shared Neural Lineages.

Allen, A. M.; Neville, M. C.; Nojima, T.; Alejevski, F.; Goodwin, S. F.

10.1101/2025.06.04.657833 — neuroscience — Posted on 2025-06-04

4636 Artemether and Euphorbia Factor L9 suppress kynurenine production through distinct effects on Tryptophan metabolism.

Capatina, A. L. L.; Czechowski, T.; Plunkett-Jones, C.; Tonon, T.; Kourtzelis, I.; Lichman, B. R.; Brackenbury, W. J.; Graham, I. A.; Lagos, D.

10.1101/2025.06.02.657401 — cancer biology — Posted on 2025-06-04

4637 Impact of trait measurement error on quantitative genetic analysis of computer vision derived traits

Bi, Y.; Huang, Y.; Yu, H.; Morota, G.

10.1101/2025.06.02.657462 — genetics — Posted on 2025-06-04

4638 A cross-species rescue by mating method to interrogate gene essentiality across the Saccharomyces genus.

Wang, T. K.; Keller, A.; Kunjo, S. O.; Dunham, M. J.

10.1101/2025.06.02.657496 — genetics — Posted on 2025-06-04

4639 Lifelong development of zebrafish gills: Asymmetries in early vascular patterning predict adult gill architecture

Preussner, M.; Mertens, A.; Basoglu, M.; Lecaudey, V.

10.1101/2025.06.02.657338 — developmental biology — Posted on 2025-06-04

4640 Mechanobiological proximal tubular defects in ARC syndrome: A VPS33B CRISPR knockout study

Caluianu, M.; Owen, K. A.

10.1101/2025.06.04.657864 — molecular biology — Posted on 2025-06-04

4641 Functional insights into the photoactive yellow protein family from homologs, multidomain proteins and inferred pyp operons

Dohmen, R.; Hoogerwerf, G.; Dohmen, A. J.; Neal, M. L.; Bradley, C.; Huffman, C.; Teeman, S. M.; Hampton, S. F.; Powell, S.; Gunn, Z.; Hoff, W. D.

10.1101/2025.06.04.657921 — microbiology — Posted on 2025-06-04

4642 Desiccation-induced DNA damage facilitates drug resistance in Mycobacterium tuberculosis

Brown, C. D.; Lee, B. M.; Liu, H.; Wu, A.; Tellez, A. V.; Zou, H.; Singh, P.; Saito, K.; Mishra, S.; Brown, M.; Saleh, A.; Odjourian, N. M.; Cristaldo, M.; Gan, M.; Liu, Q.; Gengenbacher, M.; Darst, S. A.; Campbell, E. A.; Nathan, C. F.; Rhee, K. Y.

10.1101/2025.06.04.657859 — microbiology — Posted on 2025-06-04

4643 Tuning viscoelasticity and fine structure of living materials via synthetic adhesion logic and rheological perturbations

Costan, S.; Hallerbach, K.; Kim, S.; Camp, C.; Kim, M.; Riedel-Kruse, I. H.

10.1101/2025.06.04.657808 — synthetic biology — Posted on 2025-06-04

4644 Cell-free genome-wide transcriptomics through machine learning optimization

Wagner, L.; HOANG, A.; RUE, O.; Delumeau, O.; Loux, V.; Faulon, J.-L.; Jules, M.; Borkowski, O.

10.1101/2025.06.04.657821 — synthetic biology — Posted on 2025-06-04

4645 Plasmodium falciparum subverts neutrophil function via host miR-451a loaded extracellular vesicles driving bacterial superinfection susceptibility

Babatunde, K. A.; Ngara, M.; Martinez Murillo, P.; Subramanian, B.; Hopke, A.; Lucchesi, S.; Novedrati, M.; Montesi, G.; Santoro, F.; Hagemann-Jensen, M.; Sandberg, R.; Filgueira, L.; Irimia, D.; Walch, M.; Mantel, P.-Y.

10.1101/2025.06.02.657463 — immunology — Posted on 2025-06-04

4646 Inter-individual variability in immune responses to AAV-mediated ocular gene delivery across species impedes reliable immunomonitoring profile

REN, D.; CHAUVEAU, G.; VENDOMELE, J.; CABON, E.; PINEIRO, A.; VIGNAL-CLERMONT, C.; SALIBA, H.; RONZITTI, G.; GALY, A.; DALKARA, D.; PULMAN, J.; AIL, D.; FISSON, S.

10.1101/2025.06.02.656863 — immunology — Posted on 2025-06-04

4647 PDE10A Inhibition Disrupts Lipid Droplet Formation and Sensitizes Macrophages to Ferroptosis after LPS treatment

Berk, B.; Zhang, J.; Hsu, C.

10.1101/2025.06.02.657436 — immunology — Posted on 2025-06-04

4648 Platelet concentrate-derived extracellular vesicles promote adult hippocampal neurogenesis

NyamErdene, A.; Thao Ngoc Le, N.; Nebie, O.; Faivre, E.; Delila, L.; Chou, M. L.; Lowe, J.; Bantubungi, K.; Buee, L.; Walker, T.; Blum, D.; Burnouf, T.

10.1101/2025.04.29.651163 — neuroscience — Posted on 2025-06-04

4649 RPcontact: Improved prediction of RNA-protein contacts using RNA and protein language models

Jiang, J.; Zhang, X.; Zhan, J.; Miao, Z.; Zhou, Y.

10.1101/2025.06.02.657171 — bioinformatics — Posted on 2025-06-04

4650 Towards Unmanned Proteomics Data Generation: A Fully Automated Sample-to-Data System for Proteomic Experiments

Wang, D.; Chen, W.; Xie, L.; Xu, Y.; Huang, C.; Liu, Y.; Wang, X.; Huang, X.; Zhang, K.; Pan, M.; Wang, S.; Qin, B.; Yang, Y.; Yang, J.; Tang, L.; Tian, R.; He, F.

10.1101/2025.06.02.656978 — biochemistry — Posted on 2025-06-04

4651 The endoribonuclease Rae1 from Bacillus subtilis cleaves mRNA upstream of stalled ribosomes

Deves, V.; D'Halluin, A.; Gilet, L.; Condon, C.; Braun, F.

10.1101/2025.06.04.657793 — molecular biology — Posted on 2025-06-04

4652 DiffDock-Glide: a hybrid physics-based and data-driven approach to molecular docking

Herron, L.; Dakka, J.; Yao, K.; Shi, D.; Zhang, Y.; Jerome, S. V.

10.1101/2025.06.02.657461 — molecular biology — Posted on 2025-06-04

4653 Structural insights into context-specific inhibition of bacterial translation by macrolides

Syroegin, E. A.; Aleksandrova, E. V.; Kruglov, A. A.; Paranjpe, M. N.; Svetlov, M. S.; Polikanov, Y. S.

10.1101/2025.06.03.657637 — molecular biology — Posted on 2025-06-04

4654 Human cytomegalovirus-encoded G protein-coupled receptor (GPCR), UL78, regulates viral reactivation

Osanyinlusi, S. A.; Baruah, V.; Groves, I. J.; Kulp, K. H.; Krishna, B. A.; O'Connor, C. M.

10.1101/2025.06.04.657869 — microbiology — Posted on 2025-06-04

4655 Toxoplasma IMC1 is a central component of the subpellicular network and plays critical roles in parasite morphology, replication, and infectivity

Uy, J. N.; Lou, Q.; Zhou, Z. H.; Bradley, P. J.

10.1101/2025.06.03.657516 — microbiology — Posted on 2025-06-04

4656 Gut microbiota of Brazilian Melipona stingless bees: dominant members and their localization in different gut regions

Tristao Santini, A.; Cerqueira, A. E. S.; Moran, N. A.; Resende, H. C.; Santana, W. C.; de Paula, S. O.; da Silva, C. C.

10.1101/2025.06.03.657762 — microbiology — Posted on 2025-06-04

4657 Identification of a Broadly Acting Inhibitor of the Alphavirus Non-Structural Protein 2 Helicase

Sears, J. D.; Ojha, D.; Taft-Benz, S.; Sylvester, P. A.; Streblow, Z.; Gramm, A. J.; Drobish, A. M.; Ramalingam, B. M.; Hossain, M. A.; Talbot, K. M.; Sanders, W.; Chang, C.-K.; Law, I.; Martinez, S. A.; Burdick, J. E.; Wiltshire, R.; Saba, N. A.; Poplarski, J. H.; Counago, R. M.; Brown, P. J.; Anand, G. S.; Morrison, T. E.; Arnold, J. J.; Cameron, C. E.; Streblow, D. N.; Willson, T. M.; Heise, M. T.; Moorman, N. J.

10.1101/2025.06.03.657755 — microbiology — Posted on 2025-06-04

4658 P. aeruginosa rhamnolipids stabilize human rhinovirus 14 virions

Baty, J.; Drozdick, A. K.; Pfeiffer, J. K.

10.1101/2025.06.04.657910 — microbiology — Posted on 2025-06-04

4659 Common and distinct neural correlates of social interaction perception and theory of mind

Miao, Z.; Jung, H.; Kragel, P. A.; Bo, K.; Sadil, P.; Lindquist, M. A.; Wager, T. D.

10.1101/2024.12.19.628993 — neuroscience — Posted on 2025-06-04

4660 CellVoyager: AI CompBio Agent Generates New Insights by Autonomously Analyzing Biological Data

Alber, S.; Chen, B.; Sun, E.; Isakova, A.; Wilk, A. J.; Zou, J.

10.1101/2025.06.03.657517 — bioinformatics — Posted on 2025-06-04

4661 An artificial nervous system for communication between wearable and implantable therapeutics

Ghanim, R.; Lee, Y. J.; Byun, G.; Jackson, J.; Ding, J. Z.; Feller, E.; Kim, E.; Aygun, D.; Kaushik, A.; Cig, A.; Park, J.; Healy, S.; Cunin, C. E.; Gumyusenge, A.; Yeo, W. H.; Abramson, A.

10.1101/2025.06.04.657863 — bioengineering — Posted on 2025-06-04

4662 Perilipin 4 repetitive region forms amyloid fibrils promoted by a genetic expansion found in myopathy patients

Choufani, C.; Fuggetta, N.; Sabbagh, B.; Moulin, C.; Franckhauser, C.; Lyonnais, S.; Perme, T.; Arteni, A.-A.; Pagnotta, S.; Rouquier, S.; Ruggieri, A.; Bousset, L.; Copic, A.

10.1101/2025.06.03.657256 — biochemistry — Posted on 2025-06-04

4663 Assembly and phospho-regulatory mechanisms of the budding yeast outer kinetochore KMN complex

Turner, N. N.; Zhang, Z.; Muir, K. W.; McLaughlin, S. H.; Morgan, T.; Barford, D.

10.1101/2025.06.03.657598 — biochemistry — Posted on 2025-06-04

4664 Single-nucleus transcriptional and chromatin accessibility analyses of maturing mouse Achilles tendon uncover the molecular landscape of tendon stem/progenitor cells

Tsutsumi, H.; Chiba, T.; Fujii, Y.; Matsushima, T.; Kimura, T.; Kanai, A.; Kishida, A.; Suzuki, Y.; Asahara, H.

10.1101/2024.10.24.619991 — developmental biology — Posted on 2025-06-04

4665 PKP2 orchestrates OXPHOS expression in cardiomyocytes via a PGC1α-dependent mechanism

Han, S. J.; den Berg, D.; de Ruiter, H.; Tsui, H.; Kyriakopoulou, E.; Koopmans, T.; Perini, I.; Monshouwer-Kloots, J.; van Kampen, S. J.; te Riele, A. S. J. M.; Kelters, I. R.; Gianoli, M.; Burgering, B. M. T.; van Rooij, E.

10.1101/2025.06.02.656790 — molecular biology — Posted on 2025-06-04

4666 Clinical Trypanosoma cruzi isolates share a common antigen repertoire that is absent from culture adapted strains

Hakim, J. M. C.; Gutierrez Guarnizo, S. A.; Duran, A.; Malaga-Machacha, E.; Duque, C.; Singer, L.; Colanzi, R.; Sherbuk, J. E.; Gilman, R.; Bern, C.; Messenger, L. A.; Mugnier, M. R.; Working Group on Chagas Disease in Bolivia and Peru,

10.1101/2025.06.04.657671 — microbiology — Posted on 2025-06-04

4667 Machine Learning-Assisted Decoding of Temporal Transcriptional Dynamics via Fluorescent Timer

Irie, N.; Takeda, N.; Sato, Y.; ARAKI, K.; Ono, M.

10.1101/2025.02.23.639730 — immunology — Posted on 2025-06-04

4668 A continuum reaction-diffusion model for spread of gene silencing in chromosomal inactivation

Paul, S.; Sun, S.; Haynes, K.; Hong, T.

10.1101/2025.06.02.657345 — systems biology — Posted on 2025-06-04

4669 R-Spondin Mimetic, SZN-043, Induced Proliferation and Expression of Wnt Target Genes, Two Impaired Features in Human Alcohol-Associated Liver Disease

Fisher, T.; Patel, M.; Deshmukh, S.; Shah, D.; Lu, C.; Newman, M.; Ye, J.; Fletcher, R.; Vanhove, G. F.; Tibbitts, J.; Li, Y.; Skill, N. J.; Yang, Z.; Liangpunsakul, S.; Baribault, H.

10.1101/2024.11.19.624277 — pathology — Posted on 2025-06-04

4670 ProtMamba: a homology-aware but alignment-free protein state space model

Sgarbossa, D.; Malbranke, C.; Bitbol, A.-F.

10.1101/2024.05.24.595730 — bioinformatics — Posted on 2025-06-04

4671 Programmed inhibition of an innate immune receptor via de novo designed transmembrane proteins

Maillie, C. A.; Zhang, M.; Goiset, N.; Goldenfeld, G.; Ward, A. B.; Mravic, M.

10.1101/2025.05.31.657109 — biochemistry — Posted on 2025-06-04

4672 Domain-specific DNA binding activities of BRCA1 reveal substrate preferences for homologous recombination and telomere regulation

Lowran, K.; Campbell, L.; Cismas, E.; Wu, C. G.

10.1101/2024.05.30.594759 — biochemistry — Posted on 2025-06-04

4673 The evolution of separate sexes in waterhemp is associated with surprising chromosomal diversity and complexity

Kreiner, J. M.; Montgomery, J. S.; Todesco, M.; Bercovich, N.; Gong, Y.; Elphinstone, C.; Tranel, P. J.; Rieseberg, L. H.; Wright, S. I.

10.1101/2024.09.17.613486 — evolutionary biology — Posted on 2025-06-04

4674 Are all waterholes equal from a lion's view? Exploring the role of prey abundance and catchability in waterhole visitation patterns in a savannah ecosystem

Dejeante, R.; Loveridge, A. J.; Macdonald, D. W.; Madhlamoto, D.; Chamaille-Jammes, S.; Valeix, M.

10.1101/2025.04.18.649579 — ecology — Posted on 2025-06-04

4675 Towards model-based design of causal manipulations of brain circuits with high spatiotemporal precision

De, A.; Kiani, R.; Mazzucato, L.

10.1101/2025.05.30.657050 — neuroscience — Posted on 2025-06-04

4676 Efficient Generation of Expandable Dorsal Forebrain Neural Rosette Stem Cell Lines

Frazier, S. E. D.; de Lichtenberg, K. H.; Jaberi, E.; Bertelsen, C.; Jensen, S. M.; Wrona, A.; Christophersen, N. S.; Kristensen, M.; Villaescusa, J. C.

10.1101/2025.05.27.656305 — neuroscience — Posted on 2025-06-04

4677 Population structure of Phytophthora infestans collected from potatoes in Guatemala and Honduras

Izarra, M. L.; Perez, W. G.; Vasquez, E. F.; Perez, G. E.; Gamboa, S.; Andrade-Piedra, J.; Flores, B.; Montejo, L.; Sanders, A.; Kreuze, J. F.

10.1101/2025.05.28.656702 — pathology — Posted on 2025-06-04

4678 Reconciling the effects of PMS2 in different repeat expansion disease models supports a common therapeutic strategy

Jimenez, D. A.; Miller, C. J.; Walker, A.; Anupindi, K.; Hayward, B. E.; Lorenzi, H. A.; Usdin, K.; Zhao, X.

10.1101/2024.08.13.607839 — genetics — Posted on 2025-06-04

4679 Abundant Parent-of-origin Effect eQTL in Humans: The Framingham Heart Study

Guan, Y.; Huan, T.; Levy, D.

10.1101/2024.06.05.597677 — genetics — Posted on 2025-06-04

4680 Female-germline specific protein Sakura interacts with Otu and is crucial for germline stem cell renewal and differentiation and oogenesis

Azlan, A.; Zhu, L.; Fukunaga, R.

10.1101/2024.10.04.616675 — genetics — Posted on 2025-06-04

4681 3D Quantification of Viral Transduction Efficiency in Living Human Retinal Organoids

Rogler, T. S.; Salbaum, K. A.; Brinkop, A. T.; Sonntag, S. M.; James, R.; Shelton, E. R.; Thielen, A.; Rose, R.; Babutzka, S.; Klopstock, T.; Michalakis, S.; Serwane, F.

10.1101/2024.03.06.583795 — neuroscience — Posted on 2025-06-04

4682 A novel transformer-based platform for the prediction and design of biosynthetic gene clusters for (un)natural products

Kawano, T.; Shiraishi, T.; Kuzuyama, T.; Umemura, M.

10.1101/2025.06.02.657346 — bioinformatics — Posted on 2025-06-04

4683 The intratumoral microbiome is negatively associated with malignancy in dermatofibrosarcoma protuberans

Jian, X.; Liu, Z.; Zhang, J.; Li, Y.; Xie, L.; Zhao, G.; Li, B.; Li, J.; Peng, C.; Wan, M.; Chen, X.

10.1101/2025.06.02.657449 — microbiology — Posted on 2025-06-04

4684 The hemagglutinin proteins of clades 1 and 2.3.4.4b H5N1 highly pathogenic avian influenza viruses exhibit comparable attachment patterns to avian and mammalian tissues

Zhu, B.; Fung, K.; Feng, H. H.; Beatty, J. A.; Hill, F.; Tse, A. C.; Brackman, C. J.; Sit, T. H.; Poujade, A.; Gaide, N.; Ducatez, M.; Foucras, G.; Peiris, M.; Ti, S.-C.; Nicholls, J. M.; Yen, H.-L.

10.1101/2025.06.02.657404 — microbiology — Posted on 2025-06-04

4685 Evolutionary trajectories determine the feasibility of collateral sensitivity based antibiotic treatment strategies in critical bacterial pathogens

Brandis, G.; Chauhan, V.; Enkvist, L.; Chukhareva, Y.; Damell, C.; Cruz Davila, E.; Islam, T. M.; Melander, G.; Paulsson, E.; Sundell, A.; Zweifel, E.; Knöppel, A.

10.1101/2025.06.03.657621 — microbiology — Posted on 2025-06-04

4686 FleQ-Dependent Regulation of the Ribonucleotide Reductase Repressor nrdR in Pseudomonas aeruginosa During Biofilm Growth and Infection

Marchan, D.; Rubio-Canalejas, A.; Pedraz, L.; Hernandez-Perez, J. M.; Admella, J.; Torrents, E.

10.1101/2025.06.03.657667 — microbiology — Posted on 2025-06-04

4687 Finding signatures of low-dimensional geometric landscapes in high-dimensional cell fate transitions

Yampolskaya, M.; Mehta, P.; Ikonomou, L.

10.1101/2025.05.27.656406 — biophysics — Posted on 2025-06-04

4688 eIF4G2-Mediated Translation Initiation of Histone Modifiers Is Essential for Intestinal Stem Cell Maintenance and Differentiation

Kunitomi, H.; Khaine, A. M.; Jamee, R.; Arreola, V.; Lancero, M.; Raychaudhuri, A.; Perli, S. D.; Sato, Y.; Iwasaki, M.; Ruivo, P. R.; Tomoda, K.; Mito, M.; Shichino, Y.; Iwasaki, S.; Yamanaka, S.

10.1101/2025.05.19.652834 — cell biology — Posted on 2025-06-04

4689 Z-Form Stabilization By The Zα Domain Of Adar1p150 Has Subtle Effects On A-To-I Editing

Nichols, P. J.; Riemondy, K. A.; Krall, J. B.; Ramos, J.; Goering, R.; Henen, M. A.; Taliaferro, J. M.; Vogeli, B.; Vicens, Q.

10.1101/2025.06.02.657529 — cell biology — Posted on 2025-06-04

4690 Dendritic computation for rule-based flexible categorization

Zhang, Y.; Liu, Y.; Hu, Y.; Zhang, Z.; Du, J.; Cui, L.; Liu, Q.; Zhong, L.; Xin, Y.; Chai, R.; Deng, L.; Pan, J.; Schiller, J.; Xu, N.-l.

10.1101/2025.06.03.657766 — neuroscience — Posted on 2025-06-04

4691 A continuum reaction-diffusion model for spread of gene silencing in chromosomal inactivation

Paul, S.; Sun, S.; Haynes, K.; Hong, T.

10.1101/2025.06.02.657345 — systems biology — Posted on 2025-06-04

4692 MRAP2 modifies signaling and oligomerization state of the melanocortin-4 receptor

Sohail, I.; Laurin, S.-A.; Kleinau, G.; Chunilal, V.; Morton, A.; Brenlla-Lopez, A.; Kagiali, Z. C. U.; Tello, J. A.; Blouin, M.-J.; Beck-Sickinger, A. G.; Lohse, M. J.; Scheerer, P.; Bouvier, M.; McCormick, P.; Annibale, P.; Biebermann, H.

10.1101/2024.04.09.588099 — pharmacology and toxicology — Posted on 2025-06-04

4693 FoldMark: Safeguarding Protein Structure Generative Models with Distributional and Evolutionary Watermarking

ZHANG, Z.; Jin, R.; Xu, G.; Wang, X.; Zitnik, M.; Cong, L.; Wang, M.

10.1101/2024.10.23.619960 — bioinformatics — Posted on 2025-06-04

4694 Protein Set Transformer: A protein-based genome language model to power high diversity viromics

Martin, C.; Gitter, A.; Anantharaman, K.

10.1101/2024.07.26.605391 — bioinformatics — Posted on 2025-06-04

4695 A heterogeneous pharmaco-transcriptomic landscape induced by targeting a single oncogenic kinase

Giglio, R. M.; Hou, N.; Wyatt, A.; Hong, J.; Shi, L.; Vaikunthan, M.; Fuchs, H.; Nima, J. P.; Malinowski, S. W.; Ligon, K. L.; McFaline-Figueroa, J. R.; Yosef, N.; Azizi, E.; McFaline-Figueroa, J. L.

10.1101/2024.04.08.587960 — genomics — Posted on 2025-06-04

4696 LAGOS-US LANDSAT: Remotely sensed water quality estimates for U.S. lakes over 4 ha from 1984 to 2020

Hanly, P. J.; Webster, K. E.; Soranno, P. A.

10.1101/2024.05.10.593626 — ecology — Posted on 2025-06-04

4697 Amyloid β instigates cardiac neurotrophic signaling impairment, driving Alzheimer's associated heart disease.

Elia, A.; Parodi-Rullan, R. M.; Vazquez-Torres, R.; Carey, A.; Javadov, S.; Fossati, S.

10.1101/2023.07.11.548558 — molecular biology — Posted on 2025-06-04

4698 Dendritic computation for rule-based flexible categorization

Zhang, Y.; Hu, Y.; Zhang, Z.; Du, J.; Cui, L.; Liu, Q.; Zhong, L.; Xin, Y.; Chai, R.; Deng, L.; Pan, J.; Schiller, J.; Xu, N.-l.

10.1101/2025.06.03.657766 — neuroscience — Posted on 2025-06-04

4699 A model of the cerebellum generates gait adaptations in a reflex-based neuromusculoskeletal model during split-belt walking

Fleischmann, S.; Shanbhag, J.; Miehling, J.; Wartzack, S.; Ong, C.; Eskofier, B. M.; Koelewijn, A. D.

10.1101/2024.12.12.628122 — neuroscience — Posted on 2025-06-04

4700 Effects of hCG or GnRH Treatment on Embryonic Mortality and Reproductive Performance in Buchi sheep of Cholistan Desert, Pakistan

Anam, M.; Lashari, M. H.; Akhtar, M. S.; Abbas, M.

10.1101/2025.05.29.656925 — zoology — Posted on 2025-06-04

4701 Advanced adaptive strategies in an ancestral body plan: insights from a 510-Ma-old leptomitid sponge

Luo, C.; Hong, Y.; Sun, Z.; Sun, H.; Lim, S.-C.; Wang, T.; Zhang, L.; Zhao, F.

10.1101/2025.05.30.657026 — paleontology — Posted on 2025-06-04

4702 Isoform-Specific Gene Regulation by Progesterone Receptors Drives Divergent Phenotypes in Breast Cancer Cells

Gillis, N. E.; Truong, T. H.; Diep, C. H.; Spartz, A.; Ostrander, J. H.; Lange, C. A.

10.1101/2025.05.19.654935 — cancer biology — Posted on 2025-06-04

4703 Molecular Phenotypic Plasticity Informs Possible Adaptive Change of Triple-Negative Breast Cancer Cells In Vivo

Iftehimul, M.; Muganda, P. M.; Newman, R. H.; Rorie, C. J.; Harrison, S. H.; Hossain, M. T.; Thomas, M. D.; Graves, J. L.; Saha, D.

10.1101/2025.05.31.657204 — cancer biology — Posted on 2025-06-04

4704 Motor deficits in the McGill-R-Thy1-APP transgenic rat model of Alzheimer's Disease

Roddick, K.; Northrup, P. A.; Schellinck, H. M.; Brown, R. E.

10.1101/2025.04.24.650385 — animal behavior and cognition — Posted on 2025-06-04

4705 Underappreciated role of environmental enrichment in alleviating depression and anxiety: Quantitative evidence synthesis of rodent models

Yang, Y.; Liu, M.; Morrison, K.; Lagisz, M.; Nakagawa, S.

10.1101/2025.06.02.657339 — animal behavior and cognition — Posted on 2025-06-04

4706 Investigating the consequences of the mating system for drug resistance evolution in C. elegans

Trubenova, B.; Hellinga, J.; Krücken, J.; von Samson-Himmelstjerna, G.; Schulenburg, H.; Regoes, R. R.

10.1101/2024.11.07.620884 — evolutionary biology — Posted on 2025-06-04

4707 Long-term surveillance suggests multiple hybridization events by nuclear reassortment and accelerated intercontinental spread of wheat yellow rust

Hovmoeller, M. S.; Thach, T.; Algaba, J. R.; Hansen, J. G.; Meyer, M.; Hodson, D.; Nazari, K.; Park, R. R.; Tamm, R.; Moeller, M.; Schwessinger, B.; Rathjen, J. P.; Silva, P.; Riella, V.; Justesen, A. F.

10.1101/2025.05.22.655633 — evolutionary biology — Posted on 2025-06-04

4708 Phenotypic plasticity as a function of genetic polymorphism: thermal dominance reversal in Drosophila species with contrasting melanism

David, J. R.; Denis, B.; Francelle, P.; Lemaire, A.; Das, A.; Mohanty, S.; Gibert, P.; Yassin, A.

10.1101/2025.05.30.657080 — evolutionary biology — Posted on 2025-06-04

4709 Genetic interaction library screening with a next-generation dual guide CRISPR system

Burgold, T.; Karakoc, E.; Goncalves, E.; Barrio-Hernandez, I.; Dwane, L.; Silva, R. O.; Souster, E.; Sharma, M.; Beck, A.; Koh, G.; Zalmas, L.-P.; Garnett, M.; Bassett, A. R.

10.1101/2024.03.28.587052 — molecular biology — Posted on 2025-06-04

4710 Assessment of antimicrobial resistance genes in Caribbean corals, including those treated with amoxicillin

Neely, K. L.; Kellogg, C. A.; Voelschow, J.; Cauvin, A.; Reed, S.; Rubin, E.; Meyer, J.

10.1101/2024.11.01.621504 — microbiology — Posted on 2025-06-04

4711 Expectation effects based on newly learnt object-scene associations are modulated by spatial frequency

Kikkawa, M.; Feuerriegel, D. C.; Garrido, M. I.

10.1101/2025.06.02.657314 — neuroscience — Posted on 2025-06-04

4712 Unravelling the distribution of vectors of major vector-borne diseases in Koshi Province of Nepal: A concern of expansion in diverse geo-ecological and climatic regions

Roy, L.; Uranw, S.; Pote Shrestha, R. R.

10.1101/2025.06.02.657347 — zoology — Posted on 2025-06-04

4713 Kinetic-model-guided engineering of multiple S. cerevisiae strains improves p-coumaric acid production

Narayanan, B.; Jiang, W.; Wang, S.; Saez-Saez, J.; Weilandt, D. R.; Masid, M.; Hesselberg-Thomsen, V.; Borodina, I.; Hatzimanikatis, V.; Miskovic, L.

10.1101/2024.12.15.628543 — systems biology — Posted on 2025-06-04

4714 Defense-Suppressive Fragments of RIN4 generated by AvrRpt2 Participate in NDR1-dependent Activation of RPS2

Afzal, A. J.; Alam, M.; Huang, J.; Agha, M.; Da Cunha, L.; Iqbal Rai, M.; Tahir, J.; Jamroze, A.; Jones, J. D.; Mackey, D.

10.1101/2025.06.02.656948 — plant biology — Posted on 2025-06-04

4715 Megakaryocytes assemble a three-dimensional cage of extracellular matrix that controls their maturation and anchoring to the vascular niche

Masson, C.; Scandola, C.; Rinckel, J.-Y.; Proamer, F.; Janus-Bell, E.; Batool, F.; OSMANI, N.; GOETZ, J. G.; Mallo, L.; Brouard, N.; Leon, C.; Bornert, A.; Poincloux, R.; Destaing, O.; Mansson, A.; QIAN, H.; Lehmann, M.; Eckly, A.

10.1101/2024.09.30.615769 — physiology — Posted on 2025-06-04

4716 De Novo sequencing-assisted homology search for DIA data analysis enables low abundance peptide variants discovery

Qiao, R.; Li, H.; Bian, H.; Xin, L.; Shan, B.

10.1101/2025.05.30.657054 — bioinformatics — Posted on 2025-06-04

4717 Microbial hydrocarbon degradation potential of the Baltic Sea ecosystem

Serrana, J. M.; Dessirier, B.; Nascimento, F. J. A.; Broman, E.; Posselt, M.

10.1101/2025.06.02.657333 — ecology — Posted on 2025-06-04

4718 E2F deregulation compromises ER homeostasis by attenuating IRE1 activity

Das, A.; Li, Y.; Fan, Y.; Moon, N.-S.

10.1101/2025.06.02.657344 — developmental biology — Posted on 2025-06-04

4719 ONE-STEP tagging: a versatile method for rapid site-specific integration by simultaneous reagent delivery

Migliori, V.; Bruntraeger, M.; Gyulev, I.; Lichou, F.; Burgold, T.; Gitterman, D.; Iwama, S.; Trinh, A.; Washer, S. J.; Jones, C.; Trynka, G.; Bassett, A. R.

10.1101/2024.08.29.610246 — molecular biology — Posted on 2025-06-04

4720 cGAS-STING dependent type I IFN protects against Leptospira interrogans renal colonization in mice.

Gupta, S.; Matsunaga, J.; Ratitong, B.; Ismaeel, S.; Valadares, D.; West, P.; Kerur, N.; Stehlik, C.; Dorfleutner, A.; Dagvadorj, J.; Coburn, J.; Wolf, A.; Cassel, S.; Haake, D.; Sutterwala, F. S.

10.1101/2025.06.02.657349 — immunology — Posted on 2025-06-04

4721 Memory by a thousand rules: Automated discovery of multi-type plasticity rules reveals variety and degeneracy at the heart of learning.

Confavreux, B.; Harrington, Z.; Kania, M.; Ramesh, P.; Krouglova, A. N.; Bozelos, P. A.; Macke, J. H.; Saxe, A. M.; Goncalves, P. J.; Vogels, T. P.

10.1101/2025.05.28.656584 — neuroscience — Posted on 2025-06-04

4722 Prolonged Single Neuron Voltage Imaging in Behaving Mammals

Wang, Y.; Ravasio, C. R.; Zhou, Y.; Han, X.

10.1101/2025.05.29.656886 — neuroscience — Posted on 2025-06-04

4723 Cell-ECM Graphs: A Graph-Based Method for Joint Analysis of Cells and the Extracellular Matrix

Ghafoor, M.; Parkinson, J. E.; Sutherland, T. E.; Rattray, M.

10.1101/2025.06.04.657781 — bioinformatics — Posted on 2025-06-04

4724 Pasta, an age-shift transcriptomic clock, maps the chemical and genetic determinants of aging and rejuvenation

Salignon, J.; Tsiokou, M.; Marques, P.; Rodriguez-Diaz, E.; Ang, H.; Pietrocola, F.; Riedel, C. G.

10.1101/2025.06.04.657785 — bioinformatics — Posted on 2025-06-04

4725 REnformer, a single-cell ATAC-seq predicting model to investigate open chromatin sites

Riva, S. G.; Sanders, E.; Wilson, T.; Stranieri, N.; Gur, R.; Baxter, M.; Hughes, J. R.

10.1101/2025.06.04.657786 — bioinformatics — Posted on 2025-06-04

4726 Domain-specific DNA binding activities of BRCA1 reveal substrate preferences for homologous recombination and telomere regulation

Lowran, K.; Campbell, L.; Cismas, E.; Wu, C. G.

10.1101/2024.05.30.594759 — biochemistry — Posted on 2025-06-04

4727 Diversity and Community Structure of Collembola (Hexapoda) across sites and microhabitats in the Bula Protected Area, a UNESCO-Listed Hyrcanian Forest at the Crossroads of Two Biodiversity Hotspots (Iran).

Tully, T.; Shayanmehr, M.; Yoosefi Lafooraki, E.; Ghajar Sepanlou, M.; D'Haese, C.

10.1101/2025.05.20.650270 — ecology — Posted on 2025-06-04

4728 Multiscale radiobiological assessment of laser-driven very high energy electrons versus conventional electrons

Giaccaglia, C.; Bayart, E.; Dubail, M.; Varma, C.; Heinrich, S.; Gautier, J.; Tafzi, A.; Kononenko, O.; Goddet, J.-p.; Lamarre-Jouenne, I.; Fouillade, C.; Flacco, A.

10.1101/2025.05.27.656200 — cell biology — Posted on 2025-06-04

4729 JADE family proteins regulate proteasome abundance and activity

Ebert, L. K.; Bargfrede, S.; Bohl, K.; Cohen, H.; Mueller, R.-U.; Benzing, T.; Schermer, B.

10.1101/2021.10.01.462752 — cell biology — Posted on 2025-06-04

4730 Estimating the completeness of large-scale single-cell sequencing projects

Miihkinen, M.; Chu, Y.; Vakkilainen, S.; Akimov, Y.; Aittokallio, T.

10.1101/2025.01.08.631769 — cell biology — Posted on 2025-06-04

4731 Cytokine expression profile in the human brain of older adults

Godoy, J. B.; Vialle, R. A.; dos Santos, L.; Raittz, R. T.; Wang, Y.; Menon, V.; De Jager, P.; Schneider, J. A.; Tasaki, S.; Bennett, D. A.; Guizelini, D.; Lopes, K.

10.1101/2025.06.02.657444 — molecular biology — Posted on 2025-06-04

4732 Focused ultrasound neuromodulation of mediodorsal thalamus disrupts decision flexibility during reward learning

Mackenzie, G.; Gilmour, W.; Yang, S. S.; Suveges, S.; MacFarlane, J.; Kanodia, A.; Manfield, J.; Khan, S.; Osman-Farah, J.; Marcerolo, A.; Steele, D.; Gilbertson, T.

10.1101/2025.06.03.657634 — neuroscience — Posted on 2025-06-04

4733 Two Sites, Two Languages: Dual-site tDCS and EEG Evidence for L1 Feature Transfer in L2

Salem, A. M.; Gallagher, D.; Yamada, E.; Ohta, S.

10.1101/2025.06.03.657565 — neuroscience — Posted on 2025-06-04

4734 Dendritic computation for rule-based flexible categorization

Xu, N.-l.; Zhang, Y.; Hu, Y.; Zhang, Z.; Du, J.; Cui, L.; Liu, Q.; Zhong, L.; Xin, Y.; Chai, R.; Deng, L.; Pan, J.; Schiller, J.

10.1101/2025.06.03.657766 — neuroscience — Posted on 2025-06-04

4735 Disentangling the cost of gene expression

Yan, Y.; Lin, J.

10.1101/2025.06.02.656972 — systems biology — Posted on 2025-06-04

4736 PANDA: A simple and affordable chamber system for measuring the whole-plant net CO2 flux

Schuler, P.; Li, Y.; Pittet, P.; Favre, P.; Li, M.-H.; Zhang, Y.-L.; Grossiord, C.

10.1101/2025.06.02.657330 — plant biology — Posted on 2025-06-04

4737 Loss of UFMylation supports prostate cancer metastasis and rewires cell metabolism towards hexosamine biosynthesis

Bozal Basterra, L.; Salazar Palacio, M. C.; Ferreira Campos, A. M.; Demicco, M.; Schmidt, D. R.; Sobczak, K.; Ereno-Orbea, J.; Altea Manzano, P.; Miranda Villanueva, A.; Martinez La Osa, B.; Garcia-Longarte, S.; Ponce Rodriguez, M.; Mendizabal, I.; Carlevaris Lopez, O.; Astobiza, I.; Martin Martin, N.; Zabala-Letona, A.; Talamillo, A.; Fernandez Garcia, J.; Azkargorta, M.; Iloro, I.; Barrio, R.; Elortza, F.; Fendt, S. M.; Vander Heiden, M. G.; Jimenez Barbero, J.; D. Sutherland, J.; Carracedo, A.

10.1101/2025.06.02.657324 — cancer biology — Posted on 2025-06-04

4738 Data-driven symbolic regression reveals microbial growth laws

Sun, T. A.; Kiciatovas, D.; Aapalampi, I.-K.; Kuosmanen, T.; Hiltunen, T.; Mustonen, V.

10.1101/2025.06.02.657040 — ecology — Posted on 2025-06-04

4739 A new resource of clonal pluripotent human stem cell lines exhibiting inter- and intra-embryo consistency and variability

Strawbridge, S. E.; Bates, L. E.; Ross, C.; Jones, K. A.; Azami, T.; Lohoff, T.; Paramor, M.; Murray, V.; Cidral, A. L.; Clarke, J.; Rostovskaya, M.; Guo, G.; Nichols, J.

10.1101/2025.06.02.657331 — developmental biology — Posted on 2025-06-04

4740 TGF-beta coordinates changes in Keratin gene expression during complex tissue regeneration.

Roehl, H. H.; Carney, T. J.; Zhang, C.; Worth, M.; Liu, Y.; Meshram, D. D.

10.1101/2025.06.02.657343 — developmental biology — Posted on 2025-06-04

4741 Towards Unified Neural Decoding with Brain Functional Network Modeling

Wu, D.; Bu, L.; Jia, Y.; Cao, L.; Li, S.; Zhou, Y.; Fan, S.; Ren, W.; Wu, D.; Wang, K.; Zhang, Y.; Ma, Y.; Yang, J.; Mohamad, S.

10.1101/2025.06.02.657011 — neuroscience — Posted on 2025-06-04

4742 BuzzWatch: uncovering multi-scale temporal patterns in mosquito behavior through continuous long-term monitoring

Maire, T.; Wan, Z.; Lambrechts, L.; Hol, F. J.

10.1101/2025.01.24.634688 — animal behavior and cognition — Posted on 2025-06-04

4743 NF-κB is a Central Regulator of Hypoxia-Induced Gene Expression

Shakir, D.; Batie, M.; Kwok, C.-S.; Cook, S. J.; Kenneth, N. S.; Rocha, S.

10.1101/2025.01.08.631917 — molecular biology — Posted on 2025-06-04

4744 RNAi epimutations conferring antifungal drug resistance are inheritable

Perez-Arques, C.; Navarro-Mendoza, M. I.; Xu, Z.; Walther, G.; Heitman, J.

10.1101/2024.10.15.618540 — microbiology — Posted on 2025-06-04

4745 Revealing synaptic nanostructure distribution through automatic dendritic spine segmentation and single-molecule localization microscopy

Zhang, J.; Vaidya, R. M.; Pendharkar, R.; Chung, H. J.; Selvin, P. R.

10.1101/2024.07.15.603616 — neuroscience — Posted on 2025-06-04

4746 Characterization of FLOWERING LOCUS T related genes and their putative gene regulatory network in semi-winter Brassica napus cultivar Zhongshaung11

Wang, J.; Zhou, H.-R.; Wang, J.; Turck, F. K.; Ding, N.; Taenzler, P.

10.1101/2024.11.13.623477 — plant biology — Posted on 2025-06-04

4747 Single-cell morphological profiling reveals insights into programmed cell death

Frey, B.; Holmberg, D.; Bystrom, P.; Bergman, E.; Georgiev, P.; Johansson, M. M.; Hennig, P.; Rietdijk, J.; Rosen, D.; Carreras-Puigvert, J.; Spjuth, O.

10.1101/2025.01.15.633042 — bioinformatics — Posted on 2025-06-04

4748 Population-scale inheritance analysis of 858,635 individuals reveals North Sea migration from the Middle Ages to the Industrial Revolution

Zhang, X.; Holm, P.; Scally, A.; Banasik, K.; Mortensen, L. H.; Fitzgerald, T. W.; Westergaard, D.; Chmura, P. J.; Ostrowski, S. R.; Sorensen, E.; Pedersen, O. B. V.; Schwinn, M.; Erikstrup, C.; Bruun, M. T.; Jensen, B. A.; Ullum, H.; Mikkelsen, C.; Hansen, T. F.; DBDS Genetic Consortium, ; Stefansson, K.; Brunak, S.; Birney, E.

10.1101/2025.03.19.643007 — genetics — Posted on 2025-06-04

4749 Thermal cycling-hyperthermia attenuates rotenone-induced cell injury in SH-SY5Y cells through heat-activated mechanisms

Kuo, Y.-Y.; Lin, G.-B.; Chen, Y.-M.; Liu, H.-H.; Hsu, F.-T.; Kung, Y.; Chao, C.-Y.

10.1101/2025.03.12.642756 — neuroscience — Posted on 2025-06-04

4750 PROTRIDER: Protein abundance outlier detection from mass spectrometry-based proteomics data with a conditional autoencoder

Klaproth-Andrade, D.; Scheller, I.; Tsitsiridis, G.; Loipfinger, S.; Mertes, C.; Smirnov, D.; Prokisch, H.; Yepez, V.; Gagneur, J.

10.1101/2025.02.01.636024 — bioinformatics — Posted on 2025-06-04

4751 Unifying the Electron Microscopy Multiverse through a Large-scale Foundation Model

He, L.; Shi, R.; Wang, W.; Cai, Y.; Ma, L.

10.1101/2025.04.13.648639 — bioengineering — Posted on 2025-06-04

4752 Aedes albopictus is rapidly invading its climatic niche in France: wider implications for biting nuisance and arbovirus control in Western Europe

Radici, A.; Hammami, P.; Cannet, A.; L'Ambert, G.; Lacour, G.; Fournet, F.; Garros, C.; Guis, H.; Fontenille, D.; Caminade, C.

10.1101/2025.02.14.638223 — ecology — Posted on 2025-06-04

4753 Single-nucleus transcriptional and chromatin accessibility analyses of maturing mouse Achilles tendon uncover the molecular landscape of tendon stem/progenitor cells

Asahara, H.; Tsutsumi, H.; Chiba, T.; Fujii, Y.; Matsushima, T.; Kimura, T.; Kanai, A.; Kishida, A.; Suzuki, Y.

10.1101/2024.10.24.619991 — developmental biology — Posted on 2025-06-04

4754 Optogenetic actin network assembly on lipid bilayer uncovers the network density-dependent functions of actin-binding proteins

Yamamoto, K.; Miyazaki, M.

10.1101/2024.12.25.630233 — cell biology — Posted on 2025-06-04

4755 OPM quantum sensors enhance non-invasive neuroimaging performance

Brickwedde, M.; Anders, P.; Krueger, P.; Sander, T.; Uhlhaas, P.

10.1101/2025.05.30.657044 — neuroscience — Posted on 2025-06-04

4756 Valence of sensory stimulation as a key feature for subcortical entrainment: Insights from human intracranial EEG

Hoyer, R. S.; Bernier, M.-F.; Martineau, L.; Lessard Bonaventure, P.; Labelle, C.; Borderie, A.; Blanchette, I.; Blumenthal, A.; Laureys, S.; Albouy, P.

10.1101/2025.01.03.631218 — neuroscience — Posted on 2025-06-04

4757 A Unique Role for the Hippocampus in Cue Integration During Human Spatial Navigation

Wei, Z.; Wolbers, T.; Chen, X.

10.1101/2025.05.14.654008 — neuroscience — Posted on 2025-06-04

4758 Cadences of the Collective: Conspecific Stimulation Patterns Interact with Endogenous Rhythms to Cue Socially Mediated Response Shifts

Larter, L. C.; Cushing, C. W.; Ryan, M. J.

10.1101/2025.06.03.657715 — animal behavior and cognition — Posted on 2025-06-03

4759 Butterfly wing iridescence is regulated by araucan, a direct target of Optix and Spalt

Chatterjee, M.; Finet, C.; Siegel, K. J.; Loh, L. S.; Delgado, S.; McDonald, J. M. C.; Markenscoff-Papadimitriou, E.; Monteiro, A.; Reed, R. D.

10.1101/2023.11.21.568172 — genetics — Posted on 2025-06-03

4760 Controllability analysis of macaque structural connectome from an edge centric perspective

Dey, S.; Bharti, E.; Deng, Z.-D.

10.1101/2025.03.07.642125 — neuroscience — Posted on 2025-06-03

4761 Accurate spatial localization of Allen Human Brain Atlas gene expression data for human neuroimaging

Yee, Y.; Liu, Y.; French, L.; Zeighami, Y.; Devenyi, G. A.; Chakravarty, M.

10.1101/2025.06.02.656812 — neuroscience — Posted on 2025-06-03

4762 Human brain network control of creativity

Rabinovich, R.; Cowan, R. L.; Libowitz, M.; Davis, T.; Rahimpour, S.; Beaty, R.; Bartoli, E.; Sheth, S.; Smith, E. H.; Shofty, B.

10.1101/2025.06.03.657648 — neuroscience — Posted on 2025-06-03

4763 Hierarchical diversification of instinctual behavior neurons by lineage, birth order, and sex

Elkahlah, N.; Lin, Y.; Shirangi, T. R.; Clowney, E. J.

10.1101/2025.06.03.657692 — neuroscience — Posted on 2025-06-03

4764 Spatiotemporal Dynamics of Invariant Face Representations in the Human Brain

Giri, A.; Smith, G.; Manting, C. L.; Dobs, K.; Adler, A.; Pantazis, D.

10.1101/2025.06.03.657646 — neuroscience — Posted on 2025-06-03

4765 Neural Traces of Forgotten Memories Persist in Humans and are Behaviorally Relevant

Willems, T.; Zervas, K.; Rabe, F.; Federspiel, A.; Henke, K.

10.1101/2025.06.02.656652 — neuroscience — Posted on 2025-06-03

4766 Unifying the EM Multiverse through a Large-scale Foundation Model

He, L.; Shi, R.; Wang, W.; Cai, Y.; Ma, L.

10.1101/2025.04.13.648639 — bioengineering — Posted on 2025-06-03

4767 Enzyme Activity Regulates Substrate Diffusion by Modulating Viscosity in Crowded Milieu

Bevilacqua, A.; Maciel, M. R.; Sullivan, M. V.; Pascarelli, S.; Dindo, M.; Shen, A. Q.; Laurino, P.

10.1101/2024.09.28.615560 — biochemistry — Posted on 2025-06-03

4768 Protamine expression in somatic cells condenses chromatin and disrupts transcription without altering DNA methylation

Puri, D.; Bott, A.; Baranda, M. V.; Torlak, E. D.; Merges, G. E.; Schorle, H.; Wagner, W.

10.1101/2025.06.02.657337 — cell biology — Posted on 2025-06-03

4769 The Balance between B55α and Greatwall expression levels predicts sensitivity to Greatwall inhibition in cancer cells

Zach, R.; Annis, M.; Martin-Guerrero, S. M.; Alatawi, A.; Chia, K. H.; Meredith, M.; Osborn, K.; Peter, N.; Pearce, W.; Booth, J.; Rajasekaran, M.; Dias, S.; Coleman-Evans, L.; Foster, W. R.; Harper, J. A.; Herbert, A. D.; Tighe, C.; Reuillon, T.; West, R.; Busby, O.; Burdova, K.; Crepin, D.; Ortoll, S.; Vaeteewoottacharn, K.; Dejsuphong, D.; Spencer, J.; Patel, H.; Le Grand, D.; Hunt, T. A.; Andrews, D. M.; Yamano, H.; Cutillas, P. R.; Oliver, A. W.; Ward, S. E.; Hochegger, H.

10.1101/2025.06.02.657035 — cell biology — Posted on 2025-06-03

4770 A novel tool for labeling intermediary proteins between two non-interacting proteins

Xie, L.; Li, H.; Gao, L.; Wu, G.; Ning, W.

10.1101/2025.06.02.657518 — cell biology — Posted on 2025-06-03

4771 Orderly mitosis shapes interphase genome organization

Guin, K.; Keikhosravi, A.; Chari, R.; Pegoraro, G.; Misteli, T.

10.1101/2025.06.03.657645 — cell biology — Posted on 2025-06-03

4772 Lost in communication: How Mueller glia cells fail to maintain retinal integrity in USH1C retinal organoids

Wenck, N.; Zorin, M.; Wang, Q.; Kroell, S.; Hay, K.; Rickert, C.; Mendez-Lago, M.; Karunanithi, S.; Athanasiou, D.; Ziaka, K.; De Angeli, P.; Stingl, K.; Kohl, S.; Cheetham, M. E.; Mittmann, T.; Nagel-Wolfrum, K.

10.1101/2025.06.03.657614 — cell biology — Posted on 2025-06-03

4773 Pharmacological targeting of SOS1-RAS interaction triggers pancreatic β-cell proliferation and sustainably reverses diabetic hyperglycemia

Papadimitropoulou, A.; Charalampous, C.; Kogionou, P.; Reinhardt, D.; Sonntag, J.; Gavalas, A.; Hofmann, M. H.; Erlmann, P.; Franti, M.; Doerr, J.; Klein, T.; Willis, G. R.; Serafimidis, I.

10.1101/2025.06.03.657628 — cell biology — Posted on 2025-06-03

4774 Translation-specific disruption of Col1a1 expression in multiple models of Spinal Muscular Atrophy can be rescued by Risdiplam.

Sharma, G.; Paganin, M.; Huang, N.; Perenthaler, E.; Signoria, I.; Faller, K.; Maniscalco, F.; Perrucci, C.; Donzel, D.; Chaytow, H.; Basso, M.; Lauria, F.; Kothary, R.; Van Der Pol, L.; Claus, P.; Groen, E. J.; Gillingwater, T. H.; Viero, G.

10.1101/2025.06.03.657600 — molecular biology — Posted on 2025-06-03

4775 Multi-Omic Profiling Identifies Conserved Metabolic Pathways Critical for SARS-CoV-2 Variants Infection

Farley, S. E.; Kyle, J. E.; Jahn, H.; Bramer, L.; Piehowski, P.; Shepmoes, A.; Kaiser, B. L.; Williams, S. M.; Eder, J. G.; Schultz, C.; Tafesse, F.

10.1101/2025.06.02.657371 — systems biology — Posted on 2025-06-03

4776 Dietary zinc restriction induces irreversible allodynia in adult mice

Matias, D. O.; Santos, B. L. R.; Martins, A. F.; Souza, L. P.; Miranda-Alves, L.; Cardoso, L. E. M.; Miranda, A. L. P.; Lima, L. M. T.

10.1101/2025.06.02.657430 — biochemistry — Posted on 2025-06-03

4777 CTx001 for geographic atrophy: a gene therapy expressing soluble, truncated complement receptor 1 (mini-CR1)

Rathi, S.; Didangelos, A.; Pisarenka, S.; Green, R.; Emery-billcliff, P.; Patel, N.; Whalley, P.; Zamira, P.; Tilakaratna, V.; Szula, E.; Hasan, R.; Munye, M.; Unwin, R.; Bishop, P.; Keefe, D.; Clark, S. J.

10.1101/2025.06.03.657557 — biochemistry — Posted on 2025-06-03

4778 Adenine-induced kidney disease alters the cortical bone metabolome of C57BL/6J mice in a manner that depends on sex

Stauffer, S.; Welhaven, H.; Hislop, B.; Jones, B. A.; Levi, M.; June, R. K.; Heveran, C.

10.1101/2025.06.02.657438 — biochemistry — Posted on 2025-06-03

4779 Thermodynamics and selection of the plasminogen activator inhibitor-1 latency transition

Haynes, L. M.; Holding, M. L.; Woodard, J.; Siemieniak, D.; Ginsburg, D.

10.1101/2025.06.03.655624 — biochemistry — Posted on 2025-06-03

4780 Linker Histone H1.5 Contributes to Centromere Integrity in Human Cells

Saha, A.; Bui, M.; Melters, D. P.; Ganesan, A. K.; Baek, S.; Bentahar, R. S.; Dalal, Y.

10.1101/2025.06.03.657682 — biochemistry — Posted on 2025-06-03

4781 Production, Purification, and Crystallization of Recombinant HER2 Tyrosine Kinase Domain (HER2-TKD) as a Platform for Structure-Based Drug Screening

Topalan, E.; Ciftci, H.; DeMirci, H.

10.1101/2025.06.02.657378 — biochemistry — Posted on 2025-06-03

4782 An Antibody Cocktail-Based Immunoaffinity-LC-MS Method Enabled Ultra-Sensitive and Robust Quantification of Circulating Proinsulin Proteoforms and C-peptide

Shen, Q.; Cao, W.; Zhang, M.; Lin, T.; Shi, T.; nierves, l.; Evans-Molina, C.; Peterman, s.; boeser, c.; Sims, E. K.; Monaco, G.; QIAN, W.-J.; Qu, J.

10.1101/2025.06.02.657397 — biochemistry — Posted on 2025-06-03

4783 In situ structure of bacterial 50S ribosomes at 2.98 A resolution from vitreous sections.

Al-Amoudi, A.; Baradaran, R.; Yuan, X.; Naschberger, A.

10.1101/2025.06.03.657669 — biochemistry — Posted on 2025-06-03

4784 Polyserine-tau interactions modulate tau fibrilization

Pratt, J.; McCann, K.; Kuo, J.; Parker, R.

10.1101/2025.06.03.657713 — biochemistry — Posted on 2025-06-03

4785 Structure of the energy converting methyltransferase (Mtr) of Methanosarcina mazei in complex with an oxygen-stress responsive small protein

Reif-Trauttmansdorff, T.; Herdering, E.; Bohn, S.; Pascoa, T.; Kahnt, J.; Zimmer, E.; Kumar, A.; Schmitz, R. A.; Schuller, J. M.

10.1101/2025.06.02.657420 — biochemistry — Posted on 2025-06-03

4786 Production, Purification, and Crystallization of Recombinant Epidermal Growth Factor Receptor Tyrosine Kinase Domain (EGFR-TKD) for Drug Screening Applications

TOPALAN, E.; Ciftci, H.; Demirci, H.

10.1101/2025.06.02.657332 — biochemistry — Posted on 2025-06-03

4787 Evaluating First-Pass, High Protein Capacity Desalting Techniques For Phosphoproteomics Applications

Callahan, A.; Mojumdar, A.; Salomon, A.; DaSilva, N. A.

10.1101/2025.06.03.657744 — biochemistry — Posted on 2025-06-03

4788 Highly sensitive and scalable time-resolved RNA sequencing in single cells with scNT-seq2

Qiu, Q.; Zhang, H.; Gao, W.; Li, F.; Liang, D.; Wu, H.

10.1101/2025.06.03.657745 — genomics — Posted on 2025-06-03

4789 Genomic factors contributing to the resilience of Salmonella enterica on ready-to-eat muskmelon

Esteban Cuesta, I.; Führer, L.; Porwollik, S.; Chu, W.; Fiddaman, S. R.; Sah, I.; McClelland, M.; Guldimann, C.

10.1101/2025.06.02.657348 — genomics — Posted on 2025-06-03

4790 Unisexual reproduction in the global human fungal pathogen Cryptococcus neoformans

Sun, S.; Bian, Z.; Xu, Z.; Choi, Y.; Heitman, J.

10.1101/2025.06.02.657540 — genetics — Posted on 2025-06-03

4791 An intergenerational lipid memory of the social environment in C. elegans

Wilhelm, T.; Chen, W.-W.; Wenzel, A.; Tang, W.; Cicerone, M. T.; Lehner, B.

10.1101/2025.06.03.657568 — genetics — Posted on 2025-06-03

4792 In vitro plasticity between ureteric epithelial and distal nephron identity and maturity is controlled by extracellular signals.

Kairath, P.; Er, P. X.; Wilson, S. B.; Ghobrial, I. T.; Vanslambrouck, J. M.; Chen, Y.-H.; Pruett-Miller, S. M.; Jain, S.; Little, M. H.

10.1101/2025.06.03.657609 — developmental biology — Posted on 2025-06-03

4793 Single cell multiomic analysis of the impact of Delta-9-tetrahydrocannabinol on HIV infected CD4 T cells

Ashokkumar, M.; Ge, R. Y.; Cooper-Volkheimer, A.; Margolis, D.; Li, Q.; Jiang, Y.; Murdoch, D. M.; Browne, E. P.

10.1101/2025.06.02.657468 — molecular biology — Posted on 2025-06-03

4794 Zika virus reprograms the host tRNA epitranscriptome to adapt translation to A-ending codon bias

ELDIN, P.; BERNARD, E.; VAGBO, C.; GEORGE, L.; AJIRO, M.; HAGIWARA, M.; SLUPPHAUG, G.; BRIANT, L.

10.1101/2025.06.03.657606 — microbiology — Posted on 2025-06-03

4795 A conserved glycan motif overcomes antigenic variation inducing broadly reactive antibodies against the zoonotic pathogen Streptococcus suis

Shi, Y.; Widmalm, G.; Sorieul, C.; Roodsant, T. J.; Rush, J. S.; Korotkova, N.; Jacobs, A. A. C.; Spaninks, M.; Grommen, R.; Dominguez-Medina, C. C.; Schimmel, I. M.; van der Wel, N. N.; Kenner, C. W.; Heiss, C.; Azadi, P.; Tan, L.; Codee, J. D. C.; Stegeman, A.; Schultsz, C.; Benedictus, L.; van Sorge, N. M.

10.1101/2025.06.02.656523 — microbiology — Posted on 2025-06-03

4796 Antimicrobial Susceptibility and Genomic Determinants of Resistance and Virulence in Mycoplasma cynos and Mycoplasma felis

Framst, I.; Beeton, M. L.; Peterson, S. W.; Martin, I.; Caswell, J. L.; Maboni, G.

10.1101/2025.06.02.657554 — microbiology — Posted on 2025-06-03

4797 Global Landscape of Human Kinase Motifs in Viral Proteomes

Alba, K.; Winters, D. M.; Makanani, S. K.; Kaushal, P.; Delgado, Y.; Ashley, I. A.; Sharma, S.; Blanc, S. F.; Kim, E.; Yaron, T.; Johnson, J. L.; Selby, J.; Hur, M.; Ni, J.; Nguyen, J.; Brent, M. H.; Yip, E.; Kassem, A.; Wohlschlegel, J.; Fregoso, O. I.; Wu, T.-T.; Li, M. M.; Bouhaddou, M.

10.1101/2025.06.02.657064 — microbiology — Posted on 2025-06-03

4798 Global proteomic analysis of Cryptococcus neoformans clinical strains reveals significant differences between latent and lethal infection

Betancourt, J. J.; McAlister, J. A.; Perez, J. M.; Meya, D. B.; Thomas, S. N.; Geddes-McAlister, J.; Nielsen, K.

10.1101/2025.06.03.657666 — microbiology — Posted on 2025-06-03

4799 AlphaFold 3 accurately models natural variants of Helicobacter pylori catalase KatA

Baylink, A.

10.1101/2025.06.02.657526 — microbiology — Posted on 2025-06-03

4800 Sequential exposure to anoxic/oxic conditions leads to biotransformation and detoxification of sitagliptin in urban hyporheic zones

Klaes, S.; Gerundt, K.; Deobald, D.; Henneberger, L.; Escher, B.; Adrian, L.; Cooper, M.

10.1101/2025.06.03.657625 — microbiology — Posted on 2025-06-03

4801 The Role of SARS-CoV-2 Nucleocapsid Protein Persistence in Inducing Chronic Type I Interferon and Mitochondrial Dysfunction.

Koenig, A.; Quasem, M.; Zink, B.; Abdulla-Zoda, D.; Karunanidhi, P.; Sienko, K.; Geier, C.; Jayaraman, V.; Malik, R.; Ahmed, K.; Shanley, P. F.; Koenig, I. A.

10.1101/2025.06.02.657400 — immunology — Posted on 2025-06-03

4802 A histidine switch regulates pH-dependent filament formation by the caspase-9 CARD

Rawal, S.; Kolaric, Đesika; Bohn, S.; Kolb, D.; Pavkov-Keller, T.; Pritisanac, I.; Madl, T.; Desfosses, A.; Alderson, T. R.

10.1101/2025.06.02.657148 — biophysics — Posted on 2025-06-03

4803 Thermally activated irreversible homogenization of G-quadruplexes in an ALS/FTD-associated nucleotide expansion

Ross, D.; Lewis, O.; McLean, O.; Bhanot, S.; Donahue, S.; Baker, R.; Dias, R.; Eagerton, D.; Mohanty, V.; Mohanty, B. K.

10.1101/2025.06.02.657482 — biophysics — Posted on 2025-06-03

4804 Widespread distribution of the BpfA-carrying bacteria involved in the bisphenol F degradation in Pseudomonadota and Actinomycetota

Wang, C.; Zhang, M.; Huang, Y.; Li, Q.; Hu, J.; Pan, K.; Zhu, Q.; Jiang, W.; Qiu, J.; Yan, X.; Hong, Q.

10.1101/2025.06.02.657393 — microbiology — Posted on 2025-06-03

4805 Dual-Resonance Shapes REM Sleep: A Mechanistic Link Between Homeostasis, Circadian Phase, and Sleep Deficit.

Zhdanova, I. V.; Kharchenko, V.

10.1101/2025.05.02.651911 — neuroscience — Posted on 2025-06-03

4806 Adhesive implant interfaces prevent fibrosis by disrupting mechanobiological feedback

Jafari, M.; Aymon, B.; Hong, Y.; Shakiba, D.; Genin, G. M.; Zhao, X.; Alisafaei, F.

10.1101/2025.06.01.657311 — biophysics — Posted on 2025-06-03

4807 Circular van Krevelen diagram for visualizing metabolic pathways

Li, S.

10.1101/2025.05.31.657198 — bioinformatics — Posted on 2025-06-03

4808 Self-Assembled siRNA-Gold Supraclusters Detected at the Single-Molecule Level in the NIR-II Window

Ayed, Z.; Martin Munoz, B.; Vandekerckhove, C. I.; Faure, V.; Ali, S. N. S.; Coll, J.-L.; Cognet, L.; Le Guevel, X.

10.1101/2025.06.01.657319 — bioengineering — Posted on 2025-06-03

4809 Optimizing Strain Selection for Association Studies Under Hard Cost Constraints

Rau, C. D.; Bradley, P. H.

10.1101/2025.05.31.657208 — genomics — Posted on 2025-06-03

4810 The role of secondary pollinators in the evolution of complex colour signals in a bimodal pollination system

Khoury, K. L.; Agren, J.; Peter, C.; Sletvold, N.; Newman, E. L.

10.1101/2025.06.01.657234 — evolutionary biology — Posted on 2025-06-03

4811 Microbial dispersal from surrounding vegetation influences phyllosphere microbiome assembly of corn and soybean

Meyer, K. M.; Lindow, S. E.

10.1101/2025.05.31.657201 — ecology — Posted on 2025-06-03

4812 Dengue virus suppression by 25-hydroxycholesterol is mediated by a combination of membrane fusion inhibition, innate immune activation and cholesterol biosynthesis dysregulation

Chakraborty, D.; Sannigrahi, A.; Kaif, M.; Patra, A.; Thakkar, D.; Roy, R.

10.1101/2025.05.31.657153 — cell biology — Posted on 2025-06-03

4813 Evolution of genotypic and phenotypic diversity in multispecies biofilms

Amador, C. I.; Moskovitz, S. Z.; Maccario, L.; Herschend, J.; Kramer, I. S.; Jeckel, H.; Cooper, V. S.; Drescher, K.; Neu, T. R.; Burmolle, M.; Roder, H. L.

10.1101/2023.10.08.561388 — microbiology — Posted on 2025-06-03

4814 Ethanol inhibits dorsomedial striatum acetylcholine release

Slade, L. E.; Levy, C. C.; Mitcham, J.; Salinas, A. G.

10.1101/2025.05.30.656893 — neuroscience — Posted on 2025-06-03

4815 eyeris: A flexible, extensible, and reproducible pupillometry preprocessing framework in R

Schwartz, S. T.; Yang, H.; Xue, A. M.; He, M.

10.1101/2025.06.01.657312 — neuroscience — Posted on 2025-06-03

4816 Human intention inference with a large language model can enhance brain-computer interface control: A proof-of-concept study

Shiinoki, S.; Iwama, S.; Ushiba, J.

10.1101/2025.06.01.657282 — neuroscience — Posted on 2025-06-03

4817 NeuID, a novel neuron-specific lncRNA, resolved a key epigenetic mechanisms linking gene silencing to Alzheimer's disease

Pradhan, R.; Petrovic, Z.; Sakib, M. S.; Schroeder, S.; Krueger, D. M.; Pena, T.; Diniz, E.; Burkhardt, S.; Schuetz, A.-L.; Grz_dzielewska, I.; Toischer, K.; Stein, T. D.; Blusztajn, J. K.; Delalle, I.; Radulovic, J.; Sananbenesi, F.; Fischer, A.

10.1101/2025.06.01.657217 — neuroscience — Posted on 2025-06-03

4818 Resting-state functional dynamics alterations relate to plasma amyloid markers and explain memory impairments in the TgF344-AD model of Alzheimer's disease

Al Awlaqi, A.; De Waegenaere, S.; Berckmans, L.; Vanherle, S.; Griffis, J.; Dewachter, I.; Verhoye, M.; Adhikari, M. H.

10.1101/2025.06.01.657264 — neuroscience — Posted on 2025-06-03

4819 Paraventricular Thalamus Hyperactivity Mediates Stress-Induced Sensitization of Unlearned Fear but Not Stress-Enhanced Fear Learning (SEFL)

Nishimura, K. J.; Paredes, D.; Nocera, N. A.; Aggarwal, D.; Drew, M. R.

10.1101/2025.05.30.657116 — neuroscience — Posted on 2025-06-03

4820 Novel mouse model reveals neurodevelopmental origin of PMM2-CDG brain pathology

Edmondson, A. C.; Budhraja, R.; Xia, Z.; Melendez-Perez, A.; Cai, C.; Radenkovic, S.; Collins, A.; Shiplett, E.; Hill, S. F.; Somarowthu, A.; Dam, J.; Pai, L.-L.; Santi, M.; Kim, S.; He, M.; Goldberg, E.; Kozicz, T.; Morava, E.; Pandey, A.; Zhou, Z.

10.1101/2025.06.01.657261 — neuroscience — Posted on 2025-06-03

4821 A genetically encoded fluorescent sensor for monitoring spatiotemporal prostaglandin E2 dynamics in vivo

Wang, L.; Yang, Y.; Deng, F.; Yan, Y.; Li, Y.

10.1101/2025.06.01.657218 — neuroscience — Posted on 2025-06-03

4822 Dissecting crosstalk induced by cell-cell communication using single-cell transcriptomic data

Hou, J.; Zhao, W.; Nie, Q.

10.1101/2025.05.31.657197 — systems biology — Posted on 2025-06-03

4823 Meta-Analysis of Wild Relatives and Domesticated Species of Rice, Tomato, and Soybean Using Publicly Available Transcriptome Data

Yumiya, M.; Bono, H.

10.1101/2025.06.01.656526 — plant biology — Posted on 2025-06-03

4824 Evolving resistance patterns in Tetranychus urticae and Bemisia tabaci in Greece

Kampouraki, A.; Ilias, A.; Papapostolou, K.-M.; Malliaraki, S.; Pyrgianakis, I.; Karakosta, E.; Vontas, J.; Tsagkarakou, A.; Mavridis, K.

10.1101/2025.05.31.656940 — pharmacology and toxicology — Posted on 2025-06-03

4825 Lack of synergy between AR targeted therapies and PARP inhibitors in homologous recombination-proficient prostate cancer

Traphagen, N. A.; Wheeler, E.; Li, R.; Lu, F.; Ahmed, B.; Tewari, A. K.; Balk, S. P.; Nelson, P. S.; Corey, E.; Long, H.; D'Andrea, A. D.; Qiu, X.; Brown, M.

10.1101/2025.06.02.657429 — cancer biology — Posted on 2025-06-03

4826 The mutational landscape defines the proteome and spatial organization of tumor, stroma and immune cells in ovarian cancer

Dabke, K.; Gull, N.; Kreimer, S.; Peng, P.-C.; Diaz, M.; Cheikh, B. B.; Dhawan, A.; Evans, K.; Ng, N.; Yuan, X.; Rimel, B.; Li, A. J.; Karlan, B. Y.; Knott, S. V.; Gayther, S. A.; Parker, S. J.; Jones, M. R.

10.1101/2025.06.01.655822 — cancer biology — Posted on 2025-06-03

4827 Targeting HMGA1-driven leukemic transformation in myeloproliferative neoplasms with pacritinib

Yang, C.; Li, Y.; Chen, K.; Tang, X.; Zhang, Q.; Qin, W.; Fu, J.; Zeng, Y.; Ma, X.; Zheng, W.; Huang, Z.; Zhang, W.; Tang, G.; Guan, M.; Wu, Z.

10.1101/2025.06.01.657170 — cancer biology — Posted on 2025-06-03

4828 Kinetic Proofreading through Parallel Reactions on a Single T Cell Receptor

Morita, S.; Groves, J. T.

10.1101/2025.06.01.657268 — biophysics — Posted on 2025-06-03

4829 Non-Invasive Mechanical-Functional Analysis of Individual Liver Mitochondria by Atomic Force Microscopy

Zorikova, E. O.; Chourasia, S.; Rosenhek-Goldian, I.; Cohen, S. R.; Nesterov, S. V.; Gross, A.

10.1101/2025.06.01.657242 — biophysics — Posted on 2025-06-03

4830 Deep-Learning on condition specific expression profiles reveal critical cytosines in gene regulation

Kesarwani, V.; Kumar, A.; Sharma, A.; Gupta, S.; Shankar, R.

10.1101/2025.06.01.657178 — bioinformatics — Posted on 2025-06-03

4831 De novo design of protein-binding aptamers through deep reinforcement learning assembly of nucleic acid fragments

Guo, G.; Guo, L.; Qian, J.; He, X.; Qian, X.; Wang, L.; Huang, Q.

10.1101/2025.06.01.657174 — bioinformatics — Posted on 2025-06-03

4832 Mesenchymal Stem Cell Membrane Coating of Gelatin Nanospheres with Drug Release Ability for Inflammatory Tissue Targeting

Moriyama, K.; Ando, M.; Sakurai, K.; Sakurai, I.; Tabata, Y.

10.1101/2025.06.01.657318 — bioengineering — Posted on 2025-06-03

4833 Hand Drawing Image based Causal Representation Learning for Robust Parkinson's Disease Feature Extraction and Detection

Kim, D.

10.1101/2025.06.01.657220 — bioengineering — Posted on 2025-06-03

4834 Desmoplakin Haploinsufficiency Underlies Cell-Cell Adhesion Failure in DSP Cardiomyopathy and is Rescued by Transcriptional Activation

Smith, E. D.; Jin, K.; Ferguson, B.; Tsan, Y.-C.; DePalma, S. J.; Meisner, J. K.; Renberg, A.; Bedi, K.; Friedline, S.; Margulies, K. B.; Baker, B. M.; Helms, A. S.

10.1101/2025.06.01.657304 — genetics — Posted on 2025-06-03

4835 Behavioral plasticity and the valence of indirect interactions

Fahimipour, A. K.; Gil, M. A.; Hein, A. M.

10.1101/2024.08.15.608151 — ecology — Posted on 2025-06-03

4836 A method for creating custom 3D-printed molds to facilitate zebrafish imaging studies, including of cardiac development.

Miller, J. C.; Koirala, P.; Argote de la Torre, M. F.; Farsi, M.; Lieberth, J.; Shrestha, R.; Bloomekatz, J.

10.1101/2025.06.01.657246 — developmental biology — Posted on 2025-06-03

4837 prdm1a drives a fate switch between hair cells of different mechanosensory organs

Sandler, J.; Tsai, Y.-Y.; Chen, S.; Sabin, L.; Lush, M.; Sur, A.; Ellis, E.; Tran, N. T. T.; Cook, M.; Scott, A. R.; Kniss, J. S.; Farrell, J. A.; Piotrowski, T.

10.1101/2025.06.01.657251 — developmental biology — Posted on 2025-06-03

4838 Title: Retinal Calcium Waves Coordinate Uniform Tissue Patterning of the Drosophila Eye.

Choi, B. J.; Chen, Y.-C.; Desplan, C.

10.1101/2025.06.02.657513 — developmental biology — Posted on 2025-06-03

4839 Wnt11 Positively Regulates Neonatal Cardiomyocyte Maturation at the Interphase of Life via Frizzled 4 Receptor

Kang, X.; Moci, J.; Wolf, C.; Touma, M.

10.1101/2025.06.01.657323 — cell biology — Posted on 2025-06-03

4840 Novel Adomaviruses Associated with Blotchy Bass Syndrome in Black Basses (Micropterus spp.)

Iwanowicz, L.; Raines, C.; Young, K.; Blazer, V.; Walsh, H.; Smith, G.; Holt, C.; Odenkirk, J.; Jones, T.; Hessenauer, J.-M.; Biggs, M.; Buck, C.; Greer, J.; Cornman, R. S.

10.1101/2025.06.01.657292 — microbiology — Posted on 2025-06-03

4841 ACOD1 regulates microglial arginine metabolism and inflammatory responses

Karadima, E.; Yilmaz, C.; Sinha, A.; Fodelianaki, G.; Dimothyra, S.; Nirakis, N.; Traikov, S.; Zamboni, N.; Wielockx, B.; Verginis, P.; Peitzsch, M.; Chavakis, T.; Alexaki, V. I.

10.1101/2025.06.01.657243 — immunology — Posted on 2025-06-03

4842 Diverse modes of T cell receptor sequence convergence define unique functional and cellular phenotypes

Schattgen, S.; Vegesana, K.; Hazelton, W. D.; Minervina, A.; Valkiers, S.; Slowikowski, K.; Smith, N. P.; MGH COVID-19 Team, ; Villani, A.-C.; Thomas, P. G.; Bradley, P.

10.1101/2025.05.31.657155 — immunology — Posted on 2025-06-03

4843 Cognitive and Synaptic Impairment Induced by Deficiency of Autism Risk Gene Smarcc2 and its Rescue by Histone Deacetylase Inhibition

Li, P.; Men, S.; Patel, P. J.; Saleem, K.; Zhong, P.; Tam, K. W.; Feng, J.; Yan, Z.

10.1101/2025.05.29.656867 — neuroscience — Posted on 2025-06-03

4844 Neuronal avalanches as a predictive biomarker of BCI performance- towards a tool to guide tailored training

Mannino, C.; Sorrentino, P.; Chavez, M.; Corsi, M.-C.

10.1101/2025.05.31.657206 — neuroscience — Posted on 2025-06-03

4845 Direct Binding of FGFR3 Autoantibodies to Sensory Neurons Drives Hyperexcitability and Mechanical Hypersensitivity

Salih, L. Y.; Dumaire, N. L.; Vest, E.; Alkhateeb, H.; Moritz, C. P.; Tholance, Y.; Camdessanche, J.-P.; Antoine, J.-c.; Honnorat, J.; Kafaie, J.; francois-Moutal, L.; Moutal, A.

10.1101/2025.06.01.657230 — neuroscience — Posted on 2025-06-03

4846 Measurements and simulations of transmembrane water exchange by diffusion NMR methods: From yeast cells to optic nerve ex vivo

Scher, Y.; Reuveni, S.; Cohen, Y.

10.1101/2025.06.01.657299 — neuroscience — Posted on 2025-06-03

4847 A characterization of mouse retinal ganglion cell types labeled with AAV tools

Son, S.; Beaudoin, D. L.; Hassan, A. R.; Akpo, M. S.; Ichinose, T.; Garrett, A. M.

10.1101/2025.06.02.657062 — neuroscience — Posted on 2025-06-03

4848 Bazedoxifene rescues sexually dimorphic autistic-like abnormalities in mice carrying a biallelic MDGA1 mutation

Kim, S.; Kim, J.; Kim, B.; Kim, H.; Yang, Y.; Lee, H. J.; Kim, J. Y.; Um, J. W.; Ko, J.

10.1101/2025.06.01.657278 — neuroscience — Posted on 2025-06-03

4849 How individual vigor shapes human-human physical interaction

Verdel, D.; Berret, B.; Burdet, E.

10.1101/2025.06.01.657232 — neuroscience — Posted on 2025-06-03

4850 Non-conscious Multisensory Integration in the Ventriloquist Effect

Turkovich, E.; Sankaran, S.; Dou, W.; Samaha, J.

10.1101/2025.06.01.657322 — neuroscience — Posted on 2025-06-03

4851 The Neuromuscular system of Chironomus vitellinus (Diptera: Chironomidae)

Reyes-Maldonado, R.; Ramirez, A.; Marie, B.

10.1101/2025.06.01.657287 — neuroscience — Posted on 2025-06-03

4852 Resistance to Atrial Fibrillation Domestication and Mitochondrial Dysfunction in Sheep: a potential key role of the TCA Cycle and mitochondrial redox state

Caluori, G.; Nattel, S.; Pinson, B.; Naud, P.; Beauvoit, B.; Claverol, S.; Vaillant, F.; Charron, S.; Guilloteau, F.; Loyer, V.; Constantin, M.; Popa, M.; Belykh, A.; Haeberlin, A.; Ploux, S.; Mahamat, H. A.; Dubois, R.; Guillot, B.; Krisai, P.; Kamakura, T.; Bernus, O.; Jais, P.; Dos Santos, P.; Pasdois, P.

10.1101/2025.06.01.657249 — pathology — Posted on 2025-06-03

4853 Multimodal imaging reveals a lysosomal drug reservoir that drives heterogeneous distribution of PARP inhibitors

Moncayo, C. R.; Restuadi, R.; Zhang, G.; Marks, D.; Ortega-Prieto, P.; Doherty, E.; Lambie, N.; Whilding, C.; Andrew, I.; Montoya, A.; Patel, B.; Pennycook, B. R.; Wu, V.; Takats, Z.; Matthews, N.; Young, G. R.; Shliaha, P.; Game, L.; Lenhard, B.; McNeish, I.; Fotopoulou, C.; Barr, A. R.; Cunnea, P.; Hall, Z.; Fets, L.

10.1101/2025.05.31.656628 — cancer biology — Posted on 2025-06-03

4854 In Search of the Perfect Model: How Cancer Cell Lines Relate to Native Cancers

Paloots, R.; Yang, Z.; Baudis, M.

10.1101/2024.05.15.594310 — cancer biology — Posted on 2025-06-03

4855 GAN-Enhanced Machine Learning and Metabolic Modeling Identify Reprogramming in Pancreatic Cancer

Razmpour, T.; Tabibian, M.; Roohi, A.; Saha, R.

10.1101/2025.06.01.657244 — cancer biology — Posted on 2025-06-03

4856 Mutation profiling of KRAS and BRAF in primary tumors and circulating tumor cells of colorectal cancer patients using PNA-LNA molecular switch

Islam, M. S.; Ranjit, E.; Aktar, S.; Moetamedirad, N.; Lu, C. T.; Shiddiky, M. J. A.; Gopalan, V.; Lam, A. K.

10.1101/2025.06.01.657284 — cancer biology — Posted on 2025-06-03

4857 A simple method for introducing a cutoff to hydrodynamic interactions in Brownian dynamics simulations

Elcock, A. H.

10.1101/2025.05.31.657166 — biophysics — Posted on 2025-06-03

4858 Competing Subclones and Fitness Diversity Shape Tumor Evolution Across Cancer Types

Chen, H.; Shu, J.; Mudappathi, R.; Li, E.; Wang, P.; Bergsagel, L.; Yang, P.; Sun, Z.; Zhao, L.; Shi, C.; Townsend, J. P.; Maley, C.; Liu, L.

10.1101/2025.05.31.657191 — bioinformatics — Posted on 2025-06-03

4859 Structome-AlignViewer: On Confidence Assessment in Structure-Aware Alignments

Malik, A. J.; Mao, S.; Hugenholtz, P. J.; Ascher, D. B.

10.1101/2025.05.31.657027 — bioinformatics — Posted on 2025-06-03

4860 DeepLC introduces transfer learning for accurate LC retention time prediction and adaptation to substantially different modifications and setups

Bouwmeester, R.; Nameni, A.; Declercq, A.; Devreese, R.; Velghe, K.; Gorshkov, V.; Penanes, P. A.; Kjeldsen, F.; Rompais, M.; CARAPITO, C.; Gabriels, R.; Martens, L.

10.1101/2025.06.01.657225 — bioinformatics — Posted on 2025-06-03

4861 scVIVA: a probabilistic framework for representation of cells and their environments in spatial transcriptomics

Levy, N.; Ingelfinger, F.; Bakulin, A.; Cinnirella, G.; Boyeau, P.; Nadler, B.; Ergen, C.; Yosef, N.

10.1101/2025.06.01.657182 — bioinformatics — Posted on 2025-06-03

4862 BifurcatoR: A Framework for Revealing Clinically Actionable Signal in Variance Masquerading as Noise

Madaj, Z. B.; Ding, M.; Khoo, C. K.; Tokarski, E.; Fagnocchi, L.; PERMUTE, ; Li, Z.; Riordan, J.; Pospisilik, J. A.; Nadeau, J.; Lary, C.; Triche, T. J.

10.1101/2025.06.01.657083 — bioinformatics — Posted on 2025-06-03

4863 A bio-informatics approach to identify new drug targets in multidrug-resistant bacteria

Ramsden, I.; de Jong-Hoogland, D.; Chiam, A. J.; Ulmschneider, M. B.

10.1101/2025.05.31.657076 — bioinformatics — Posted on 2025-06-03

4864 A Set of Novel Far-Red Fluorescent Proteins for Temporal Domain Multiplexing and Super-Resolution Imaging

Olumayowa, F.; Rong, Z.; Wang, R.; Papadaki, S.; Wang, X.; Cao, J.; Subach, F. V.; Koster, R. W.; Namikawa, K.; Piatkevich, K. D.

10.1101/2025.06.01.657196 — biochemistry — Posted on 2025-06-03

4865 Assessing Attentiveness and Cognitive Engagement across Tasks using Video-based Action Understanding in Non-Human Primates

Cheung, S.-M.; Neumann, A.; Womelsdorf, T.

10.1101/2025.05.31.657183 — animal behavior and cognition — Posted on 2025-06-03

4866 Group handling using Mus-Bus, a cage-transfer cum enrichment device reduces stress, anxiety and time taken for cage changes and enhances voluntary interaction in C57BL/6NCrl mice

Vijayakumar Sreelatha, H.; Prajapati, A. K.; Mehta, K.

10.1101/2025.05.31.656571 — animal behavior and cognition — Posted on 2025-06-03

4867 A Single-cell and Spatially Resolved Cell Atlas of Human Esophageal Squamous Cell Carcinoma

shi, y.; An, K.; Qi, Y.; Zhang, X.; Wang, Y.; Zhang, X.; Zhou, S.; Li, O.; Zhou, J.; Du, Y.; Hou, M.; Yang, Y.-G.; Kan, Q.; Tian, X.

10.1101/2025.06.01.657221 — genomics — Posted on 2025-06-03

4868 On wing pattern and wing shape evolution in Giant Silk Moths: Lessons from wing development in Luna and Polyphemus Moths

Sourakov, A.

10.1101/2025.06.01.657247 — evolutionary biology — Posted on 2025-06-03

4869 Simulation-based spatially explicit close-kin mark-recapture

Patterson, G.; Goodfellow, C. K.; Ting, N.; Kern, A. D.; Ralph, P. L.

10.1101/2025.05.31.656892 — ecology — Posted on 2025-06-03

4870 Transcription factors SP5 and SP8 drive primary cilia formation

Liang, Y.; Koche, R.; Chalamalasetty, R. B.; Stephen, D. N.; Kennedy, M. W.; Lao, Z.; Pang, Y.; Kuo, Y.-Y.; Lee, M.; Lobo, F. P.; Huang, X.; Hadjantonakis, A.-K.; Yamaguchi, T. P.; Anderson, K. V.; Joyner, A. L.

10.1101/2025.06.03.657415 — developmental biology — Posted on 2025-06-03

4871 A Cell Type-Specific Role for Tubb6 in Ciliogenesis of Xenopus Epidermal Multiciliated Cells

Xu, X.; Ross, J.; Clark, F.; Wei, S.; Sun, J.

10.1101/2025.05.31.657203 — developmental biology — Posted on 2025-06-03

4872 Deep Learning Pipeline for Segmentation and Quantification of Overlapping Membranes in 2D Image

Taguchi, S.; Chagi, K.; Kawai, H.; Irie, K.; Suda, Y.

10.1101/2025.06.01.656963 — cell biology — Posted on 2025-06-03

4873 Structural basis of liver de-targeting and neuronal tropism of CNS-targeted AAV capsids

Brittain, T. J.; Jang, S.; Coughlin, G. M.; Barcelona, B. H.; Giriat, I.; Ristic, F.; Appling, N.; Chossis, C. P.; Shay, T. F.; Gradinaru, V.

10.1101/2025.06.02.655683 — molecular biology — Posted on 2025-06-03

4874 Mobile genetic elements that shape microbial diversity and functions in thawing permafrost soils

Guo, J.; Aroney, S.; Dominguez-Huerta, G.; Smith, D.; Vik, D.; Ansah, C. O.; Pratama, A. A.; Solonenko, S.; Tian, F.; Howard-Varona, C.; Zhong, Z.; Fofana, A.; Smith, G.; Hodgkins, S. B.; Cronin, D.; EMERGE Field Teams 2010-2019, ; EMERGE Coordinators, ; Woodcroft, B. J.; Tyson, G. W.; Rich, V. I.; Sullivan, M. B.; Roux, S.; Bagby, S. C.

10.1101/2025.02.12.637893 — microbiology — Posted on 2025-06-03

4875 Evaluating Best Practices for Isolating Pyrophilous Bacteria and Fungi from Burned Soil

Enright, D. J.; Veerabahu, A.; Quaal, R. J.; Vega, M.; Nguyen, A.; Grindeland, J.; Randolph, J. W. J.; Ordonez, M. E.; Glassman, S. I.

10.1101/2024.09.16.612975 — microbiology — Posted on 2025-06-03

4876 Non-Physiological Potassium Concentrations in Commercial Culture Media Trigger Acute Epileptiform Activity in Human iPSC-Derived Neurons

Lyckenvik, T.; Izsak, J.; Arthursson, E.; Forsberg, M.; Johansson, K.; Zetterberg, H.; Axelsson, M.; Wasling, P.; Theiss, S.; Hanse, E.; Illes, S.

10.1101/2025.05.31.657142 — neuroscience — Posted on 2025-06-03

4877 Social experience alters behaviors by reprogramming the Fruitless pathway and circadian state in Drosophila

Du, C.; Okuwa, S.; Jia, L.; Rozados Barreiro, M.; Scott, S.; Sotelo Fonseca, J. E.; Mabuchi, Y.; Appadoo, S.; Garcia, L.; Rohrbach, S.; Koruk, S.; Balkanli, E.; Lin, J.; Yapici, N.; Jones, C.; Volkan, P.

10.1101/2025.05.30.657129 — neuroscience — Posted on 2025-06-03

4878 Power-to-power cross-frequency coupling as a novel approach for temporal lobe seizure detection and analysis

Lehmann, B.; Medvedev, A. V.

10.1101/2025.05.31.657189 — neuroscience — Posted on 2025-06-03

4879 Antidepressants reactivate developmental plasticity through remodeling of extracellular matrix

Nguyen, P. T.; Sun, E.; Shi, Y.; Tamura, S.; Xiao, Y.; Lacefield, C.; Turi, G.; Hen, R.

10.1101/2025.01.03.631260 — neuroscience — Posted on 2025-06-03

4880 A theoretical mechanism for ocular emmetropization.

Crewther, D. P.; Riddell, N.; Crewther, S. G.

10.1101/2025.06.01.657224 — neuroscience — Posted on 2025-06-03

4881 Sleep loss suppresses the motivation to prepare for sleep

Freitag, N.; El-Tawil, K.; Crane, A.; Hilo, V.; Saad, G.; Eban-Rothschild, A.

10.1101/2025.06.02.657276 — neuroscience — Posted on 2025-06-03

4882 FastACI: A Toolbox for Investigating Auditory Perception using Reverse Correlation

Osses, A.; Le Bagousse, A.; Varnet, L.

10.1101/2025.06.01.657236 — neuroscience — Posted on 2025-06-03

4883 Molecular Subtyping Based on Hippocampal Cryptic Exon Burden Reveals Proteome-wide Changes Associated with TDP-43 Pathology across the Spectrum of LATE and Alzheimer's Disease

Trautwig, A. N.; Shantaraman, A.; Chung, M.; Dammer, E. B.; Ping, L.; Duong, D. M.; Petrucelli, L.; Ward, M. E.; Glass, J. D.; Nelson, P. T.; Levey, A. I.; McEachin, Z. T.; Seyfried, N. T.

10.1101/2025.05.30.656396 — neuroscience — Posted on 2025-06-03

4884 γ-glutamyl-cysteine is a critical intermediate in glutathione-led amelioration of PFOS-neurotoxicity

Sammi, S. R.; Boonpraman, N.; Kuhn, N. C.; Cannon, J. R.

10.1101/2025.06.01.657248 — neuroscience — Posted on 2025-06-03

4885 Deciphering the combinatorial expression pattern and genetic regulatory mechanisms of Beats and Sides in the olfactory circuits of Drosophila

Duan, Q.; Okuwa, S.; Estrella, R.; Yeung, C.; Chen, Y.-C. D.; Rio, L. Q.; Vien, K. M.; Volkan, P. C.

10.1101/2025.05.31.657193 — neuroscience — Posted on 2025-06-03

4886 A Solid-Phase Extraction Capture (SPEC) workflow in nanoliter volumes for fast, robust and ultrasensitive proteomics

Heymann, T.; Oliinyk, D.; Henneberg, L.; Rodriguez, E.; Bardziukova, A.; Oeller, M.; Murgia, M.; Olsen, J. V.; Stoychev, S.; Bache, N.; Mann, M.

10.1101/2025.05.31.657165 — systems biology — Posted on 2025-06-03

4887 Expanding salivary biomarker detection by creating a synthetic neuraminic acid sensor via chimeragenesis

Verzino, S. J.; Priyev, S. A.; Sanchez Estrada, V. A.; GholamianMoghaddam, A.; Crowley, G. X.; Rutkowski, A.; Lam, A. C.; Nazginov, E. S.; Kotemelo, P.; Bacelo, A.; Flannery, J. D.; Gavrilov, K.; Sukhram, D. T.; Vazquez, F. X.; Fernandez Juarez, J.

10.1101/2024.06.13.598939 — synthetic biology — Posted on 2025-06-03

4888 Imaging of specialized plant cell walls by improved cryo-CLEM and cryo-electron tomography

Daraspe, J.; Bellani, E.; De Bellis, D.; Genoud, C.; Geldner, N.

10.1101/2025.06.01.657137 — plant biology — Posted on 2025-06-03

4889 Optimization of Bio-Orthogonal Non-Canonical Amino acid Tagging (BONCAT) for effective low-disruption labelling of Arabidopsis proteins in vivo

Hassan, N.; Braun, S.; Talasila, M.; Fahlman, R.; Uhrig, R. G.

10.1101/2025.05.22.655591 — plant biology — Posted on 2025-06-03

4890 Oxidative stress mediates cardiac electrophysiological injury in inhalation exposure to flavored vaping products.

Abou-Assali, O. J.; Reiser, M.; Chang, M.; Chidipi, B.; Asswaytte, R.; Zhang, Y.; Szekeres, C.; Calcul, L.; Noujaim, S. F.

10.1101/2025.05.31.657128 — physiology — Posted on 2025-06-03

4891 Cryo-EM structure of DNA-unbound human MCM2-7 complex reveals new disease-relevant regulation

Liu, Y.; Yang, M.; Lu, P.; Gao, H.; He, M.; Wang, Y.; Qi, A.; Cao, T.; Zhang, Q.; Qi, S.; Shi, Y.; Yu, H.

10.1101/2025.05.31.656953 — biophysics — Posted on 2025-06-03

4892 Diet-Seg: Dynamic Hardness-Aware Learning for Enhanced Brain Tumor Segmentation

Lv, B.; Huang, X.; Zhou, Q.; Li, M.; Xiao, X.; li, f.

10.1101/2025.05.31.657149 — bioinformatics — Posted on 2025-06-03

4893 Enhancing Strain-level Phage-Host Prediction through Experimentally Vali-dated Negatives and Feature Optimization Strategies

Li, M.; Liu, G.; Song, W.; Li, J.; Ma, L.; Xiao, M.

10.1101/2025.05.31.656987 — bioinformatics — Posted on 2025-06-03

4894 A parallelly distributed microscope and software system for scalable high-throughput multispectral 3D imaging

Jiang, H.; Walker, L. A.; Li, Y.; Duan, B.; Niu, X.; Hsieh, J.-C.; Cheng, M.-C.; Su, H.; Sheng, K.; Tang, J. P.; Athukorala, K.; Greene, S.; Pan, R.; Parlapalli, A.; Yin, P.; Cui, M.; Cai, D.

10.1101/2025.05.31.657163 — bioengineering — Posted on 2025-06-03

4895 An α-1,3-fucosyltransferase influences thermal nocifensive escape behaviors in Drosophila larvae

Ballard, S.; Holt, L.; Stant, E.; Arthur Moore, A.; Zavala, L.; Shirangi, T. R.

10.1101/2025.06.02.657458 — genetics — Posted on 2025-06-03

4896 Meiotic null MSH2 and SGS1 alleles in S. cerevisiae x S. uvarum hybrids result in near-haploid offspring with mixed parental chromosomal inheritance

Wang, T. K.; Dunham, M. J.

10.1101/2025.06.02.657486 — genetics — Posted on 2025-06-03

4897 Building a barrier: investigating the functional role and evolution of induced trichome production

Johnson, N.; Baucom, R.

10.1101/2023.11.16.567395 — evolutionary biology — Posted on 2025-06-03

4898 Iron homeostasis and reproduction: Unveiling the Microbiome-Gut-Brain-Axis connection in the mosquito Anopheles culicifacies

Dixit, R.; Yadav, P.

10.1101/2025.05.31.657141 — developmental biology — Posted on 2025-06-03

4899 Clonal Expansion of Alveolar Fibroblast Progeny Drives Pulmonary Fibrosis

Molina, C.; Tsukui, T.; Khan, I.; Ren, X.; Qiu, W.; Matthay, M.; Wolters, P.; Sheppard, D.

10.1101/2025.05.31.657194 — cell biology — Posted on 2025-06-03

4900 Sequence grammar and dynamics of subcellular translation revealed by APEX-Ribo-Seq

Tomuro, K.; Akaiwa, T.; Harada, A.; Kobayashi, K.; Shiina, N.; Kawaguchi, K.; Shichino, Y.; Iwasaki, S.

10.1101/2025.05.26.656194 — molecular biology — Posted on 2025-06-03

4901 Selective vulnerability of cerebral vasculature to NOTCH3 variants in small vessel disease and rescue by phosphodiesterase-5 inhibitor

Zhao, X.; Yu, C.; Adamson, A.; Zhao, A.; Zhou, H.; Sharma, P.; Wang, T.

10.1101/2025.05.30.656914 — neuroscience — Posted on 2025-06-03

4902 Lineage-Traced PTBP1 Depletion in Mature Astrocytes Reveals Distinct Splicing Alterations Without Neuronal Features

Zhang, M.; Kubota, N.; Nikom, D.; Arient, A.; Zheng, S.

10.1101/2025.05.30.657115 — neuroscience — Posted on 2025-06-03

4903 Radionuclide selection influences imaging outcomes in immunoPET with a brain-penetrant anti-Aβ antibody

Lopes van den Broek, S.; Bratteby, K.; Aguilar, X.; Tran, T. A.; Syvanen, S.; Sehlin, D.

10.1101/2025.05.31.657140 — neuroscience — Posted on 2025-06-03

4904 Unilateral damage to the entopeduncular nucleus causes forelimb motor dysfunction in rats

Sakai, R.; Kuroda, K.; Ryoke, T.; Maegawa, A.; Murata, K.; Fukazawa, Y.

10.1101/2025.05.30.657131 — neuroscience — Posted on 2025-06-03

4905 Modelling Glomerular Filtration using Multispectral Optoacoustic Tomography and a Novel Near-infrared Dye

Littlewood, J.; Harwood, R.; Vajpayee, S.; Perciaccante, R.; Trivino-Cepeda, K.; Sharkey, J.; Sardella, T.; Burton, N.; Taylor, A.; Wilm, B.; Bearon, R.; Murray, P.

10.1101/2025.05.31.657147 — physiology — Posted on 2025-06-03

4906 Introduction of cytosine-5 DNA methylation sensitizes cells to oxidative damage

Krwawicz, J.; Sheeba, C. J.; Hains, K.; McMahon, T.; Zhang, Y.; Kriaucionis, S.; Sarkies, P.

10.1101/2024.09.13.612259 — molecular biology — Posted on 2025-06-03

4907 Heat-off responses of epidermal cells sensitize Drosophila larvae to noxious inputs

Yoshino, J.; Chiu, A.; Morita, T.; Yin, C.; Tenedini, F. M.; Sokabe, T.; Emoto, K.; Parrish, J. Z.

10.1101/2025.05.30.656957 — neuroscience — Posted on 2025-06-03

4908 A covalent recognition strategy enables conspecific mate identification

Jang, S. S.; Mandala, S.; Jiang, H.; Zhang, X.; Cole, P. A.; del Marmol, J. I.

10.1101/2025.05.30.657074 — neuroscience — Posted on 2025-06-03

4909 Transforming descending input into motor output: An analysis of the Drosophila Male Adult Nerve Cord connectome

Cheong, H. S. J.; Eichler, K.; Stuerner, T.; Asinof, S. K.; Champion, A. S.; Marin, E. C.; Oram, T. B.; Sumathipala, M.; Venkatasubramanian, L.; Namiki, S.; Siwanowicz, I.; Costa, M.; Berg, S.; Janelia FlyEM Project Team, ; Jefferis, G. S. X. E.; Card, G. M.

10.1101/2023.06.07.543976 — neuroscience — Posted on 2025-06-03

4910 Critical assessment of the ability of Boolean threshold models to describe gene regulatory network dynamics.

Kadelka, C.; Hari, K.

10.1101/2025.03.06.641948 — systems biology — Posted on 2025-06-03

4911 Reflected Inline Detection in Epi Oblique Plane Microscopy

Prince, M. N. H.; Muthubharathi, B. C.; Herath, W.; Sain, N.; Rupam, M. R. I.; Bhat, A. Q.; Wani, A. R.; Syed, M. H.; Kim, T.-H.; Walker, M. C.; Ponomarova, O.; Chakraborty, T.

10.1101/2025.05.30.657110 — biophysics — Posted on 2025-06-03

4912 Physics-Inspired Single-Particle Tracking Accelerated with Parallelism

Xu, L. W. Q.; Presse, S.

10.1101/2025.05.30.657103 — biophysics — Posted on 2025-06-03

4913 Risk evaluation of newly emerging flu viruses based on genomic sequences and AI

Li, H.; Feng, Y.; Lu, C.; Fu, P.; Wang, X.; Yang, L.; Shu, Y.; Jiang, T.; Wang, D.; Peng, Y.

10.1101/2025.04.18.649608 — bioinformatics — Posted on 2025-06-03

4914 Species interactions determine plasmid persistence in a 3-member bacterial community

Schaal, K. A.; Wang, Y.-J.; Nauta, J.; Pilosof, S. A.; De Domenico, M.; Hall, J. P.

10.1101/2025.05.31.657151 — ecology — Posted on 2025-06-03

4915 Two birds with one stone: a novel potential antibiotic blocking IsdB-mediated heme extraction by Staphylococcus aureus with serendipitous hemoglobin left-shifting activity

Hijazi, S.; Marchesani, F.; Marchetti, M.; Buoli Comani, V.; Brear, P.; Campanini, B.; Ronda, L.; Faggiano, S.; Gianquinto, E.; Asgharpour Hassankiadeh, S.; Rolando, B.; Spyrakis, F.; Compari, C.; Lazzarato, L.; De Bei, O.; Frangipani, E.; Bettati, S.

10.1101/2025.05.29.656759 — microbiology — Posted on 2025-06-03

4916 Non-linearity of spatial integration varies across layers of primary visual cortex

Cagnol, R.; Antolik, J.; Palmer, L. A.; Contreras, D.

10.1101/2025.04.10.648107 — neuroscience — Posted on 2025-06-03

4917 Multivariate pattern analysis reveals resting-state EEG biomarkers in fibromyalgia

Soldic, D.; Martin-Buro, M. C.; Lopez-Garcia, D.; del Pino, A. B.; Fernandes-Magalhaes, R.; Ferrera, D.; Pelaez, I.; Mercado Romero, F.

10.1101/2025.05.30.657056 — neuroscience — Posted on 2025-06-03

4918 Normalization of Prefrontal Network Dynamics Prevents Cognitive Impairments After Developmental Insult

Khalife, M. R.; Jasinski, P.; Abed Rabbo, K.; Ouardouz, M.; Mahoney, J. M.; Scott, R.; Hernan, A.

10.1101/2025.05.30.657069 — neuroscience — Posted on 2025-06-03

4919 Detection of astrocyte epigenetic memory in in vitro systems, experimental autoimmune encephalomyelitis and multiple sclerosis samples

Quintana, F. J.; Li, Z.; Faust Akl, C.; Lee, J.-H.; Piester, G.; Antel, J.; Rothhammer, V.; Wheeler, M. A.; Prat, A.; Clark, I. C.

10.1101/2025.05.30.657119 — neuroscience — Posted on 2025-06-03

4920 Bright and Photostable Voltage Sensors Derived from mBaoJin

Zhang, H.; Zhou, S.; Kuzmicheva, T. P.; Subach, O. M.; Grimm, C.; Eom, M.; Baror-Sebban, S.; Adam, Y.; Yoon, Y.-G.; Emilliani, V.; Subach, F. V.; Piatkevich, K. D.

10.1101/2025.05.30.657123 — neuroscience — Posted on 2025-06-03

4921 Structural and Mechanistic Insights into Symmetry Conversion in Plant GORK K+ Channel Regulation

Li, Q.-y.; Qin, L.; Tang, L.-h.; Zhang, C.-r.; Huang, S.; Wang, K.; Zhang, G.-h.; Hao, N.-j.; Xiao, Q.; Niu, T.-X.; Su, M.; Hedrich, R.; Chen, Y.-h.

10.1101/2024.12.17.628833 — plant biology — Posted on 2025-06-03

4922 Distinct Stromal Cell Populations Define the B-cell Acute Lymphoblastic Leukemia Microenvironment

Blanco, M. N. F.; Kazybay, B.; Belderbos, M.; Heidenreich, O.; Vormoor, J. H.

10.1101/2024.09.10.612346 — cancer biology — Posted on 2025-06-03

4923 Functional and Taxonomic Diversity of Avian Communities Across Land-Use Gradients in Wayanad Using eBird Data

P, S. M.; P, M.

10.1101/2025.05.31.657139 — ecology — Posted on 2025-06-03

4924 Adaptive motility enables neutrophils to rapidly navigate confined capillaries

Deygas, M.; Bernard, M.; Nivoit, P.; Barbier, L.; Wang, L.; Maurin, M.; Tejerina, E.; Jakuszeit, T.; Deslys, A.; Garcia-Gomez, M.; Baaziz, O.; Garbay, S.; Terriac, E.; Attia, R.; Dumenil, G.; Piel, M.; VARGAS, P.

10.1101/2025.01.08.631737 — cell biology — Posted on 2025-06-03

4925 Plasmodium falciparum egress disrupts endothelial junctions and activates JAK-STAT signaling in a microvascular 3D blood-brain barrier model

Piatti, L.; Batzilla, A.; Nakaki, F.; Fleckenstein, H.; Korbmacher, F.; Long, R. K. M.; Schraivogel, D.; Hawkins, J. A.; Romero-Urunuela, T.; Lopez-Gutierrez, B.; Sanz, S.; Schwab, Y.; Steinmetz, L. M.; Sharpe, J.; Bernabeu, M.

10.1101/2024.10.15.618439 — microbiology — Posted on 2025-06-03

4926 A universal hippocampal memory code across animals and environments

Wirtshafter, H. S.; Solla, S. A.; Disterhoft, J. F.

10.1101/2024.10.24.620127 — neuroscience — Posted on 2025-06-03

4927 Spurring and Siloing: Identity Navigation in Scientific Writing Among Asian Early-Career Researchers

Goss, D.; Sachdev, S.; Kim, G.; Taliaferro-Smith, L.; Balgopal, M.; Fankhauser, S.

10.1101/2025.06.01.657048 — scientific communication and education — Posted on 2025-06-03

4928 Hematobiochemical Alterations and Pathological Lesions Induced by Fasciolosis in Slaughtered Cattle at Gondar ELFORA Abattoir, Ethiopia

Temesgen, A. B.; Mitiku, T.; Birhan, M.; Kebede, M. C.; Yesuf, M.; Mekonnen, M. Y.; Alemayehu, M. M.; Malede, B. A.; Geda, A. M.; Tumebo, A. W.; Shiferaw, K. A.; Wassie, Z. G.; Berie, G. K.; Mengistu, B. A.; Feleke, M. G.; Edenshaw, F.; Yitie, M. T.; Kasse, G. E.; Tsehay, E. M.; Shiferaw, S. A.

10.1101/2024.08.10.607441 — pathology — Posted on 2025-06-03

4929 Kinesin-1 Autoinhibition Tunes Cargo Transport by Motor Ensembles

Bensel, B. M.; Previs, S. B.; Fagnant, P. M.; Trybus, K. M.; Walcott, S.; Warshaw, D. M.

10.1101/2025.05.06.652443 — biophysics — Posted on 2025-06-03

4930 dnaudit + Pydnaweb: A lightweight text-based planning and documentation workflow for genetic cloning with automatic verification

Fernandes, P.; Ghasemi, F.; Silva, P. C.; Paiva, S.; Johansson, B.

10.1101/2025.05.31.657172 — bioinformatics — Posted on 2025-06-03

4931 DeepPGDB: A Novel Paradigm for AI-Guided Interactive Plant Genomic Database

Li, F.; Chen, J.; Luo, W.; Liu, J.; Hou, Z.; Gan, Z.; Zhan, P.; Wang, Z.; Hu, H.; Chen, G.; Shuai, B.; Zhao, H.; Bi, C.; Wang, S.

10.1101/2025.06.01.657209 — bioinformatics — Posted on 2025-06-03

4932 OPM quantum sensors enhance non-invasive neuroimaging performance

Brickwedde, M.; Anders, P.; Krueger, P.; Sander, T.; Uhlhaas, P.

10.1101/2025.05.30.657044 — neuroscience — Posted on 2025-06-03

4933 Single-cell transcriptomics reveals probiotic reversal of neonatal morphine-induced gene disruptions underlying adolescent pain hypersensitivity.

TAO, J.; Antoine, D.; Jalodia, R.; Valdes, E.; Boyles, S. M.; Hulme, W.; Roy, S.

10.1101/2025.05.30.657034 — neuroscience — Posted on 2025-06-03

4934 Curcumin targets a circumferential band at the cleavage furrow of dividing fission yeast cells

Dias, D. A.; Kulasegaram, V.; Okorokova-Facanha, A.; Chen, Q.

10.1101/2025.06.02.657428 — cell biology — Posted on 2025-06-03

4935 The Regulation of COX-2, ABCA1 and ABCG1 by the lncRNA PACERR links the inflammatory response and cholesterol homeostasis

Hennessy, E. J.; Tanosaki, T.; Lordan, R. J.; Tang, S. Y.; Shuvaev, V.; Ghosh, S.; Das, U.; Joshi, R.; Meng, H.; Snouwaert, J. n.; Winter, H.; Maegdefessel, L.; Koller, B. N.; FitzGerald, G. A.

10.1101/2025.06.02.657432 — cell biology — Posted on 2025-06-03

4936 Regulation of reticular adhesions by KANK2 and talin2 in two melanoma cell lines

Rac, A.; Loncaric, M.; Stojanovic, N.; Fatima, M.; Resetar, M.; Hrsak, D.; Humphries, J. D.; Humphries, M. J.; Ambriovic-Ristov, A.

10.1101/2025.06.02.657402 — cell biology — Posted on 2025-06-03

4937 Chlamydial membrane vesicles deliver the chlamydial porin OmpA to mitochondria to inhibit apoptosis

Mesesan, A.; Oehler, H.; Kontchou, C. W.; Haimovici, A.; Helmstädter, M.; Kretz, O.; Schilling, O.; Nazarenko, I.; Matti, U.; Ries, J.; Gentle, I.; Häcker, G.

10.1101/2025.06.02.657351 — cell biology — Posted on 2025-06-03

4938 Proteasome-derived antimicrobial peptides discovered via deep learning

Xia, X.; Torres, M. D. T.; de la Fuente-Nunez, C.

10.1101/2025.03.17.643752 — microbiology — Posted on 2025-06-03

4939 "Compressive learning" scaffolds higher-order network structure to enhance human knowledge acquisition

Ren, X.; Wang, M.; Qin, T.; Fang, F.; Li, A.; Luo, H.

10.1101/2024.08.19.608587 — neuroscience — Posted on 2025-06-03

4940 A tardigrade cytochrome P450 perturbs Drosophila melanogaster development

Perry, C. L.; Robin, C.

10.1101/2025.05.31.657185 — evolutionary biology — Posted on 2025-06-03

4941 Divergent organelle allocation in the evolution of sperm gigantism revealed from subcellular quantification of nematode sperm with electron microscopy

Schalkowski, R.; Cutter, A. D.

10.1101/2025.05.31.657168 — evolutionary biology — Posted on 2025-06-03

4942 Assessing plant phenological changes based on drivers of spring phenology

Jiang, Y.; Mayor, S.; Chu, X.; Ye, X.; Man, R.; Tao, J.; Dang, Q.-L.

10.1101/2025.04.13.648654 — ecology — Posted on 2025-06-03

4943 A minimal hybridization capture system for the parallel enrichment and cost-effective detection of ancient human pathogens

Kocher, A.; Seguin-Orlando, A.; Clavel, P.; Louvel, G.; Jonvel, R.; Tzortzis, S.; Signoli, M.; Costedoat, C.; Orlando, L.

10.1101/2025.06.02.657376 — molecular biology — Posted on 2025-06-03

4944 Is it me or the train moving? Humans resolve sensory conflicts with a nonlinear feedback mechanism in balance control

Asslaender, L.; Albrecht, M.; Gruber, M.; Peterka, R. J.

10.1101/2024.08.30.609158 — neuroscience — Posted on 2025-06-03

4945 Single-cell spatial map of cis-regulatory elements for disease-related genes in the macaque cortex

Meng, J.; Lei, Y.; Chen, C.; Zhu, Z.; Sun, Y.; Huang, Y.; Hu, K.; Bai, Y.; Fei, T.; Liu, Z.; Li, C.; Shen, Z.; Liu, L.; Li, C.; Song, T.; Liu, C.; Poo, M.; Liu, S.; Sun, Y.

10.1101/2025.06.03.657577 — neuroscience — Posted on 2025-06-03

4946 Visual processing of manipulable objects in the ventral stream is modulated by inputs from parietal action systems

Garcea, F. E.; Strawderman, E.; Burns, W.; Cotroneo, M.; Meyers, S. P.; Schmidt, T.; Walter, K. A.; Pilcher, W. H.; Mahon, B. Z.

10.1101/2025.06.01.657280 — neuroscience — Posted on 2025-06-03

4947 Cysteine signaling in plant pathogen response

Moormann, J.; Heinemann, B.; Angermann, C.; Koprivova, A.; Armbruster, U.; Kopriva, S.; Hildebrandt, T. M.

10.1101/2025.03.13.642987 — plant biology — Posted on 2025-06-03

4948 Action mechanism of a novel agrichemical quinofumelin against Fusarium graminearum

Xiu, Q.; Yin, X.; Chen, Y.; Zhang, Z.; Mao, Y.; Wang, T.; Zhang, J.; Zhou, M.; Duan, Y.

10.1101/2025.01.13.632717 — pathology — Posted on 2025-06-03

4949 Structures of protein folding intermediates on the ribosome

Chan, S. H. S.; Streit, J. O.; Wlodarski, T.; Mitropoulou, A. N.; Cassaignau, A. M. E.; Bukvin, I. V.; Cabrita, L. D.; Christodoulou, J.

10.1101/2025.04.07.647236 — biophysics — Posted on 2025-06-03

4950 EASYstrata: An All-in-One Workflow for Genome Annotation and Genomic Divergence Analysis

Rougemont, Q.; Lucotte, E.; Boyer, L.; Jalaber, A.; Snirc, A.; Giraud, T.; Rodriguez de la Vega, R. C.

10.1101/2025.01.06.631483 — genomics — Posted on 2025-06-03

4951 Use of massive DNA barcoding to monitor biodiversity: a test on forest soil macrofauna

Jabot, F.; Auger, G. B.; Bonnal, P.; Pizaine, M.; Roncoroni, M.; Revaillot, S.; Pottier, J.

10.1101/2025.02.07.636998 — ecology — Posted on 2025-06-03

4952 Dynamical forces drive cell and organ morphology changes during embryonic development

Manna, R. K.; Retzlaff, E. M.; Hinman, A. M.; Lan, Y.; Abdel-Razek, O.; Bates, M.; Hehnly, H.; Amack, J. D.; Manning, M. L.

10.1101/2024.07.13.603371 — developmental biology — Posted on 2025-06-03

4953 Phylogenetic position and mitochondrial genome evolution of 'orphan' eukaryotic lineages

Zlatogursky, V.; Boscaro, V.; Lax, G.; Wanntorp, M.; Pohl, N.; Burki, F.; Keeling, P. J.

10.1101/2025.04.16.649146 — microbiology — Posted on 2025-06-03

4954 Galectin-3 C-epitope, ANP, PPIA, and albumin function as drug-responsive panel biomarkers and therapeutic targets in aging and pressure overload-induced cardiac hypertrophy

Shinde, P. L.; Kumar, V.; Singh, S.; Sivakumar, K. C.; Mishra, R.

10.1101/2025.05.31.657024 — pathology — Posted on 2025-06-03

4955 Targeting Neutrophil Extracellular Traps to inhibit Colon Cancer Tumor Necrosis and Metastasis

10.1101/2025.05.30.657122 — cancer biology — Posted on 2025-06-03

4956 A missense mutation in Muc2 promotes gut microbiome- and metabolome-dependent colitis-associated tumorigenesis.

Verna, G.; De Santis, S.; Islam, B.; Sommella, E. M.; Licastro, D.; Zhang, L.; De Almeida Celio, F.; Merciai, F.; Caponigro, V.; Campiglia, P.; Pizarro, T. T.; Chieppa, M.; Cominelli, F.

10.1101/2025.05.31.657160 — cancer biology — Posted on 2025-06-03

4957 Klf4-dependent pivotal role of smooth muscle-derived Gli1+ lineage progenitor cells in lung cancer progression

Lu, S.; Navarro, A. C.; Johnson, A. M.; Noble, T.; Jolly, A. J.; Moulton, K. S.; Nemenoff, R. A.; Weiser-Evans, M. C.

10.1101/2025.05.30.657094 — cancer biology — Posted on 2025-06-03

4958 KOLF2.1J iTF-Microglia: A standardized platform to studymicroglial transcriptional regulatory networks in CNS disease

Rodriguez-Nunez, I.; Bartley, S. C.; Taylor, J. W.; Johnston, S. Q.; Rogers, B. B.; Meadows, S. K.; Newberry, K. M.; Cochran, J. N.; Myers, R. M.

10.1101/2025.05.30.657077 — genomics — Posted on 2025-06-03

4959 Post-replicative initial expression of the cell fate regulator PAX6 during neuroectoderm differentiation

Hu, S.; Kou, R.; Su, Z.; Li, G.; Qi, S.; Zhang, Y.; Wang, H.; Chen, L.; Yu, H.

10.1101/2025.05.30.657125 — cell biology — Posted on 2025-06-03

4960 CTCF maintains pericentromere function and mitotic fidelity

Walsh, E.; Stephens, A. D.

10.1101/2025.05.30.657091 — cell biology — Posted on 2025-06-03

4961 WNK1 kinase activity is required for maintenance of podocyte structure

Liu, Z.; Lee, E.; Jiang, S.; Yoon, J.; Ahmed, F.; Rahman, M. A.; Bleicher, W. P.; Suleiman, H. Y.; Bruggeman, L. A.; Miller, R. T.; Chang, A. N.

10.1101/2025.05.30.657136 — cell biology — Posted on 2025-06-03

4962 Spatial Heterogeneity of Macrophages in the Human Lung

Hume, P. S.; Lyn-Kew, K. H.; Wynn, E. A.; Steinhart, B.; Driscoll, J.; Jacobson, S.; Henson, P. M.; Mould, K. J.; Moore, C. M.; Janssen, W. J.

10.1101/2025.05.30.657106 — immunology — Posted on 2025-06-03

4963 The interferon response signature links to increased expression of transposable elements in neutrophils of systemic lupus erythematosus patients

Arteaga-Vazquez, L. J.; Sepulveda, H.; Villalobos, B.; Suzuki, K.; Kalunian, K.; Ay, F.; Boothby, M. R.; Rao, A.

10.1101/2025.05.30.657099 — immunology — Posted on 2025-06-03

4964 VGLL3-centered network connects placental, vascular, and immune defects in preeclampsia

Plazyo, O.; Chopp, L. B.; Peela, R.; Young, K.; Zhang, H.; Bogle, R.; Hesson, A.; Langen, E.; Bergin, I. L.; Syu, L.-J.; Erba, J.; Kirma, J.; Dey, P.; Zhang, L.; Sarkar, M. K.; Swindell, W. R.; Gallagher, K. A.; Ward, N. L.; Singer, K.; Kahlenberg, J. M.; Billi, A. C.; Dlugosz, A. A.; Ganesh, S. K.; Tsoi, L. C.; Gudjonsson, J. E.

10.1101/2025.05.30.657097 — immunology — Posted on 2025-06-03

4965 Linking neuron-axon-synapse architecture to white matter vasculature using high-resolution multimodal MRI in primate brain

Kimura, I.; Hayashi, T.; Autio, J. A.

10.1101/2025.04.15.648990 — neuroscience — Posted on 2025-06-03

4966 Diversification of the "EDVID" packing motif underpins structural and functional variation in plant NLR coiled-coil domains

Sulkowski, O.; Ovodova, A.; Leisse, A.; Gögelein, K.; Förderer, A.

10.1101/2025.06.01.657260 — plant biology — Posted on 2025-06-03

4967 DNA-based delivery of incretin receptor agonists using MYO Technology leads to durable weight loss in a diet-induced obesity model

Sasset, L.; Cameron, A. D.; Sussman, C.; Rubinelli, L.; Maji, D.; Miller, R.; Thompson, A. T.; Campbell, D.; Walker, M. R.; Drozdz, M. M.; Liberatore, R. A.

10.1101/2025.05.30.656889 — physiology — Posted on 2025-06-03

4968 Excitability and travelling waves in renewable active matter

M, A.; Dhanuka, A.; Banerjee, D. S.; Rao, M.

10.1101/2025.03.25.645200 — biophysics — Posted on 2025-06-03

4969 A network medicine framework for multi-modal data integration in therapeutic target discovery

Baltusyte, G.; Toleman, I.; Jones, J.; Welsh, S. J.; Stewart, G. D.; Mitchell, T. J.; Saeb-Parsy, K.; Han, N.

10.1101/2025.05.29.656813 — bioinformatics — Posted on 2025-06-03

4970 How bats exit a crowded colony when relying on echolocation only - a modeling approach

Mazar, O.; Yovel, Y.

10.1101/2024.12.16.628648 — animal behavior and cognition — Posted on 2025-06-03

4971 Both density- and frequency-dependent effects determine plant growth in a dune heath ecosystem

Damgaard, C.; Kaae, M. E.; Weiner, J.; Bak, J. L.

10.1101/2024.09.12.612621 — ecology — Posted on 2025-06-03

4972 Mass flowering and flowering asynchrony characterise a seasonal herbaceous community in the Western Ghats

Shrotri, S.; Kaur, S.; Dhargalkar, R.; PV., N.; Gowda, V.

10.1101/2024.11.10.622833 — ecology — Posted on 2025-06-03

4973 Transcriptional Repression of reaper by Stand Still Safeguards Female Germline Development in Drosophila

Matsui, M.; Kawaguchi, S.; Kai, T.

10.1101/2025.05.17.654630 — developmental biology — Posted on 2025-06-03

4974 Turbulence orchestrates actin-mitochondria dynamics to preserve GPIbα and support iPSC-derived platelet biogenesis

Nakamura, E.; Harada, Y.; Nakamura, S.; Fujio, K.; De Wispelaere, K.; Thys, C.; Freson, K.; Yamamoto, T.; Sawaguchi, A.; Suetsugu, S.; Eto, K.

10.1101/2025.05.22.655481 — cell biology — Posted on 2025-06-03

4975 Circular RNAs accumulate in ageing human placental tissue and in stillbirth, leading to DNA damage and cellular senescence

Arthurs, A. L.; Jackson, M. R.; McCullough, D.; SCOTT, H.; Barnett, C. P.; Webb, S. T.; Smith, M. D.; Jankovic-Karasoulos, T.; Dekker, G. A.; Roberts, C. T.

10.1101/2024.09.02.610398 — molecular biology — Posted on 2025-06-03

4976 Eco-Anthropological factors predicting forest patch use by 3 species of wild Atelid monkeys co-existing with a small-scale farming community in Northeastern Costa Rica, Mesoamerica

Perea-Rodriguez, J. P.; Carbonero, H.; Vargas, R.; Chaves, C.

10.1101/2024.02.06.579063 — zoology — Posted on 2025-06-03

4977 Recurrent Emergence of Boundary Cell Types During Evolution of Floral Bullseye Patterns

Oud, S.; Zurowski, M. M.; van der Jagt, P. L.; Yeo, M. T. S.; Walker, J. F.; Moyroud, E.; Vroomans, R. M. A.

10.1101/2025.05.03.651954 — systems biology — Posted on 2025-06-03

4978 The signature of reproduction on wood anatomy in European beech reveals potential for masting reconstruction

Resente, G.; Crivellaro, A.; Fleurot, E.; Piermattei, A.; Maimone, F.; Wilmking, M.; Hacket-Pain, A.; Motta, R.; Ascoli, D.

10.1101/2025.05.27.656364 — plant biology — Posted on 2025-06-03

4979 Acoustic Prediction and Biomechanical Validation of Primary Stability in Uncemented Short-Stem Hip Prostheses: An In Vitro Study

Jahnke, A.; Schreynemackers, S.; Tawous, A.; Petersen, S.; Hamad, S.; Rickert, M.; Ishaque, B. A.

10.1101/2025.05.28.656119 — bioengineering — Posted on 2025-06-03

4980 Enabling Plasmid-based Expression in Clostridium kluyveri using a Biparental Methylation-Conjugation System

Agena, E. M.; Badani, A. A.; Lindner, B. G.; Gois, I. M.; Dempster, A. W.; Minton, N. P.; Mahadevan, R.; Lawson, C. E.

10.1101/2025.05.30.657078 — bioengineering — Posted on 2025-06-03

4981 Humans, but not songbirds, produce spontaneously isochronous song through the lifespan

Bertolo, M.; Weiss, M. W.; Peretz, I.; Sakata, J.

10.1101/2025.06.02.657467 — animal behavior and cognition — Posted on 2025-06-03

4982 Distinguishing Specific from Broad Genetic Associations between External Correlates and Common Factors

de la Fuente, J.; Londono-Correa, D.; Tucker-Drob, E. M.

10.1101/2025.06.02.657362 — genomics — Posted on 2025-06-03

4983 Increased Genetic Protection Against Alzheimer's Disease in Centenarians

Bae, H.; Song, Z.; Ali, A.; Sasaki, T.; Tesi, N.; Lords, H.; Leshchyk, A.; Abe, Y.; Hirose, N.; Arai, Y.; Barzilai, N.; Weiss, E. F.; Hulsman, M.; van der Lee, S. J.; van Schoor, N. M.; Huisman, M.; Pijnenburg, Y. A. L.; van der Flier, W. M.; Reinders, M.; Holstege, H.; Milman, S.; Perls, T.; Andersen, S. L.; Sebastiani, P.

10.1101/2025.06.02.657442 — genetics — Posted on 2025-06-03

4984 Composition variations in archaeological human bone proteomes

Asmundsdottir, R. D.; Troche, G.; Olsen, J. V.; Schrader, S.; Welker, F.

10.1101/2025.06.02.657369 — evolutionary biology — Posted on 2025-06-03

4985 Purinergic receptor activation rectifies autism-associated endothelial dysfunction

Ouellette, J.; Warsi, S.; Romero, P.; Khare, P.; Naz, S.; Aubert-Tandon, L.; Pileggi, C.; Yandiev, S.; Freitas-Andrade, M.; Comin, C. H.; Harper, M.-E.; Manickam, D. S.; Dabertrand, F.; Saghatelyan, A.; Lacoste, B.

10.1101/2025.06.02.657522 — cell biology — Posted on 2025-06-03

4986 In vivo neural activity of electrosensory pyramidal cells: Biophysical characterization and phenomenological modeling

Akhshi, A.; Metzen, M. G.; Chacron, M. J.; Khadra, A.

10.1101/2025.05.30.656684 — neuroscience — Posted on 2025-06-03

4987 Evolution's boldest trick: Neurotransmission modulated whole-brain computation captures full task repertoire

Deco, G.; Sanz Perl, Y.; Vohryzek, J.; Luppi, A.; Kringelbach, M. L.

10.1101/2025.06.02.657368 — neuroscience — Posted on 2025-06-03

4988 Quantifying neuronal differentiation using temporal topological persistence

Rigaux, K.; Castro, A. F.; Kanari, L.

10.1101/2025.06.02.657366 — neuroscience — Posted on 2025-06-03

4989 Coordinated dynamics of excitatory and inhibitory synapse assembly

Garbett, K.; Allen, J.; Sando, R.

10.1101/2025.06.02.657384 — neuroscience — Posted on 2025-06-03

4990 Low-Rank Tensor Encoding Models Decompose Natural Speech Comprehension Processes

Lewis, L.; Pitkow, X.; Wehbe, L.

10.1101/2025.06.02.657514 — neuroscience — Posted on 2025-06-03

4991 Cortical language areas are coupled via a soft hierarchy of model-based linguistic features

Samara, A.; Zada, Z.; Vanderwal, T.; Hasson, U.; Nastase, S. A.

10.1101/2025.06.02.657491 — neuroscience — Posted on 2025-06-03

4992 Aberrant cerebrovascular reactivity presents as an early biomarker of psychosis susceptibility in patients with 22q11.2DS

Delavari, F.; Moia, S.; Forrer, S.; Sandini, C.; Kojovic, N.; Pascucci, A.; Lacour, C.; Eliez, S.; Van De Ville, D.

10.1101/2025.06.02.657392 — neuroscience — Posted on 2025-06-03

4993 Autism-associated SCN2A deficiency disrupts cortico-striatal circuitry in human brain assembloids

Chen, X.; Zhang, J.; Wu, J.; Robinson, M. J.; Kothandaraman, H.; Yoo, Y.-E.; Dopeso-Reyes, I. M. G.; Buffenoir, T. D.; Halurkar, M. S.; Zhang, Z.; Wang, M.; Creager, E. N.; Zhao, Y.; Olivero-Acosta, M. I.; Wettschurack, K. W.; Que, Z.; Yuan, C.; Schaser, A. J.; Lanman, N. A.; Rochet, J.-C.; Skarnes, W. C.; Kremer, E. J.; Yang, Y.

10.1101/2025.06.02.657036 — neuroscience — Posted on 2025-06-03

4994 Less is More: Lower Levels of Task-Induced Hippocampal Activation Predict Better Performance on a Separate Verbal Memory Evaluation

Sisk, C. A.; McDermott, K. B.; Elison, J. T.; Swanson, M. R.; Wig, G. S.; Gilmore, A. W.; Nelson, S. M.

10.1101/2025.06.02.656665 — neuroscience — Posted on 2025-06-03

4995 CLUSTERING DYNAMICALLY MODULATE THE BIOPHYSICS OF VOLTAGE-GATED SODIUM CHANNELS: HOW NANOSCALE PHENOMENA DETERMINE HEALTH AND DISEASE

Tarasov, M.; Ammon, M.; Wirth, J. O.; Hampton, C.; Selimi, Z.; Veeraraghavan, R.; Radwanski, P. B.

10.1101/2025.05.31.657169 — physiology — Posted on 2025-06-03

4996 Multimodal Validation of the Existence of Transitional Cerebellar Progenitors in the Human Fetal Cerebellum

Luo, Z.; Xia, M.; Zhang, F.; Xin, D.; Rao, R.; Kiang, K.; Berry, K.; Xiong, Y.; Liu, H.; Lin, Y.; Hu, M.; Xin, M.; Ma, J.; Li, H.; Taylor, M. D.; Zhou, W.; Lu, Q. R.

10.1101/2025.06.01.657310 — developmental biology — Posted on 2025-06-03

4997 An applicable and efficient retrograde monosynaptic circuit mapping tool for larval zebrafish

Chen, T.; Deng, Q.; Lin, K.; Zheng, X.; Wang, X.; Zhong, Y.; Ning, X.; Li, Y.; Xu, F.; Du, J.; Du, X.

10.1101/2024.06.27.601104 — neuroscience — Posted on 2025-06-02

4998 POCALI: Prediction and insight On CAncer LncRNAs by Integrating multi-omics data with machine learning

Rao, Z.; Wu, C.; Liao, Y.; Ye, C.; Huang, S.; Zhao, D.

10.1101/2025.02.13.638198 — bioinformatics — Posted on 2025-06-02

4999 Evaluation of a prototype Orbitrap Astral Zoom mass spectrometer for quantitative proteomics - Beyond identification lists

10.1101/2025.05.30.657132 — biochemistry — Posted on 2025-06-02

5000 Cancer Driver Topologically Associated Domains identify oncogenic and tumor suppressive lncRNAs

Rao, Z.; Zhang, M.; Huang, S.; Wu, C.; Zhou, Y.; Zhang, W.; Lin, X.; Zhao, D.

10.1101/2024.03.19.585685 — genomics — Posted on 2025-06-02

5001 Habitat selection during dispersal reduces the energetic cost of transport when making large displacements

de Boer, T.; Sikenykeny, K.; Farine, D. R.; Klarevas-Irby, J. A.; Nyaguthii, B.

10.1101/2023.11.25.568690 — ecology — Posted on 2025-06-02

5002 Alpha and Beta Oscillations Mediate the Effect of Motivation on Neural Coding of Cognitive Flexibility

Delgado, J. M. C.; Ison, M. J.; Muhle-Karbe, P. S.; Stokes, M. G.; Hall-McMaster, S.; Myers, N. E.

10.1101/2025.03.11.642697 — neuroscience — Posted on 2025-06-02

5003 In vivo deep-brain microscopy at submicrometer resolution with refractive index-matched prism interfaces

Takahashi, T.; Zhou, Y.; Tsutsumi, M.; Ito, C.; Hatakeyama, A.; Ishii, H.; Saitoh, A.; Yukawa, H.; Nabekura, J.; Nemoto, T.; Otomo, K.; Matsuhisa, N.; Agetsuma, M.

10.1101/2025.05.30.657010 — neuroscience — Posted on 2025-06-02

5004 Quantum Cognition Machine Learning for Forecasting Chromosomal Instability

Di Caro, G.; Kirakosyan, V.; Abanov, A. G.; Candelori, L.; Hartmann, N.; Lam, E. T.; Musaelian, K.; Samson, R.; Villani, D.; Wells, M. T.; Wenstrup, R. J.; Xu, M.

10.1101/2025.05.30.656882 — cancer biology — Posted on 2025-06-02

5005 Biomni: A General-Purpose Biomedical AI Agent

Huang, K.; Zhang, S.; Wang, H.; Qu, Y.; Lu, Y.; Roohani, Y.; Li, R.; Qiu, L.; Zhang, J.; Di, Y.; Marwaha, S.; Carter, J.; Zhou, X.; Wheeler, M. T.; Bernstein, J.; Wang, M.; He, P.; Zhou, J.; Snyder, M.; Cong, L.; Regev, A.; Leskovec, J.

10.1101/2025.05.30.656746 — bioinformatics — Posted on 2025-06-02

5006 PLM-OMG: Protein Language Model-Based Ortholog Detection for Cross-Species Cell Type Mapping

Chau, T. N.; Li, S.

10.1101/2025.05.30.657127 — bioinformatics — Posted on 2025-06-02

5007 A Gene Set Foundation Model Pre-Trained on a Massive Collection of Diverse Gene Sets

Clarke, D. J. B.; Marino, G. B.; Ma'ayan, A.

10.1101/2025.05.30.657124 — bioinformatics — Posted on 2025-06-02

5008 NETWORK REGULARIZED ACCELERATED FAILURE TIME MODELS FOR ROBUST BIOMARKER IDENTIFICATION

Liu, Y.; Huse, J.; Kannan, K.

10.1101/2025.05.30.657087 — bioinformatics — Posted on 2025-06-02

5009 Synthbar: A Lightweight Tool for Adding Synthetic Barcodes to Sequencing Reads

Morrison, J.; Johnson, B. K.; Shen, H.

10.1101/2025.05.30.657070 — bioinformatics — Posted on 2025-06-02

5010 Allele Specific Expression Quality Control Fills Critical Gap in Transcriptome Assisted Rare Variant Interpretation

Ganapathy, K. R.; Song, E.; Munro, D.; Torkamani, A.; Mohammadi, P.

10.1101/2025.05.30.657086 — bioinformatics — Posted on 2025-06-02

5011 Venus-MAXWELL: Efficient Learning of Protein-Mutation Stability Landscapes using Protein Language Models

Yu, Y.; Jiang, F.; Ma, X.; Zhang, L.; Zhong, B.; Ouyang, W.; Fan, G.; Yu, H.; Hong, L.; Li, M.

10.1101/2025.05.30.656964 — bioinformatics — Posted on 2025-06-02

5012 Trends Assessment of the Genetic Mutation Induced Protein-Protein Interaction Variation via Protein Large Language Driven Method

Kuang, Z.; Li, Y.; Liu, Z.; Zhao, J.; Shi, L.; Kawai, A.; Wang, H.

10.1101/2025.05.23.655070 — bioinformatics — Posted on 2025-06-02

5013 PyamilySeq: Exposing the fragility of conventional gene (re)clustering and pangenomic inference methods

Dimonaco, N. J.

10.1101/2025.05.30.657108 — bioinformatics — Posted on 2025-06-02

5014 Sex specific correction of maternal inflammation-induced behavioral abnormalities by the inhibition of colony-stimulating factor 1 receptor

Delpech, J. C.; Yeh, H.; Kalavai, S. V.; You, Y.; Ruan, Z.; Touch, N.; Hersh, S.; Monguillon, P.; Johnson, W. E.; Rau, A.; Madore-Delpech, C.; Ikezu, T.; Ikezu, S.

10.1101/2025.05.30.657085 — animal behavior and cognition — Posted on 2025-06-02

5015 Predator type and relative risk affects the repeatability of nest defense in a songbird

Swanson, Z. M.; Carr, C. E.; Fornara, J. H.; Eggleston, R. C.; Reichard, D. G.

10.1101/2025.05.30.657090 — animal behavior and cognition — Posted on 2025-06-02

5016 Exon-skipping and genetic compensation due to biallelic mutations in the neurodevelopmental disease gene LNPK

Doss, R. M.; Wirth, S. A.; Pitsch, J. W.; Dias, C. M.; Gropman, A. L.; Breuss, M. W.

10.1101/2025.05.30.656906 — genetics — Posted on 2025-06-02

5017 Dinucleotide codon mutations as a marker of diversifying selection in M. tuberculosis

Zimenkov, D.; Ushtanit, A.

10.1101/2025.05.30.657033 — evolutionary biology — Posted on 2025-06-02

5018 Must epidemiologically impactful vector control interventions disrupt mosquito population structure? A case study of a cluster-randomised controlled trial.

Dennis, T. P. W.; Guelbeogo, W. M.; Ferguson, H. M.; Lindsay, S.; N'Fale, S.; Pignatell, P.; Ranson, H.; Sanou, A.; Tiono, A.; Weetman, D.; Viana, M.

10.1101/2025.04.16.649034 — ecology — Posted on 2025-06-02

5019 piRNAs are abundant in the early embryo of the crustacean Parhyale hawaiensis

Calvo Gonzalez, L.; Pettini, T.; Ylla, G.; Ronshaugen, M. R.; Griffiths-Jones, S.

10.1101/2025.05.30.656998 — developmental biology — Posted on 2025-06-02

5020 Engineering a mouse-adapted SADS-CoV and establishing a neonatal mouse model to study its infection

Zhang, H.; Zhou, J.; Li, P.; Zhang, M.; Jing, R.; Zhu, H.; Lang, Y.; He, Q.; Zhang, M.; Li, W.

10.1101/2025.06.02.657353 — microbiology — Posted on 2025-06-02

5021 Genome-wide CRISPR/Cas9 knockout screen identifies host factors essential for Bovine Parainfluenza Virus Type 3 replication

Hao, J.; Gao, X.; Light, C.; Sun, Y.; Lu, S.; Tian, Y.; Gao, X.; Su, Y.; Gao, J.; Huang, X.; Wang, J.; Zhang, Q.; Hai, R.; Hu, W.; Wang, G.

10.1101/2025.06.02.657355 — microbiology — Posted on 2025-06-02

5022 HLA-DQ monomer-based enrichment of alloreactive CD4 T cells

Zhanzak, Z.; Cina, D.; Zhang, X.; Hadley, A.; Kissick, H.; Larsen, C.

10.1101/2025.05.30.656890 — immunology — Posted on 2025-06-02

5023 Multi-Stable Bimodal Perceptual Coding within the Ventral Premotor Cortex

Andrade-Ortega, B.; Diaz, H.; Bayones, L.; Alvarez, M.; Zainos, A.; Rivera-Yoshida, N.; Franci, A.; Romo, R.; Rossi-Pool, R.

10.1101/2024.12.11.628069 — neuroscience — Posted on 2025-06-02

5024 Genetic determinants of aerial root traits that support biological nitrogen fixation in maize

Laspisa, D.; Venado, R. E.; Diogo, R.; Ane, J.-M.; Wallace, J. G.

10.1101/2025.05.30.657053 — plant biology — Posted on 2025-06-02

5025 Single-cell transcriptomics uncovers that cell-to-cell communication controls p53 activation

Castellano, L.; Robinson, M. E.; Dabrowska, A.; Feldhahn, N.; Ottaviani, S.; Stebbing, J.

10.1101/2025.05.30.657016 — cancer biology — Posted on 2025-06-02

5026 De Novo sequencing-assisted homology search for DIA data analysis enables low abundance peptide variants discovery

Qiao, R.; Li, H.; Bian, H.; Xin, L.; Shan, B.

10.1101/2025.05.30.657054 — bioinformatics — Posted on 2025-06-02

5027 Novel methodologies for the treatment of type 1 diabetes mellitus using in silico tools

de Carvalho, F. R.; Gavaia, P. J.

10.1101/2025.05.30.657014 — bioinformatics — Posted on 2025-06-02

5028 The effect of aging on post-translational modifications of wild-type human SOD1 and the A5V ALS mutant

de Souza, G. F.; Magalhaes, R. S. S.; Neto, J. R. M.; Martins, M.; Follmer, C.; Junqueira, M.; Eleutherio, E. C. A.

10.1101/2025.06.02.657411 — biochemistry — Posted on 2025-06-02

5029 Spatial metabolic gradients in the liver and small intestine

Samarah, L. Z.; Zheng, C.; Xing, X.; Lee, W. D.; Afriat, A.; Chitra, U.; MacArthur, M.; Lu, W.; Jankowski, C. S. R.; Ma, C.; Hunter, C. J.; Raphael, B. J.; Rabinowitz, J. D.

10.1101/2025.06.02.657306 — biochemistry — Posted on 2025-06-02

5030 Size-dependent behavioral and antennal responses to doses of (+)-isopinocamphone and 1,8-cineole mixed with pheromone: a potential host selection strategy in female Ips typographus L.

Moliterno, A. A. C.; Shewale, M. K.; Basile, S.; Synek, J.; Jirosova, A.

10.1101/2025.05.30.657003 — animal behavior and cognition — Posted on 2025-06-02

5031 Time Series GWAS for Iron Deficiency Chlorosis Tolerance in Soybean using Aerial Imagery

Carroll, M. E.; Rairdin, A. M.; Van der Laan, L.; Ferela, A.; Hanumolu, S.; Sarkar, S.; Ganapathysubramanian, B.; Singh, A.; Singh, A. K.

10.1101/2025.05.30.657051 — genetics — Posted on 2025-06-02

5032 Functional and Taxonomic Diversity of Avian Communities Across Land-Use Gradients in Wayanad Using eBird Data

P, S. M.; Pankaj, M.

10.1101/2025.05.31.657139 — ecology — Posted on 2025-06-02

5033 A Plasmodium lipase is critical for the disruption of the parasitophorous vacuole membrane and egress of hepatic merozoites.

Devi, R.; Mehra, P.; Ali, S.; Mishra, S.

10.1101/2025.06.02.657352 — microbiology — Posted on 2025-06-02

5034 Protists Exhibit Stronger and More Recent Oceanic Genetic Structure than Archaeplastida and Metazoa

Gonzalez-Miguens, R.; Galvez-Morante, A.; Torruella, G.; Berney, C.; Casacuberta, E.; Ruiz-Trillo, I.

10.1101/2025.06.02.657477 — microbiology — Posted on 2025-06-02

5035 Human Cytomegalovirus UL78 is a Nuclear-Localized GPCR Necessary for Efficient Reactivation from Latent Infection in CD34+ Hematopoietic Progenitor Cells

Medica, S.; Diggins, N. L.; Denton, M.; Turner, R. L.; Pung, L. J.; Mayo, A. T.; Mitchell, J.; Slind, L.; Nguyen, L. K.; Beechwood, T. A.; Sulgey, G.; Kreklywich, C. N.; Malouli, D.; Caposio, P.; Streblow, D. N.; Hancock, M. H.

10.1101/2025.06.02.657350 — microbiology — Posted on 2025-06-02

5036 Phylogeny-aware comparative genomics of Vibrio vulnificus links genetic traits to pathogenicity

Delgado, L. F.; Riedinger, D. J.; Fernandez-Juarez, V.; Herlemann, D. P. R.; Pansch, C.; Katarzyte, M.; Gyraite, G.; Reusch, T. B. H.; Rakowski, M.; Piwosz, K.; Wozniczka, A.; Benterbusch-Brockmöller, H.; Sperlea, T.; Dupke, S.; Scholz, H. C.; Kube, S.; Riemann, L.; Labrenz, M.; Andersson, A.

10.1101/2025.06.02.657354 — microbiology — Posted on 2025-06-02

5037 Growth phase influences virulence in Candida auris systemic infection models

McFadden, M. J.; Anku, J. A. E.; Davis, F. A.; O'Meara, T. R.

10.1101/2025.06.02.657403 — microbiology — Posted on 2025-06-02

5038 Episymbiotic Saccharibacteria suppresses epithelial immunoactivation through Type IV pili and TLR2 dependent endocytosis

Chouhan, D.; Grossman, A. S.; Kerns, K. A.; Stocke, K. S.; Kim, M.; Dong, P.-T.; Kumar, A.; Lei, L.; Lamont, R. J.; McLean, J. S.; He, X.; Bor, B.

10.1101/2025.05.30.656655 — immunology — Posted on 2025-06-02

5039 THE ACTIN CYTOSKELETON CONTROLS NADPH OXIDASE ACTIVATION AND G PROTEIN RECRUITMENT MEDIATED BY NEUTROPHIL G-alpha-q-COUPLED RECEPTORS

Levin, N. K.; Dahlgren, C.; Forsman, H.; Sundqvist, M.

10.1101/2025.05.30.656946 — immunology — Posted on 2025-06-02

5040 From Belief to Brain: How Growth Mindset Optimizes Cortico-Striatal Dynamics for Cognitive Development

Zhao, Y.; Cui, J.; Zhang, Z.; Zhao, H.; Xu, J.; Chen, M.; Hao, L.; He, Y.; Wang, H.; Wang, Y.; Wang, D.; Hu, Y.; Han, Z. R.; Tan, S.; Men, W.; Gao, J.; Chen, L.; He, Y.; Tao, S.; Dong, Q.; Qin, S.

10.1101/2022.07.11.499525 — neuroscience — Posted on 2025-06-02

5041 Alk-Fam150b (augmentor α) expression in the paraventricular nucleus of the mouse hypothalamus at molecular resolution, and its sensitivity to acute stress

Gueissaz, L.; Sideromenos, S.; Tretiakov, E.; Schnell, R.; Harkany, T.

10.1101/2025.05.30.656990 — neuroscience — Posted on 2025-06-02

5042 Inhibition of Cxcr4 chemokine receptor signaling improves habituation learning and increases cAMP-PKA signaling in a zebrafish model of Neurofibromatosis type 1

Miller, A. H.; Yang, Y.; Schmidt, N.; Mathiaparanam, J.; Berres, M. E.; Halloran, M.

10.1101/2025.05.30.657071 — neuroscience — Posted on 2025-06-02

5043 LRRK2 regulates synaptic function through modulation of actin cytoskeletal dynamics

Tombesi, G.; Kompella, S.; Favetta, G.; Chen, C.; Ornaghi, M.; Zhao, Y.; Morosin, E.; Sevegnani, M.; Lama, A.; Marte, A.; Battisti, I.; Iannotta, L.; Plotegher, N.; Civiero, L.; Onofri, F.; Eickholt, B. J.; Piccoli, G.; Arrigoni, G.; Beccano-Kelly, D.; Manzoni, C.; Parisiadou, L.; Greggio, E.

10.1101/2022.10.31.514622 — neuroscience — Posted on 2025-06-02

5044 The relationships among alkaloid production, fungal biomass, and host genetics in the Tall Fescue-Epichloe symbiosis

Talamantes, D. R.; Phillips, C.; Young, C.; Wallace, J.

10.1101/2025.05.30.657052 — plant biology — Posted on 2025-06-02

5045 A role of villin-dependent F-actin organization in peroxisome motility in Arabidopsis cells

Huang, C.; Koenig, A. M.; Lee, Y.-R. J.; Shi, Y.; Hu, J.; Liu, B.

10.1101/2025.04.23.650090 — plant biology — Posted on 2025-06-02

5046 APOE4 homozygotes have less sleep fragmentation in late adulthood

Cho, G.; Chen, A.; Choi, E.; Buxton, O.; Kay, D.; Miner, B.

10.1101/2025.05.30.656615 — physiology — Posted on 2025-06-02

5047 Differentiation status determines tumorigenicity and immunogenicity of cancer cells

Liu, Y.; Wang, C.; Li, J.; Cao, Y.

10.1101/2025.05.30.656250 — cancer biology — Posted on 2025-06-02

5048 Computational design of conformation-biasing mutations to alter protein functions

Cavanagh, P. E.; Xue, A. G.; Dai, S.; Qiang, A.; Matsui, T.; Ting, A. Y.

10.1101/2025.05.03.652001 — biophysics — Posted on 2025-06-02

5049 Quantitative isoform profiling using deep coverage long-read RNA sequencing across early endothelial differentiation

Wissel, D.; Mehlferber, M. M.; Nguyen, K. M.; Pavelko, V.; Tseng, E.; Robinson, M. D.; Sheynkman, G. M.

10.1101/2025.05.30.656561 — bioinformatics — Posted on 2025-06-02

5050 Biocompatible Multi-functional Polymeric Material for Mineralized Tissue Adhesion

Luo, Y.; Zhang, C.; Fulco, S.; Liu, J.; Chen, K.; Hu, Y.; Jiang, Y.; Xu, R.; Rakesh, L.; Ozer, F.; Tertuliano, O.; Turner, K.; Vining, K. H.

10.1101/2025.05.30.656989 — bioengineering — Posted on 2025-06-02

5051 Enabling Plasmid-based Expression in Clostridium kluyveri using a Biparental Methylation-Conjugation System

Agena, E. M.; Badani, A. A.; Linder, B. G.; Gois, I. M.; Dempster, A. W.; Minton, N. P.; Mahadevan, R.; Lawson, C. E.

10.1101/2025.05.30.657078 — bioengineering — Posted on 2025-06-02

5052 Revealing Spatial Heterogeneity across the Gut Tissue-Lumen Interface through MALDI Mass Spectrometry Imaging

Haffner, J. J.; Ahn, S. H.; Qiu, T.

10.1101/2025.06.01.657309 — biochemistry — Posted on 2025-06-02

5053 Expression, Purification, and Crystallization of Recombinant Human ABL-1 Kinase for Structure-Based Drug Screening Applications

Irgit, A.; Ciftci, H.; DeMirci, H.

10.1101/2025.06.02.657364 — biochemistry — Posted on 2025-06-02

5054 On adaptation to a mesophilic environment and the chaperone network in Archaea

Rebeaud, M. E.

10.1101/2025.06.02.657341 — evolutionary biology — Posted on 2025-06-02

5055 Genetic response to light and carbon source variations in Trichoderma harzianum: The key regulatory roles of env1, cre1, and blr2

Rosolen, R. R.; Horta, M. A. C.; Sforca, D. A.; de Souza, A. P.

10.1101/2025.05.30.657067 — molecular biology — Posted on 2025-06-02

5056 Differential metaproteomics of bacteria grown in vitro and in planta reveals functions used during growth on maize roots

Garrell, A.-K.; Cheadle, J.; Crook, N.; Pal, G.; Septer, A. N.; Wagner, M. R.; Beck, A. E.; Kleiner, M.

10.1101/2025.06.02.657423 — microbiology — Posted on 2025-06-02

5057 A microbiota-derived bile acid modulates biofilm formation by the probiotic strain Escherichia coli Nissle 1917

Perry, E. K.; Udayasuryan, B.; Zegeye, E. K.; Rose, C. M.; Reichelt, M.; Tan, M.-W.

10.1101/2025.06.02.657493 — microbiology — Posted on 2025-06-02

5058 A trans-translation inhibitor kills Mycobacterium tuberculosis by targeting ribosomal protein bL12

Varshney, A.; Alumasa, J. N.; Miller, A. R.; Keiler, K. C.

10.1101/2025.06.02.656638 — microbiology — Posted on 2025-06-02

5059 Transcriptional analysis of developing Aspergillus fumigatus biofilms reveals metabolic shifts required for biofilm maintenance

Puerner, C.; Morelli, K. A.; Kerkaert, J. D.; Jones, J. T.; Quinn, K. G.; Vellanki, S.; Cramer, R. A.

10.1101/2025.06.02.657448 — microbiology — Posted on 2025-06-02

5060 GENOTYPIC DETECTION OF ANTIBIOTIC-RESISTANT GENES IN EMERGING BACTERIAL PATHOGENS FROM NEONATAL SEPSIS PATIENTS IN LAGOS

Adegboyega, H. O.; Banjo, T. A.; Deji-Agboola, A. M.; Iwalokun, B.; Mutiu, W. B.; Osinupebi, O. A.; Shorunmu, T. O.; Oladoja, F. A.; Fatungase, O. M.; Adeyanju, M. M.; Akindele, R. A.; Fakunle, P. B.; Olabode, B. A.; Ajayi, O. O.; Onadeko, O.; Oyelekan, A. A. A.; Oritogun, K. S.; Ariyibi, S. O.; Omirin, E. S.

10.1101/2025.06.02.657359 — microbiology — Posted on 2025-06-02

5061 Widespread distribution of the BpfA-carrying bacteria involved in the bisphenol F degradation in Pseudomonadota and Actinomycetota

Wang, C.; Zhang, M.; Huang, Y.; Li, Q.; Hu, J.; Pan, K.; Zhu, Q.; Jiang, W.; Qiu, J.; Yan, X.; Hong, Q.

10.1101/2025.06.02.657393 — microbiology — Posted on 2025-06-02

5062 Inferring single-cell spatial gene expression with tissue morphology via explainable deep learning

Zhao, Y.; Alizadeh, E.; Taha, H. B.; Liu, Y.; Xu, M.; Mahoney, J. M.; Li, S.

10.1101/2024.06.12.598686 — bioinformatics — Posted on 2025-06-02

5063 Diverse tendencies in codon usage evolution of SARS-CoV-2 genes

Blazej, P.; Mackiewicz, D.; Mackiewicz, P.

10.1101/2025.05.30.657095 — bioinformatics — Posted on 2025-06-02

5064 Differential Decay of Multiple eNA Components from a Cetacean

Brandao-Dias, P. F.; Shaffer, M.; Guri, G.; Parsons, K. M.; Kelly, R. P.; Allan, E. A.

10.1101/2025.05.09.653189 — molecular biology — Posted on 2025-06-02

5065 Antibiotic potentiation and inhibition of cross-resistance in pathogens associated with cystic fibrosis

Kaderabkova, N.; Furniss, R. C. D.; Maslova, E.; Potter, K. E.; Eisaiankhongi, L.; Bernal, P.; Filloux, A.; Landeta, C.; Gonzalez, D.; McCarthy, R. R.; Mavridou, D.

10.1101/2023.08.02.551661 — microbiology — Posted on 2025-06-02

5066 Mapping early patterning events in human neural development usingan in-vitro microfluidic stem cell model

Rathore, G. S.; Ankjaer, M.; Rifes, P.; Hanninen, E.; Calleja, F. S.; Rusimbi, C.; Kajtez, J.; Nygaard, A. H.; Piilgaard, L. S.; Dubonyte, U.; Norgaard, Z. A.; Christensen, J. B.; Egerod, K. L.; Camp, J. G.; Pers, T.; Treutlein, B.; Kirkeby, A.

10.1101/2025.05.23.655442 — neuroscience — Posted on 2025-06-02

5067 Human gut commensal Alistipes timonensis modulates the host lipidome and delivers anti-inflammatory outer membrane vesicles to suppress colitis in an Il10-deficient mouse model

Older, E. A.; Mitchell, M. K.; Campbell, A.; Lian, X.; Madden, M.; Wang, Y.; van de Wal, L. E.; Zaw, T.; VanderVeen, B. N.; Tatum, R.; Murphy, E. A.; Chen, Y.-H.; Fan, D.; Ellermann, M.; Li, J.

10.1101/2024.10.23.619966 — biochemistry — Posted on 2025-06-02

5068 Distinct Quaternary States, Intermediates, and Autoinhibition During Loading of the DnaB-Replicative Helicase by the Phage {lambda}P Helicase Loader

Shatarupa, A.; Brown, D.; Olinares, P. D.; Chase, J. D.; Isiorho, E.; Chait, B.; Jeruzalmi, D.

10.1101/2022.12.30.522210 — biochemistry — Posted on 2025-06-02

5069 Comprehensive profiling of migratory primordial germ cells reveals niche-specific differences in non-canonical Wnt and Nodal-Lefty signaling in anterior vs posterior migrants

Jaszczak, R. G.; Zussman, J. W.; Wagner, D. E.; Laird, D. J.

10.1101/2024.08.29.610420 — developmental biology — Posted on 2025-06-02

5070 An Optimized LIVE/DEAD Assay Using Flow Cytometry to Quantify Post-Stress and Antifungal-Treatment Survival in Diverse Yeasts

Tang, H.; Liang, J.; He, B. Z.

10.1101/2025.04.14.648826 — microbiology — Posted on 2025-06-02

5071 AcrIF11 is a potent CRISPR-specific ADP-ribosyltransferase encoded by phage and plasmid

Chen, D. F.; Roe, L. T.; Li, Y.; Borges, A. L.; Zhang, J. Y.; Babbar, P.; Maji, S.; Stevens, M. G. V.; Correy, G. J.; Diolaiti, M. E.; Smith, D. H.; Ashworth, A.; Stroud, R. M.; Kelly, M. J. S.; Bondy-Denomy, J.; Fraser, J. S.

10.1101/2024.08.26.609590 — microbiology — Posted on 2025-06-02

5072 Intrinsic dynamic shapes responses to external stimulation in the human brain

Nentwich, M.; Leszczynski, M.; Schroeder, C. E.; Bickel, S.; Parra, L. C.

10.1101/2024.08.05.606665 — neuroscience — Posted on 2025-06-02

5073 Pairwise interactions and serial bottlenecks help explain species composition in a multi-species microbial community

Lele, K.; Wolfe, B.; Uricchio, L.

10.1101/2024.11.22.624877 — ecology — Posted on 2025-06-02

5074 Automated Classification of Sleep-Wake States and Seizures in Mice

Harvey, B. J.; Olah, V. J.; Aiani, L. M.; Rosenberg, L. I.; Lasky, D. J.; Moxon, B.; Pedersen, N. P.

10.1101/2023.04.07.536063 — neuroscience — Posted on 2025-06-02

5075 FoldMark: Safeguarding Protein Structure Generative Models with Distributional and Evolutionary Watermarking

ZHANG, Z.; Jin, R.; Xu, G.; Wang, X.; Cong, L.; Wang, M.

10.1101/2024.10.23.619960 — bioinformatics — Posted on 2025-06-02

5076 Microtubule forces drive nuclear damage in LMNA cardiomyopathy

Amiad Pavlov, D.; Heffler, J.; Corredera, C. S.; Dehghany, M.; Shen, K. M.; Zuela-Sopilniak, N.; Randell, R.; Uchida, K.; Jain, R.; Shenoy, V.; Lammerding, J.; Prosser, B. L.

10.1101/2024.02.10.579774 — cell biology — Posted on 2025-06-02

5077 Decay drives RNA abundance regulation using three distinct regulatory mechanisms

Sorenson, R. S.; Sieburth, L. E.

10.1101/2025.05.09.653099 — molecular biology — Posted on 2025-06-02

5078 Whole-brain meso-vein imaging in living humans using fast 7 T MRI

Gulban, O. F.; Stirnberg, R.; Tse, D. H. Y.; Pizzuti, A.; Koiso, K.; Archila-Melendez, M. E.; Huber, R.; Bollmann, S.; Goebel, R.; Kay, K.; Ivanov, D.

10.1101/2025.03.23.644588 — neuroscience — Posted on 2025-06-02

5079 Evolution of object identity information in sensorimotor cortex throughout grasp

Yan, Y.; Sobinov, A. R.; Goodman, J. M.; Okorokova, E. V.; Miller, L. E.; Bensmaia, S. J.

10.1101/2024.10.11.617909 — neuroscience — Posted on 2025-06-02

5080 Memory's avalanche: Recent feelings of familiarity and resultant DA nuclei activity enable subsequent memory reactivation

Dougherty, M.; Patil, A.; Duncan, K. D.

10.1101/2025.03.28.646007 — neuroscience — Posted on 2025-06-02

5081 Persistent dopamine-dependent remodeling of the neural transcriptome in response to pregnancy and postpartum

Chan, J. C.; Di Salvo, G.; Cunningham, A. M.; Dutta, S.; Brindley, E. A.; Weekley, B. H.; Wan, E.; Zhang, C.; Mechawar, N.; Turecki, G.; Maze, I.

10.1101/2025.02.20.639313 — neuroscience — Posted on 2025-06-02

5082 Honeybees show an increased preference for dietary alcohol when parasitized

Ostap-Chec, M.; Antoł, W.; Bajorek, D.; Stec, D.; Miler, K.

10.1101/2025.05.30.656786 — pathology — Posted on 2025-06-02

5083 FEDRANN: effective overlap graph construction based on dimensionality reduction and approximate nearest neighbors

Zhang, J.-Y.; Miao, C.; Qiu, T.; Xia, X.; He, L.; He, J.; Sun, Y.; Zeng, T.; Li, Y.; Xu, X.; Ruan, Y.; Dong, Y.

10.1101/2025.05.30.656979 — bioinformatics — Posted on 2025-06-02

5084 Integrating Cell Painting and Thermal Proteome Profiling for Inference of Targets and Mechanism of Action

Johansson, C.; Johansson, M.; Carreras-Puigvert, J.; Spjuth, O.; Jansson, E. T.

10.1101/2025.05.30.657006 — bioinformatics — Posted on 2025-06-02

5085 MARLOWE: Taxonomic Characterization of Unknown Samples for Forensics Using De Novo Peptide Identification

Jenson, S. C.; Chu, F.; Alves, G.; Ogurtsov, A. Y.; Barente, A. S.; Crockett, D. L.; Lamar, N. C.; Merkley, E. D.; Yu, Y.-K.; Jarman, K. H.

10.1101/2024.09.30.615220 — bioinformatics — Posted on 2025-06-02

5086 Detection of a hybrid PrPfr state in the dark reversion of abathy phytochrome indicates inter-dimer allostery.

Prodhan, S.; Meszaros, P.; Bodizs, S. A.; Zhou, Y.; Maj, M.; Westenhoff, S.

10.1101/2025.05.28.656462 — biochemistry — Posted on 2025-06-02

5087 Emergent Leadership Driven by Asymmetric Stability Shapes Learning in Dyadic Motor Coordination

Wang, X. M.; Bingham, G. P.; Zhu, Q.

10.1101/2025.05.30.657019 — animal behavior and cognition — Posted on 2025-06-02

5088 New idtracker.ai: rethinking multi-animal tracking as a representation learning problem to increase accuracy and reduce tracking times

Torrents, J.; Costa, T.; de Polavieja, G. G.

10.1101/2025.05.30.657023 — animal behavior and cognition — Posted on 2025-06-02

5089 Persistent Decision-Making in Mice, Monkeys, and Humans

Laurie, V.-J.; Shourkeshti, A.; Chen, C. S.; Herman, A. B.; Grissom, N. M.; Ebitz, R. B.

10.1101/2024.05.07.592970 — animal behavior and cognition — Posted on 2025-06-02

5090 Single-Allele Chromatin Tracing Reveals Genomic Clustering of Paralogous Transcription Factors as a Mechanism for Developmental Robustness in T Cells

Jay, A.; Zhou, Y.; Yoon, S.; Abeje, B.; Chandra, A.; Wald, J.; Raj, A.; Faryabi, R.; Vahedi, G.

10.1101/2025.05.30.656885 — genomics — Posted on 2025-06-02

5091 A haplotype-resolved view of human gene regulation

Vollger, M. R.; Swanson, E. G.; Neph, S. J.; Ranchalis, J.; Munson, K. M.; Ho, C.-H.; Cheng, Y. H. H.; Sedeno-Cortes, A. E.; Fondrie, W. E.; Bohaczuk, S. C.; Dippel, M. A.; Mao, Y.; Parmalee, N. L.; Mallory, B. J.; Harvey, W. T.; Kwon, Y.; Garcia, G. H.; Hoekzema, K.; Meyer, J. G.; Cicek, M.; Eichler, E. E.; Noble, W. S.; Witten, D. M.; Bennett, J. T.; Ray, J. P.; Stergachis, A. B.

10.1101/2024.06.14.599122 — genomics — Posted on 2025-06-02

5092 Human cytomegalovirus infection coopts chromatin organization to diminish TEAD1 transcription factor activity

Sayeed, K.; Parameswaran, S.; Beucler, M. J.; Edsall, L. E.; VonHandorf, A.; Crowther, A.; Donmez, O. A.; Hass, M. R.; Richards, S.; Forney, C. R.; Hesse, H. K.; Jones, S. H.; Dunn, K. A.; Wright, J.; Leong, M. M.; Murray-Nerger, L. A.; Yechoor, V. K.; Gewurz, B. E.; Kaufman, K. M.; Harley, J. B.; Zhao, B.; Miller, W. E.; Kottyan, L. C.; Weirauch, M. T.

10.1101/2024.04.12.588762 — genomics — Posted on 2025-06-02

5093 A curated dataset and web application for Integrative Analysis of Ancient DNA from Britain and Ireland

Metz, S.; Fischer, C.-E.; Bleasdale, M.; Castells Navarro, L.; Buster, L.; Legge, M.; Reich, D.; Armit, I.

10.1101/2025.05.30.657009 — genetics — Posted on 2025-06-02

5094 A tale of two shrimps - Speciation and demography of two sympatric shrimp species from hydrothermal vents

Methou, P.; Johnson, S. B.; Sherrin, J.; Shank, T. M.; Chen, C.; Tunnicliffe, V.

10.1101/2024.12.18.629080 — evolutionary biology — Posted on 2025-06-02

5095 A social bee can learn a novel queen pheromone

Amsalem, E.; Hefetz, A.

10.1101/2025.05.30.657092 — evolutionary biology — Posted on 2025-06-02

5096 Context-dependent effects of developmental and adult diet on life-history traits and their associations in outbred Drosophila melanogaster population

Chandrakanth, M.; Kumar, N.; Sura, C.; Tung, S.

10.1101/2024.09.18.613663 — evolutionary biology — Posted on 2025-06-02

5097 Belowground competition increases root allocation in agreement with game-theoretical predictions, but only when plants simultaneously compete aboveground.

Kopp, E. B.; Anten, N. P. R.; Niklaus, P. A.; Wuest, S. E.

10.1101/2025.01.29.635491 — ecology — Posted on 2025-06-02

5098 Flatfish intestinal microbiota depend on various host traits, and vary with sediment type and bottom trawling effort

Gwinner, M.; Haslob, H.; Neumann, H.; Khodami, S.; Schupp, P. J.; Bonthond, G.

10.1101/2025.05.30.657041 — ecology — Posted on 2025-06-02

5099 Genetically Encoded and Modular SubCellular Organelle Probes (GEM-SCOPe) reveal lysosomal and mitochondrial dysfunction driven by PRKN knockout

Goldman, C.; Kareva, T.; Sarrafha, L.; Sahasrabudhe, A.; Schuldt, B. R.; Ahfeldt, T.; Blanchard, J. W.

10.1101/2024.05.21.594886 — cell biology — Posted on 2025-06-02

5100 A noncanonical Pol III-dependent, Microprocessor-independent biogenesis pathway generates a germline enriched miRNA family

Sakhawala, R.; Tirgar, R.; Vieux, K.-F.; Haskell, D.; Yu, G.; Zinovyeva, A.; McJunkin, K.

10.1101/2025.04.11.648421 — molecular biology — Posted on 2025-06-02

5101 Synthetic Serum Markers Enable Noninvasive Monitoring of Gene Expression in Primate Brains

Lee, S.; Romac, M.; Watanabe, S.; Chernov, M.; Li, H.; Raisley, E.; Szablowski, J. O.; Costa, V. D.

10.1101/2025.06.01.657212 — neuroscience — Posted on 2025-06-02

5102 The avalanche of memory: Recent feelings of familiarity, and their resultant DA nuclei activity, unlock the brain's subsequent ability to reactivate memories

Dougherty, M.; Patil, A.; Duncan, K. D.

10.1101/2025.03.28.646007 — neuroscience — Posted on 2025-06-02

5103 C9orf72 polyGA knock-in mice exhibit mild motor and proteomic changes consistent with ALS/FTD

Milioto, C.; Carcole, M.; Zanovello, M.; Ahmed, M.; Nirujogi, R. S.; Biggs, D.; Katona, E.; Glaria, I.; Santos, A.; Devoy, A.; Fratta, P.; Alessi, D. R.; Davies, B.; Greensmith, L.; Fisher, E.; Isaacs, A. M.

10.1101/2025.05.30.656994 — neuroscience — Posted on 2025-06-02

5104 Rapid rebalancing of co-tuned ensemble activity in the auditory cortex

Kang, H.; Babola, T.; Kanold, P. O.

10.1101/2024.06.17.599418 — neuroscience — Posted on 2025-06-02

5105 Thermotolerance in Chia (Salvia hispanica L.) is Mediated by Rapid Heat-Induced Transcriptomic Reprogramming and Lipid Remodelling in Leaves

Zare, T.; Kehelpannala, C.; Bhatnagar, A.; Rupasinghe, T.; Ebert, B.; Fournier-Level, A.; Roessner, U.

10.1101/2025.05.30.656991 — plant biology — Posted on 2025-06-02

5106 Phenotypic and transcriptomic characterization of bicalutamide and enzalutamide resistance in castration-resistant prostate cancer cells

Natkin, R.; Paloneva, M. I.; Raittinen, P. V.; Syvala, H.; Blauer, M.; Tammela, T. L.; Ilmonen, P.; Nykter, M.; Siltari, A.; Murtola, T. J.

10.1101/2025.05.30.656961 — cancer biology — Posted on 2025-06-02

5107 Preserved reptile scales retain microscopic features, revealing a new instance of convergent evolution

Riiska, C. A.; Schuett, G. W.; Mendelson, J. R.; Rieser, J. M.

10.1101/2025.05.30.657061 — biophysics — Posted on 2025-06-02

5108 Comprehensive Multi-omics Mapping of Vesicle Cargo from Plasma or Novel Tissue Vesicles Reveals Pathological Changes in Cargo with Patient Age

Ronan, G.; Hawthorne, L.; Yang, J.; Zhou, R.; Liu, F.; Zorlutuna, P.

10.1101/2024.12.06.627231 — bioinformatics — Posted on 2025-06-02

5109 Integration of parallel pathways for flight control in a hawkmoth reflects prevalence and relevance of natural visual cues

Stoeckl, A.; Bigge, R.; Grittner, R.

10.1101/2024.08.24.609346 — animal behavior and cognition — Posted on 2025-06-02

5110 Nonequivalence of Zfp423 premature termination codons in mice.

Concepcion, D.; Liang, C.; Kim, D.; Hamilton, B. A.

10.1101/2025.05.30.656936 — genetics — Posted on 2025-06-02

5111 Visual working memory precision is under voluntary control

Sahakian, A.; Koevoet, D.; Paffen, C. L. E.; Gayet, S.; Van der Stigchel, S.

10.1101/2025.05.29.656854 — neuroscience — Posted on 2025-06-02

5112 Spine-Prints: Transposing Brain Fingerprints to the Spinal Cord

Ricchi, I.; Santoro, A.; Kinany, N.; Landelle, C.; Khatibi, A.; Vahdat, S.; Doyon, J.; Barry, R. L.; Van De Ville, D.

10.1101/2025.05.30.656545 — neuroscience — Posted on 2025-06-02

5113 Block-structured Bayesian source estimation model for magnetoencephalography signals

Miyazaki, K.; Yamashita, O.; Miyawaki, Y.

10.1101/2025.05.30.656951 — neuroscience — Posted on 2025-06-02

5114 BioLogical: a universal analysis framework for biosystem logical dynamic

Yao, Y.; Liu, D.; Zhang, Z.; Zhao, C.; Pei, D.

10.1101/2025.05.30.656947 — systems biology — Posted on 2025-06-02

5115 Gestational Chronic Intermittent Hypoxia Triggers Maternal Inflammation and Disrupts Placental Stress Responses

Gardner, J. J.; Oliveira da Silva, R. d. N.; Bradshaw, J. L.; Mabry, S.; Wilson, E. N.; Hula, N.; Tucker, S. M.; Gorham, I. K.; Escalera, D.; Lopez, L.; Phillips, N. R.; Cunningham, R. L.; Goulopoulou, S.

10.1101/2025.05.29.656944 — physiology — Posted on 2025-06-02

5116 CASP16 protein monomer structure prediction assessment

Yuan, R.; Zhang, J.; Kryshtafovych, A.; Schaeffer, R. D.; Zhou, J.; Cong, Q.; Grishin, N. V.

10.1101/2025.05.29.656942 — biophysics — Posted on 2025-06-02

5117 Deviation Error: assessing machine learning predictions for replicate measurements in genomics and beyond

Abdulnabi, H.; Westwood, J. T.

10.1101/2025.05.29.656931 — bioinformatics — Posted on 2025-06-02

5118 ShiftSCAN, a program that predicts potential alternative sources of mass spectrometry-derived peptides, improves the accuracy of studies on novel amino acid sequences

Cakir, U.; Gabed, N.; Yurtseven, A.; Kryvoruchko, I. S.

10.1101/2025.05.30.656965 — bioinformatics — Posted on 2025-06-02

5119 Stressed Actin Binding by the Prickle2 LIM Domains and itsRegulation in the Full-Length Protein

Bejar-Padilla, V. D.; Li, M.; Stachowiak, J.; Wallingford, J. B.

10.1101/2025.05.30.657073 — cell biology — Posted on 2025-06-02

5120 Cryo-EM structures of a pentameric ligand-gated ion channel in liposomes

Dalal, V.; Tan, B. K.; Xu, H.; Cheng, W. W.

10.1101/2025.03.21.644626 — biophysics — Posted on 2025-06-02

5121 The opposing mechanisms by which miRNAs critically contribute to differential roles of Nrf1 and Nrf2 in modulating the epithelial-mesenchymal transformation of hepatocellular carcinoma

Chen, J.; Feng, J.; Zhu, Y.; Hu, S.; Zhang, Y.

10.1101/2024.11.30.626196 — molecular biology — Posted on 2025-06-02

5122 Short heat shock factor A2 confers heat sensitivity in Arabidopsis: Insights into heat resistance and growth balance

Chen, W.; Zhao, J.; Tao, Z.; Zhang, S.; Bei, X.; Lu, W.; Qi, X.

10.1101/2024.06.03.597204 — plant biology — Posted on 2025-06-02

5123 High-Codon: A Deep Learning-Based Codon Optimization Tool for Enhanced Heterologous Protein Expression in Escherichia coli

Li, J.; Dong, X.; Liu, J.

10.1101/2025.05.30.656984 — bioinformatics — Posted on 2025-06-02

5124 Integrating multiple transcriptome-based methods for drug repurposing in tuberculosis

Samart, K.; Buskirk, L. R.; Tonielli, A. P.; Krishnan, A.; Ravi, J.

10.1101/2025.06.02.657296 — bioinformatics — Posted on 2025-06-02

5125 A cell atlas of the developing human outflow tract of the heart and its adult derivatives

Leshem, R.; Murtuza Baker, S.; Mallen, J.; Wang, L.; Dark, J.; Rattray, M.; Sharrocks, A.; Piper Hanley, K.; Hanley, N.; Bamforth, S.; Bobola, N.

10.1101/2023.04.05.535627 — developmental biology — Posted on 2025-06-02

5126 Conserved and Unique Features of Terminal Telomeric Sequences in ALT-Positive Cancer Cells

Azeroglu, B.; Wu, W.; Pavani, R.; Sandhu, R.; Matsumoto, T.; Nussenzweig, A.; Lazzerini Denchi, E.

10.1101/2025.02.27.640565 — molecular biology — Posted on 2025-06-02

5127 D1/D5 Receptor Activation Promotes Long-Term Potentiation and Synaptic Tagging/Capture in Hippocampal Area CA2

Chua, K.; Chong, Y. S.; Sajikumar, S.

10.1101/2025.06.01.657216 — neuroscience — Posted on 2025-06-02

5128 Synthetic Serum Markers Enable Noninvasive Monitoring of Gene Expression in Primate Brains

Lee, S.; Romac, M.; Romac, M. D.; Chernov, M.; Li, H.; Raisley, E.; Szablowski, J. O.; Costa, V. D.

10.1101/2025.06.01.657212 — neuroscience — Posted on 2025-06-02

5129 Stroke-Related Changes in Tonic and Phasic Muscle Recruitment During Reaching Reveal Pathway-Specific Motor Deficits

Korol, A. S.; Adcock, A.; Gritsenko, V.

10.1101/2025.05.28.656732 — neuroscience — Posted on 2025-06-02

5130 Inference and prediction for random walk models in biology

Simpson, M. J.; Plank, M. J.

10.1101/2025.05.25.656057 — systems biology — Posted on 2025-06-02

5131 Informed Data-Independent Acquisition Enables Targeted Quantification of Key Regulatory Proteins in Cell Fate Decision at Single-Cell Resolution

Woessmann, J.; Petrosius, V.; Schovsbo, S.; Arrey, T. N.; Furtwaengler, B.; Op de Beeck, J.; Damoc, E.; Porse, B. T.; Schoof, E. M.

10.1101/2025.05.30.656945 — systems biology — Posted on 2025-06-02

5132 Active learnings impact on student course performance in STEM varies by type and intensity

Xu, S.; Velasco, V.; Hill, M. J.; Tran, E.; Agrawal, S.; Arroyo, E. N.; Behling, S.; Chambwe, N.; Cintron, D. L.; Cooper, J. D.; Dunster, G.; Grummer, J. A.; Hennessey, K.; Hsiao, J.; Iranon, N.; Jones, L.; Jordt, H.; Keller, M.; Lacey, M. E.; Littlefield, C. E.; Lowe, A.; Newman, S.; Okolo, V.; Olroyd, S.; Peecook, B. R.; Pickett, S. B.; Slager, D. L.; Caviedes-Solis, I. W.; Stanchak, K. E.; Sundaravaradan, V.; Valdebenito, C.; Williams, C. R.; Zinsli, K. A.; Freeman, S.; Theobald, E. J.

10.1101/2025.06.01.657285 — scientific communication and education — Posted on 2025-06-02

5133 Prediction of harvest-related traits in barley using high-throughput phenotyping data and machine learning

Tietze, H.; Abdelhakim, L.; Pleskacova, B.; Kurtz-Sohn, A.; Fridman, E.; Nikoloski, Z.; Panzarova, K.

10.1101/2025.05.29.656856 — plant biology — Posted on 2025-06-02

5134 The effects of morning priming exercise on afternoon physical and cognitive performance in male rugby union players

Knight, J.; Russell, M.; Cunningham, D.; Waldron, M.; Cook, C.; Kilduff, L.

10.1101/2025.05.29.656928 — physiology — Posted on 2025-06-02

5135 Perinatal Asphyxia Alters Physiological Responses and Ex Vivo Cardiovascular Function of Preterm Growth-Restricted Lambs

Azman, Z.; Piscopo, B. R.; Sutherland, A. E.; Thiel, A.; Zahra, V.; Pham, Y.; Nitsos, I.; Hossain, M. M.; Malhotra, A.; Miller, S. L.; Bubb, K. J.; Polglase, G. R.; Allison, B. J.

10.1101/2025.05.27.656490 — physiology — Posted on 2025-06-02

5136 Regulation of Aldosterone Secretion by Substance P and the NK1 Receptor in Aldosterone-Producing Adenomas

Lopez, A.-G.; Duparc, C.; Renouf, S.; D'Agostino, M.; De Sousa, K.; Amar, L.; Defortescu, G.; Manceau, G.; Sabourin, J.-C.; Fernandes-Rosa, F. L.; Zennaro, M.-C.; Meatchi, T.; Nicolas, G.; Louiset, E.; Lefebvre, H.

10.1101/2025.05.28.656733 — physiology — Posted on 2025-06-02

5137 SLC45A4 encodes a peroxisomal putrescine transporter that promotes GABA de novo synthesis

Colson, C.; Wang, Y.; Atherton, J. W.; Dahiya, N. R.; Kharaghani, D.; Su, X.

10.1101/2024.07.23.604788 — biochemistry — Posted on 2025-06-02

5138 Insights into diversity, host range, and evolution of iflaviruses in Lepidoptera through transcriptome mining

van Valkengoed, D.; Bryon, A.; Ros, V. I. D.; Kupczok, A.

10.1101/2025.01.22.634245 — genomics — Posted on 2025-06-02

5139 Adaptive peak tracking as explanation of sparse fossil data across fluctuating ancient environments

Ergon, R.

10.1101/2024.10.30.621046 — evolutionary biology — Posted on 2025-06-02

5140 Diet predicts performance trade-offs during Atlantic salmon ontogeny

Aykanat, T.; Jacobsen, J. A.; Hindar, K.

10.1101/2024.06.04.597289 — ecology — Posted on 2025-06-02

5141 H3K4me3 methyltransferase KMT2F promotes pre-initiation complex formation by RNA Polymerase I to regulate ribosomal RNA transcription.

Lone, K.; Karole, A.; Ravindran, G.; Tyagi, S.

10.1101/2024.11.04.621718 — molecular biology — Posted on 2025-06-02

5142 ClaPNAC: a Classifier of Protein - Nucleic Acid Contacts

Nikolaev, G.; Baulin, E. F.; Bujnicki, J. M.

10.1101/2025.05.30.657037 — molecular biology — Posted on 2025-06-02

5143 Structure of a novel contractile injection system in Salmonella enterica subsp. salamae

Ejaz, R. N.; Funke, K.; Kielkopf, C. S.; Martin, F. J. O.; Siborova, M.; Hendriks, I. A.; Sofos, N. H.; Pape, T. H.; Steiner-Rebrova, E. M.; Nielsen, M. L.; Erhardt, M.; Taylor, N. M. I.

10.1101/2025.06.01.657177 — microbiology — Posted on 2025-06-02

5144 Dynamic interactions of retroviral Gag condensates with nascent viral RNA at transcriptional burst sites: implications for genomic RNA packaging

Kaddis Maldonado, R. J.; Parent, L. J.

10.1101/2025.01.11.632546 — microbiology — Posted on 2025-06-02

5145 Would you agree if N is three? On statistical inference for small N.

Psarou, E.; Katsanevaki, C.; Maris, E.; Fries, P.

10.1101/2024.08.26.609821 — neuroscience — Posted on 2025-06-02

5146 From Morphology to Computation: How Synaptic Organization Shapes Place Fields in CA1 Pyramidal Neurons

Tasciotti, S.; Iascone, D. M.; Chavlis, S.; Hammond, L.; Katz, Y.; Losonczy, A.; Polleaux, F.; Poirazi, P.

10.1101/2025.05.30.657022 — neuroscience — Posted on 2025-06-02

5147 Large Language Models Reveal the Neural Tracking of Linguistic Context in Attended and Unattended Multi-Talker Speech

Puffay, C.; Mischler, G.; Choudhari, V.; Vanthornhout, J.; Bickel, S.; Mehta, A. D.; Schevon, C. A.; McKhann, G. M.; Van hamme, H.; Francart, T.; Mesgarani, N.

10.1101/2025.04.24.648897 — neuroscience — Posted on 2025-06-02

5148 Premature vision drives aberrant development of response properties in primary visual cortex

Griswold, S. V.; Van Hooser, S. D.

10.1101/2025.03.13.643139 — neuroscience — Posted on 2025-06-02

5149 NEUROGLIAL CB1 RECEPTORS CONTROL NAVIGATION STRATEGIES

Egana-Huguet, J.; Sangroniz-Beltran, L.; Baraibar, A. M.; Reyes-Velasquez, P.; Landgraf, N.; Torres-Maldonado, P.; Rodriguez-Cedres, C.; Julio-Kalajzic, F.; Piriz, J.; Ramos-Uriarte, A.; Grandes, P.; Marsicano, G.; Mato, S.; Ceprian, M.; Soria-Gomez, E.

10.1101/2025.05.27.656352 — neuroscience — Posted on 2025-06-02

5150 Separate timescales for spatial and anatomical information processing of body stimuli

Waltzing, B. M.; McAteer, S.; Moreno-Verdu, M.; Van Caenegem, E. E.; Du, Y.; Hardwick, R. M.

10.1101/2024.10.07.616993 — neuroscience — Posted on 2025-06-02

5151 An in vitro human vessel to study Neisseria meningitidis colonization and vascular damages

Pinon, L.; Chabaud, M.; Nivoit, P.; Wong-Ng, J.; Nguyen, T.-T.; Paul, V.; Bouquerel, C.; Goussard, S.; Smilovici, P.; Frachon, E.; Obino, D.; Gobaa, S.; Dumenil, G.

10.1101/2024.02.09.579276 — synthetic biology — Posted on 2025-06-02

5152 Metabolic modeling of a plant-pathogen interaction quantifies the metabolic bottlenecks underlying bacterial wilt

Gerlin, L.; Genin, S.; Baroukh, C.

10.1101/2024.12.12.628148 — plant biology — Posted on 2025-06-02

5153 IRE1 activity regulates tumour and microenvironment cell lineage states while stratifying localised and metastatic prostate cancer.

Doultsinos, D.; Tomljanovic, I.; Pilalis, E.; Abusamra, S.; Parmentier, R.; Bridges, I. E.; Figiel, S.; Zekri, Y.; Hester, J.; Leach, D.; Bevan, C. L.; Lamb, A. D.; Zwart, W.; Chatziioannou, A.; Le Magnen, C.; Mills, I. G.

10.1101/2025.03.13.643042 — cancer biology — Posted on 2025-06-02

5154 Engineering Mechanostable Anticalin Scaffolds to Enhance Particle Adhesion and Targeting of CTLA-4 under Shear Stress

Sun, Y.; Li, J.; Vanella, R.; Liu, H.; Liu, Z.; Nash, M.

10.1101/2024.08.16.608260 — biophysics — Posted on 2025-06-02

5155 Cap-independent co-expression of dsRNA-sensing and NF-κB pathway inhibitors enables tunable self-amplifying RNA expression with reduced immunotoxicity

Lim, T. K. Y.; Ritoux, A.; Paine, L. W.; Ferguson, L.; Abdul, T.; Grundy, L. J.; Smith, E. S. J.

10.1101/2024.09.24.614636 — bioengineering — Posted on 2025-06-02

5156 Induced Proteinuria Enhances Adeno-Associated Virus Transduction of Renal Tubule Epithelial Cells After Intravenous Administration

Rubin, J. D.; Ayasoufi, K.; McGlinch, E. B.; Hansen, M. J.; Harris, P. C.; Torres, V. E.; Barry, M. A.

10.1101/2025.05.28.656514 — genetics — Posted on 2025-06-02

5157 Genomic and Phenotypic Characterization of Mupirocin Resistant Staphylococcus aureus Clinical Isolates

Virgillio, A. M.; Felton, E. A.; Jackson, J. K.; Kennedy, S. J.; Becker, D. N.; Lima, A.; Atrubin, K.; Cella, E.; Azarian, T.; Silbert, S.; Shaw, L. N.; Kim, K.

10.1101/2025.04.16.648996 — microbiology — Posted on 2025-06-02

5158 Disentangling objects' contextual associations from perceptual and conceptual attributes using time-resolved neural decoding

Kim, A. H.; Quek, G. L.; Moerel, D.; Gorton, O. K.; Carlson, T. A.

10.1101/2025.05.29.656895 — neuroscience — Posted on 2025-06-02

5159 Chorionic Gonadotropin Beta 7 is a marker of immune evasion in cancer

McKellar, S. A.; Pineda, J. M. B.; Lattupally, R.; Codd, A. S.; Newell, E.; Lu, S. X.; Bradley, R. K.

10.1101/2025.05.28.656535 — cancer biology — Posted on 2025-06-02

5160 MultiSAAI: Sequence-informed Antibody-Antigen Interactions Prediction using Multi-scale Deep Learning

Lv, Z.; Hou, D.; Hou, M.; Wang, S.; Zhuang, J.; Zhang, G.

10.1101/2025.05.29.656915 — bioinformatics — Posted on 2025-06-02

5161 A NEW DYSTROPHIN DEFICIENT RAT MODEL MIRRORING EXON SKIPPING IN PATIENTS WITH DMD EXON 45 DELETIONS

JABER, A.; WANG, T.; DAOUD, C.; ALBINI, S.; CORRE, G.; BELLEC, J.; BOVOLENTA, M.; DORVAL, A.; DUBOIS, A.; PHILIDET, L.; WARTHI, G.; RICHARD, I.

10.1101/2025.05.30.656540 — genetics — Posted on 2025-06-02

5162 Viral adsorption to Moore swabs in passive wastewater sampling

Rao, G.; Purvis, T.; Cha, G.; Dalton, J.; Fisher, M.; Graham, K. E.; Konstantinidis, K. T.; Linden, Y.; Bivins, A.; Brinton, M. A.; Stauber, C.; Brown, J.

10.1101/2025.05.30.656954 — microbiology — Posted on 2025-06-02

5163 Lack of functional STING modulates immunity but does not protect dopaminergic neurons in the alpha-synuclein preformed fibrils Parkinson's Disease mouse model

Klaestrup, I. H.; Reinert, L. S.; Ferreira, S. A.; Lauritsen, J.; Toft, G. U.; Gram, H.; Jensen, P. H.; Paludan, S. R.; Romero-Ramos, M.

10.1101/2025.05.30.656977 — neuroscience — Posted on 2025-06-02

5164 Slow-Timescale Regulation of Dopamine Release and Mating Drive over Days

Sunkavalli, P. S.; Madara, J. C.; Christenson, L. F.; Diaz, A.; Chen, J.; Ravotto, L.; Patriarchi, T.; Andermann, M. L.; Zhang, S. X.

10.1101/2025.05.29.656898 — neuroscience — Posted on 2025-06-02

5165 Shared and distinct microRNA profiles between HT22, N2A and SH-SY5Y cell lines and primary mouse hippocampal neurons

Jimenez Mateos, E. M.; Murphy, R.; Villegas-Salmeron, J.; Sanz-Rodriguez, A.; Engel, T.; Mooney, C.; Henshall, D. C.

10.1101/2025.06.01.657291 — neuroscience — Posted on 2025-06-02

5166 Genotype-Specific Electroretinogram Signatures in Drosophila: Implications for Neurodegeneration Models Using w1118 Backgrounds

Manuel, N.; Mallipudi, M.; Gajwani, A.; Gopalkrishna Shetty Sreenivasa Murthy, S.; Jupiter, D. C.; Krishnan, B.

10.1101/2024.11.29.626125 — neuroscience — Posted on 2025-06-02

5167 Adverse prognosis of GM-CSF expression in human cutaneous melanoma

Garcia-Martinez, E.; Nieto-Valle, A.; Barrio-Alonso, C.; Lopez-Navarro, B.; Aviles-Izquierdo, J. A.; Parra-Blanco, V.; Gutierrez-Seijo, A.; Sanchez-Mateos, P.; Samaniego Garcia, R.

10.1101/2025.05.30.656980 — cancer biology — Posted on 2025-06-02

5168 Soil to human health continuum: Exploring ergothioneine and mycorrhizal fungi in shaping the wheat microbiome

Ravi, S. S. N.; Pipinos, A.; Insley, N.; Kan, J.; Zinati, G.; Smith, A.; Heller, W.; Bais, H.

10.1101/2025.05.28.656623 — plant biology — Posted on 2025-06-02

5169 Effect of Chronic Stress on Whole Blood Transcriptome: A Meta-Analysis of Publicly Available Datasets from Rodent Models

Flandreau, E. I.; Nguyen, D. M.; Hagenauer, M. H.; Nguyen, M.; Kim, H.; Duan, T.; Bader, A.; Watson, S.; Akil, H.

10.1101/2025.05.30.657043 — genomics — Posted on 2025-06-01

5170 Non-canonical enhancers control gene expression and cell fate in human pluripotent stem cells

Cao, Y.; Dovgusha, O.; Ebrahimi, A.; Bevan, S.; Widmer, L.; Torabi, F.; Kurlovich, J.; Rodriguez-Polo, I.; Khan, S.; Patel, M.; Pradeepa, M. M.; Guenesdogan, U.; Schoenfelder, S.

10.1101/2025.06.01.657118 — genomics — Posted on 2025-06-01

5171 Glutamine deficiency enhances nuclear localization of TCA cycle enzymes and epigenetic modifications, impairing myogenesis

Yadav, A.; Schmitt, S.; Ma, W.; Mobley, J.; Thalacker-Mercer, A. E.

10.1101/2025.05.30.657066 — developmental biology — Posted on 2025-06-01

5172 Redundancy masking and the compression of information in the brain

Öztas, D. N.; L-Miao, L.; Sayim, B.; Alp, N.

10.1101/2025.05.30.657088 — neuroscience — Posted on 2025-06-01

5173 Semantic Memory Traces Reflect How They Were Last Retrieved

Qi, X.; Coutanche, M. N.

10.1101/2025.05.30.657135 — neuroscience — Posted on 2025-06-01

5174 Distributed learning across fast and slow neural systems supports efficient motor adaptation

Agueci, L.; Gajic, N. A. C.

10.1101/2025.06.01.657238 — neuroscience — Posted on 2025-06-01

5175 D1/D5 Receptor Activation Promotes Long-Term Potentiation and Synaptic Tagging/Capture in Hippocampal Area CA2

Kevin Chua, K.; Chong, Y. S.; Sajikumar, S.

10.1101/2025.06.01.657216 — neuroscience — Posted on 2025-06-01

5176 Nucleus accumbens neuron subtype translatome signatures in socially stress females

Kumar, G.; Franco, D.; Basu, M.; Olusakin, J.; Campbell, R.; Ament, S. A.; Fox, M.; Lobo, M. K.

10.1101/2025.06.01.656319 — neuroscience — Posted on 2025-06-01

5177 Uncovering the invisible giant: Amyloid β plaques and their proposed association with waste removal in Alzheimer-affected human hippocampus

Fabian-Fine, R.; Roman, A. G.; Winters, M. J.; Lathram, K. J.; Bennett, C. H.; Kipingi, L. K.; Paul, C. M.; Altman, L. M.; Carrillo, I. C.; Joyce, F. M.; Kragh, L. A.; McKnight, T. J.; Reding, C. J.; Reiderer, L. J.; Rivera, L. J.; Steen, H. A.; Weaver, A. L.

10.1101/2025.06.01.657219 — neuroscience — Posted on 2025-06-01

5178 Peripheral anatomy and central connectivity of proprioceptive sensory neurons in the Drosophila wing

Lesser, E.; Moussa, A.; Tuthill, J. C.

10.1101/2025.05.29.656810 — neuroscience — Posted on 2025-06-01

5179 Astrocyte regional specialization is shaped by postnatal development

Schroeder, M. E.; McCormack, D. M.; Metzner, L.; Kang, J.; Li, K. X.; Yu, E.; Melamed, L.; Levandowski, K. M.; Zaniewski, H.; Zhang, Q.; Boyden, E.; Krienen, F. M.; Feng, G.

10.1101/2024.10.11.617802 — neuroscience — Posted on 2025-06-01

5180 Correlative light and electron microscopy reveals the fine circuit structure underlying evidence accumulation in larval zebrafish

Boulanger-Weill, J.; Kaempf, F.; Schuhknecht, G. F. P.; Schalek, R. L.; Petkova, M.; Vohra, S. K.; Wu, Y.; Savaliya, J. H.; Tiller, R.; Herrera, K. J.; Naumann, H.; Eberle, M.; Rencken, S.; Stingl, M.; Hebling, A.; Hockling, D.; Slangewal, K.; Deng, Z.; Wang, R. C.; Zhang, L. L.; Kirchberger, K. N.; Bianco, I. H.; Baum, D.; Bene, F. D.; Engert, F.; Lichtman, J. W.; Bahl, A.

10.1101/2025.03.14.643363 — neuroscience — Posted on 2025-06-01

5181 Neuronal firing rate diversity lowers the dimension of population covariability

Tian, G. J.; Zhu, O.; Shirhatti, V.; Greenspon, C.; Downey, J. E.; Freedman, D. J.; Doiron, B.

10.1101/2024.08.30.610535 — neuroscience — Posted on 2025-06-01

5182 GNC is a regulator of metabolic and productivity responses to elevated CO2 in Arabidopsis thaliana

Quebedeaux, J. C.; Kannan, K.; Marshall-Colon, A.; Leakey, A. D.

10.1101/2025.05.29.656866 — plant biology — Posted on 2025-06-01

5183 Determination of chemical partitioning in vehicles using a skin surrogate for dermal absorption model refinement.

Pendlington, R.; Sanders, D.; Sheffield, D.; Glavin, S. E.; Barlow, H. J.; Li, H.

10.1101/2025.05.29.656843 — pharmacology and toxicology — Posted on 2025-06-01

5184 Leveraging autophagy and pyrimidine metabolism to target pancreatic cancer

10.1101/2025.05.29.656904 — cancer biology — Posted on 2025-06-01

5185 Immunomodulatory Biomaterials Enhancing Implant Osseointegration: Knowledge Mapping of Research Evolution from March 2005 to March 2025

Li, Y.; Liu, G.

10.1101/2025.05.29.656932 — bioinformatics — Posted on 2025-06-01

5186 Dynamics of expression variability underpin retention of small-scale vs. whole-genome duplicates

Cai, H.; Des Marais, D. L.

10.1101/2024.11.06.622370 — evolutionary biology — Posted on 2025-06-01

5187 Plant-microbe-mediated decrease of greenhouse gases under dynamic wetland hydrology

Bledsoe, R. B.; Finlay, C.; Peralta, A. L.

10.1101/2020.06.29.178533 — ecology — Posted on 2025-06-01

5188 Seventy-five years of insight: the impact of the Ukulinga very long-term grassland experiments

Morris, C.; Kirkman, K.

10.1101/2025.05.30.656967 — ecology — Posted on 2025-06-01

5189 Cooperation Destabilizes Communities, but Competition Pays the Price

Bhat, A. S.; Nag, S.; Dey, S.

10.1101/2023.12.26.573354 — ecology — Posted on 2025-06-01

5190 Structure of a novel contractile injection system in subsp.

Ejaz, R. N.; Funke, K.; Kielkopf, C. S.; Martin, F. J. O.; Siborova, M.; Hendriks, I. A.; Sofos, N. H.; Pape, T. H.; Steiner-Rebrova, E. M.; Nielsen, M. L.; Erhardt, M.; Taylor, N. M. I.

10.1101/2025.06.01.657177 — microbiology — Posted on 2025-06-01

5191 Expanding the MR1 ligandome using chemical class-specific fragmentation and molecular networking

Lecchi, C.; Vacchini, A.; Sainas, S.; Lolli, M. L.; Luedtke, M. W.; Mori, L.; De Libero, G.; Balbo, S.; Villalta, P. W.

10.1101/2025.05.29.656472 — immunology — Posted on 2025-06-01

5192 The effects of breastmilk-derived osteopontin on the intestinal intraepithelial lymphocyte compartment

McClanahan, K. G.; Capella, J.; Gaddy, J.; Olivares-Villagomez, D.

10.1101/2025.05.29.656804 — immunology — Posted on 2025-06-01

5193 Cone bipolar cell synapses generate transient versus sustained signals in parallel ON pathways of the mouse retina

Kuo, S. P.; Yu, W.-Q.; Srivastava, P.; Okawa, H.; Della Santina, L.; Berson, D. M.; Awatramani, G. B.; Wong, R. O.; Rieke, F.

10.1101/2024.05.13.593825 — neuroscience — Posted on 2025-06-01

5194 Phase-synchronized 40Hz tACS and iTBS effects on gamma oscillations

Glinski, B.; Salehinehjad, M. A.; Takahashi, K.; Jamil, A.; Yavari, F.; Kuo, M.-F.; Nitsche, M.

10.1101/2025.03.14.643227 — neuroscience — Posted on 2025-06-01

5195 EXOSC3 S1-domain variants implicated in PCH1b alter RNA exosome cap subunit abundance and thermal stability disrupting rRNA processing and targeting of AU-rich mRNA

Runnebohm, A. M.; Wijeratne, H. S.; Barron, M. P.; Smith-Kinnaman, W. R.; Rooney, J. D.; Peck Justice, S. A.; Cureton, L. A.; Holland, A.; Ghalei, H.; Pelletier, S.; Doud, E. H.; Vilseck, J. Z.; Mosley, A. L.

10.1101/2025.05.31.657176 — systems biology — Posted on 2025-06-01

5196 Voltage-dependent anion channels are mitophagy receptors mediating the recycling of depolarized mitochondria in Arabidopsis

MA, W.; MA, J.; ZHANG, K.; ZHENG, X.; WANG, P.; FENG, L.; MING, S.; ZHUANG, X.; ZHOU, J.; Gao, C.; KANG, B. H.

10.1101/2025.05.29.656919 — plant biology — Posted on 2025-06-01

5197 Systematic measurements of dose-dependent responses for combinatorial treatments of SA and JA led to the development of transcriptomic biomarkers

Tomita, A.; Maeda, T.; Mori-Moriyama, N.; Nomura, Y.; Kurita, Y.; Kashima, M.; Betsuyaku, S.; Nagano, A. J.

10.1101/2025.05.29.656841 — plant biology — Posted on 2025-06-01

5198 Complement factor D (adipsin) mediates pressure-pain hypersensitivity post destabilization of medial meniscus injury

Tjandra, P. M.; Andoko, B. A.; Kim, J. A.; Gomez, A. G.; Sar, S.; Aepala, M. R.; Pham, T. T. K.; Dumlao, D.; Welhaven, H. D.; Collins, K. H.

10.1101/2025.05.29.656852 — physiology — Posted on 2025-06-01

5199 Functional Spatial Mapping of the Tumour Immune Microenvironment In Advanced Melanoma Patients

Legg, S.; Wagner, E.; Applebee, C.; Kirane, A. R.; Padget, J.; Larijani, B.

10.1101/2025.05.29.656855 — cancer biology — Posted on 2025-06-01

5200 Tumor-specific draining lymph node CD8 T cells orchestrate an anti-tumor response to neoadjuvant PD-1 immune checkpoint blockade

Honigsberg, R.; Cruz, T. D.; Yoffe, L.; Tang, M. S.; Ozgenel, D. O.; Markowitz, G.; Micheal, M.; Singh, A.; Altorki, N. K.; Elemento, O.; Villena-Vargas, J.

10.1101/2025.04.27.650862 — cancer biology — Posted on 2025-06-01

5201 MicroCT enables simultaneous longitudinal tracking of murine pancreatic cancer progression and cachexia

Pelz, K. R.; Jimenez, P.; Daniel, C. J.; Newton, S. D.; Cunningham, M.; Sears, R. C.; Worth, P. J.; Brody, J. R.; Zimmers, T. A.

10.1101/2025.05.29.656943 — cancer biology — Posted on 2025-06-01

5202 Chemotaxis of branched cells in complex environments

Liu, J.; Ron, J. E.; Rinaldi, G.; Williantarra, I.; Georgantzoglou, A.; de Vries, I.; Sixt, M.; Sarris, M.; Gov, N.

10.1101/2025.05.27.656457 — biophysics — Posted on 2025-06-01

5203 Single-molecule FRET and tracking of transfected biomolecules: multi-dimensional protein dynamics in living cells

Anandamurugan, A.; Eidloth, A.; Frank, V.; Wortmann, P.; Schrangl, L.; Lan, C.; Schuetz, G.; Hugel, T.

10.1101/2023.09.15.557875 — biophysics — Posted on 2025-06-01

5204 Multimodal retinal imaging by visible light optical coherence tomography and phosphorescence lifetime ophthalmoscopy in the mouse eye

Nolen, S. L.; Li, Z.; Wang, J.; El Khatib, M.; Vinogradov, S. A.; Yi, J.

10.1101/2025.05.29.656845 — bioengineering — Posted on 2025-06-01

5205 Towards MR-based interrogation of the hypoxia-driven insulin resistance mechanism: Adipocytes size estimation.

Morozov, D.; Prentiss, I.; Yamada, N.; Hakhu, S.; Sukstansky, A.; Beeman, S. C.

10.1101/2025.05.29.656865 — bioengineering — Posted on 2025-06-01

5206 A photostable genetically encoded voltage indicator for imaging neural activities in tissue and live animals

Cao, C.; Zhu, R.; Zhou, S.; Zhao, Z.; Lin, C.; Liu, S.; Peng, L.; Subach, F. V.; Piatkevich, K. D.; Zou, P.

10.1101/2025.05.29.656768 — bioengineering — Posted on 2025-06-01

5207 In vivo characterization of Achilles subtendon function and morphology within the tendon cross section and along the free tendon

Strand, K. S.; Hullfish, T. J.; Baxter, J. R.

10.1101/2025.05.29.656873 — bioengineering — Posted on 2025-06-01

5208 The Na+-pumping mechanism driven by redox reactions in the NADH-quinone oxidoreductase from Vibrio cholerae relies on dynamic conformational changes

Ishikawa-Fukuda, M.; Seki, T.; Kishikawa, J.-i.; Takahiro, M.; Okazaki, K.-i.; Kato, T.; Barquera, B.; Miyoshi, H.; Murai, M.

10.1101/2025.06.01.656757 — biochemistry — Posted on 2025-06-01

5209 Burkholderia pseudomallei rubrerythrin promiscuously binds metals in a structurally pre-formed bimetallic binding site

Budziszewski, G. R.; Lynch, M. L.; Snell, M. E.; Monteiro, D. C.; Bowman, S. E.

10.1101/2025.06.01.657255 — biochemistry — Posted on 2025-06-01

5210 Increased EThcD efficiency on the hybrid Orbitrap Excedion Pro Mass Analyzer extends the depth in identification and sequence coverage of HLA class I immunopeptidomes

Kessler, A. L.; Fort, K.; Resemann, H.; Krueger, P.; Wang, C.; Koch, H.; Hauschild, J.-P.; Marino, F.; Heck, A. J. R.

10.1101/2025.06.01.657241 — biochemistry — Posted on 2025-06-01

5211 Genes Encoding Xenobiotic Detoxification Proteins evolve by gene death, duplication and positive selection

Bahmmou, S.; Fouchecourt, S.; Monget, P.

10.1101/2025.05.31.657154 — evolutionary biology — Posted on 2025-06-01

5212 SR9009 Regulates Macrophage Polarization via the NR1D1/NF-κB Axis to Ameliorate Obesity Associated Ulcerative Colitis

Zheng, Z.; Cai, X.; Liu, Y. Q.; Bi, J. T.

10.1101/2025.06.01.657286 — molecular biology — Posted on 2025-06-01

5213 HIGH CO2 LEVELS OVERCOME THE NIGHTTIME LETHALITY OF CIRCADIAN MUTANTS IN CYANOBACTERIA

Mendana, A.; Santos-Merino, M.; Dominguez-Quintero, M.; Gutierrez-Lanza, R.; Ducat, D.; Fernandez-Lopez, R.

10.1101/2025.06.01.657271 — microbiology — Posted on 2025-06-01

5214 Dynamic flexibility of the gut microbiota to morphine disturbance enables escape from the stable dysbiosis associated with addiction-like behavior

Sall, I. J.; Foxall, R.; Felth, L.; Gaur, A.; Whistler, J.; Whistler, C. A.

10.1101/2025.06.01.657215 — microbiology — Posted on 2025-06-01

5215 IFITM1 and IFITM3 cooperate to restrict virus entry in endolysosomes

Wilt, I.; Jolley, A. A.; Rahman, K.; Lai, K. K.; Shi, G.; Andresson, T.; Compton, A. A.

10.1101/2025.06.01.657267 — microbiology — Posted on 2025-06-01

5216 Macrophages Lacking TSC2 have mTORC1-dependent GPNMB Augmentation Ameliorating Cardiac Ischemia-Reperfusion Injury

Keykhaei, M.; Koleini, N.; Meddeb, M.; Tajdini, M.; Rezaee, M.; Huang, Q.; Panesar, T.; Adamo, L.; Ranek, M.; Kass, D. A.

10.1101/2025.05.29.656917 — immunology — Posted on 2025-06-01

5217 Locomotory activity is more consistent over time than thigmotaxis and aggressive behavior in sea-ranched Baltic salmon (Salmo salar L.)

Axling, J. M.; Petersson, E.; Winberg, S.

10.1101/2025.05.29.656924 — zoology — Posted on 2025-06-01

5218 Developmentally-specific physiological and metabolic responses support drought resilience in switchgrass and constrains biofuel yield

Basyal, B.; Li, X.; Pargulski, V.; Fu, X.; Nightingale, N.; Overmyer, K.; Coon, J.; Zhang, Y.; Benucci, G. M. N.; Last, R.; Sato, T.; Walker, B.

10.1101/2025.05.29.656847 — plant biology — Posted on 2025-06-01

5219 HOOK2 downregulation compromises the tumorigenic and stemness properties of ovarian cancer cells by increasing endoplasmic reticulum stress

Suarez Martinez, E.; Piersma, S. R.; Pham, T. V.; Bijnsdorp, I. V.; Jimenez, C.; Carnero, A.

10.1101/2025.05.29.656800 — cancer biology — Posted on 2025-06-01

5220 ASXL1 truncating mutations drive leukemic resistance to T cell attack

McCurry, D.; Bachireddy, P.

10.1101/2025.05.29.656798 — cancer biology — Posted on 2025-06-01

5221 A network medicine framework for multi-modal data integration in therapeutic target discovery

Baltusyte, G.; Toleman, I.; Jones, J.; Saeb-Parsy, K.; Han, N.

10.1101/2025.05.29.656813 — bioinformatics — Posted on 2025-06-01

5222 Automated registration of spatial expression data scales multimodal integration to large cohorts

Harrigan, C. F.; Lam, C. Y.; Chen, D.; Lai, C.; Bremner, R. F.; Jackson, H. W.; Campbell, K.

10.1101/2025.05.29.656851 — bioinformatics — Posted on 2025-06-01

5223 Bottom-up proteomics under acidic conditions using protease type XIII from Aspergillus saitoi

Tomioka, R.; Tomioka, A.; Ogata, K.; Ishihama, Y.

10.1101/2025.06.01.657254 — biochemistry — Posted on 2025-06-01

5224 A Long-Term Drosophila Body Mass Measurement System

Li, Y.; Feng, D.; Li, W.

10.1101/2025.05.29.656772 — animal behavior and cognition — Posted on 2025-06-01

5225 A Temporal Single-Cell Multi-Omics Atlas of Murine Pancreatic Islet Remodeling During Hyperglycaemia Progression

Singh, S.; Pavan, M. K.; Barella, L. F.; Telang, J.; Shree, A.; Agarwal, S.; Goel, A.; Thaleshwar, S. i.; Wess, J.; Zafar, H.; Pydi, S. P.

10.1101/2025.05.29.656754 — genomics — Posted on 2025-06-01

5226 Phylogenomics of Aristolochia subg. Siphisia (Aristolochiaceae) reveals widespread incomplete lineage sorting and supports a novel pollinator-filtering hypothesis

Wang, Y.; Liao, S.; Guo, Z.; Li, P.; Huang, Y.; Onyenedum, J. G.

10.1101/2025.05.29.656634 — evolutionary biology — Posted on 2025-06-01

5227 Solving three core challenges in transient dynamics analysis of matrix population models

Hinrichsen, R. A.

10.1101/2025.05.29.656837 — ecology — Posted on 2025-06-01

5228 Environmental RNA/DNA Metabarcoding for Ecological Risk Assessment of Chemicals Based on Response of Benthic Communities in Natural Environments

Inoue, Y.; Miyata, K.; Yamane, M.; Honda, H.

10.1101/2025.05.29.656937 — ecology — Posted on 2025-06-01

5229 Developmental system drift in dorsoventral patterning is linked to transitions to autonomous development in Annelida

Carrillo-Baltodano, A. M.; Haillot, E.; Meha, S. M.; Luqman, I.; Pashaj, A.; Lee, Y.-J.; Lu, T.-M.; Ferrier, D. E. K.; Schneider, S. Q.; Martin-Duran, J. M.

10.1101/2025.05.29.656861 — developmental biology — Posted on 2025-06-01

5230 Transient epithelial mimicry reconciles stemness and regional specification in neural crest cells of avian beaks

Sanchez Moreno, C.; Badyaev, A.

10.1101/2025.05.29.656909 — developmental biology — Posted on 2025-06-01

5231 Complex I inhibition shifts mitochondrial dynamics and regulates cancer cell survival, providing a synthetic lethal interaction

Bhati, F. K.; Saha, U.; Singh, S.; Bhat, M. K.

10.1101/2025.05.29.656565 — cancer biology — Posted on 2025-06-01

5232 EXTENDING PROTEIN LANGUAGE MODELS TO A VIRAL GENOMIC SCALE USING BIOLOGICALLY INDUCED SPARSE ATTENTION

Dejean, T. L.; Ferrell, B. D.; Sawhney, R.; Harrigan, W.; Polson, S. W.; Wommack, K. E.; Belcaid, M.

10.1101/2025.05.29.656907 — bioinformatics — Posted on 2025-06-01

5233 Trainable subnetworks reveal insights into structure knowledge organization in protein language models

Vinod, R.; Amini, A. P.; Crawford, L.; Yang, K. K.

10.1101/2025.05.29.656902 — bioinformatics — Posted on 2025-06-01

5234 Cell Type Specific Aging Transcriptional Signatures of Human Retina Through Integrated Machine Learning and Single-Cell Transcriptomics

Yang, L.; Lin, S.; Tao, Y.; Pan, Q.; Cai, T.; Ye, Y.; Liu, J.; Zhou, Y.; Shao, Y.; Yi, Q.; Lu, Z. H.; Chen, L.; McKay, G.; Rankin, R.; Li, F.; Meng, W.

10.1101/2025.05.29.656930 — bioinformatics — Posted on 2025-06-01

5235 EnrichMap: Spatially informed enrichment analysis for functional interpretation of spatial transcriptomics

Celik, C.; Secrier, M.

10.1101/2025.05.30.656960 — bioinformatics — Posted on 2025-06-01

5236 TSSpredator-Web: A web-application for transcription start site prediction and exploration

Witte Paz, M.; Herbig, A.; Nieselt, K.

10.1101/2025.05.29.656934 — bioinformatics — Posted on 2025-06-01

5237 Damage and Misrepair Signatures: Compact Representations of Pan-cancer Mutational Processes

Harrigan, C. F.; Campbell, K.; Morris, Q.; Funnell, T.

10.1101/2025.05.29.656360 — genomics — Posted on 2025-06-01

5238 Whole Exome Sequencing and Single-Cell DNA Sequencing for Assessment of Clonal Heterogeneity and Evolution in Acute Myeloid Leukemia

Adhikari, S.; Eldfors, S.; Pitkanen, E.; Vaha-Koskela, M.; Heckman, C.

10.1101/2025.05.30.656982 — genomics — Posted on 2025-06-01

5239 Novel insights into the genome organization of Rhizobiaceae: identification of linear plasmids

Kuzmanovic, N.; Wick, R. R.; Kalita, M.; Pulawska, J.; DiCenzo, G. C.; Hynes, M. F.; Smalla, K.; Babin, D.; Thuenen, T.

10.1101/2025.05.29.656789 — genomics — Posted on 2025-06-01

5240 Single-cell Characterization of DNA Hydroxymethylation of the Mouse Brain During Aging

Bai, Y.; Yuan, T.; Ren, L.; Huan, Y.; Yang, F.; Li, Y.; Zhang, A.; Liu, Y.; Tian, T.; Kang, N.; Chen, D.; Xie, X.; Wang, Q.; Chen, W.; Zheng, Y.; Xie, X. S.; Cao, Y.

10.1101/2025.05.29.656780 — genetics — Posted on 2025-06-01

5241 From Synthetic to Biological Nitrification Inhibition: Advancing Stabilization of Organic Fertilizers

Vega-Mas, I.; Mancia, A.; Maggetto, L.; Murillo, H.; Debacq, A.; Heinesch, B.; Boland, F.; Krause, H.-M.; Vanderschuren, H.; Thonar, C.

10.1101/2025.05.29.656819 — plant biology — Posted on 2025-06-01

5242 Atypical antipsychotics alter microglial functions via astrocyte-derived extracellular vesicles

Yeh, H.; McCrea, L. T.; Bowen, J. J.; Sheridan, S. D.; Perlis, R. H.

10.1101/2025.05.28.656664 — neuroscience — Posted on 2025-06-01

5243 Plastimos: a live cell imaging-based framework to study dynamics of EMT-mediated cellular plasticity in breast cancer

Hosseini, H.; Sameri, S.; Das, D.; Materna-Reichelt, S.; Stojanovic Guzvic, N.; Wöhrl, L.; Hoffmann, M.

10.1101/2025.05.28.656591 — bioinformatics — Posted on 2025-06-01

5244 Doxycycline Release From Cyclodextrin Oligomer-Containing Collagen Gels

Trout, E.; Palomo, L.; von Recum, H. A.; Eppell, S. J.

10.1101/2025.05.28.656660 — bioengineering — Posted on 2025-06-01

5245 Spatial metabolomics reveals persistent localized niche-specific metabolic failure in kidneys following ischemia-reperfusion injury

Rietjens, R. G. J.; Manzato, B.; van den Berg, B. M.; Mahfouz, A.; Giera, M.; Dumas, S. J.; Wang, G.; Rabelink, T. J.

10.1101/2025.05.27.656326 — biochemistry — Posted on 2025-06-01

5246 Development of a CRISPR/Cas9-induced gene editing system for Pseudoalteromona fuliginea and its applications in functional genomics

Duan, Z.; Yang, R.; Lai, T.; Jiang, W.; Zhang, J.; Chen, B.; Liao, L.

10.1101/2025.05.30.657001 — molecular biology — Posted on 2025-06-01

5247 Host adaptation and genome evolution of the broad host range fungal rust pathogen, Austropuccinia psidii

Luo, Z.; Tobias, P.; Singh, L.; Dong, C.; Martino, A. M.; Quecine, M.; Massola Junior, N. S.; Silva, L. C. A.; Li, J.; Singh, S.; Zhang, Z.; Jones, A.; Park, R. F.; Schwessinger, B.; Edwards, R.; Boufleur, T.

10.1101/2025.05.29.656941 — microbiology — Posted on 2025-06-01

5248 Peptides alleviate cognitive impairment by inhibiting and disassembling amyloid-beta aggregates in Alzheimer disease

Gao, W.; Gao, B.; Wang, S.; Wu, D.; Mei, P.; Geng, L.; Li, C.; Li, Y.; Liu, X.; Pan, J.; Huang, J.; Deng, Y.; Chen, X.; saiyin, H.; Yu, H.; Li, S.; Zhang, Q.; Xu, B.; Huang, F.; Ming, C.; Wu, H.; Li, J.

10.1101/2025.05.28.656730 — neuroscience — Posted on 2025-06-01

5249 Rab2 and Arl8/BORC control retrograde axonal transport of dense core vesicles via Syd/dJIP3/4 and RUFY dynein adaptors

Lund, V. K.; Chirco, A.; Caliari, M.; Larsen, A. H.; Gether, U.; Madsen, K. L.; Wierer, M.; Kjaerulff, O.

10.1101/2025.05.28.656585 — neuroscience — Posted on 2025-06-01

5250 EEG reveals how space acts as a late heuristic of time

Doricchi, F.; Scozia, G.; Pinto, M.; Lozito, S.; Lo Presti, S.; Pazzaglia, M.; Silvetti, M.; Lasaponara, S.

10.1101/2025.05.28.656560 — neuroscience — Posted on 2025-06-01

5251 Lysosomal stress induces amyloid-β aggregate release and reactive transformation in human astrocytes

Goldsworthy, S.; Fertan, E.; Dyal, P.; Domoney, S.; Livesey, F.; Klenerman, D.; Patani, R.; Hung, C.

10.1101/2025.05.27.656416 — neuroscience — Posted on 2025-06-01

5252 Integrin-Specific Signaling Drives ER Stress-Dependent Atherogenic Endothelial Activation

Ben Dhaou, C.; Al-Yafeai, Z.; Cruz-Marquez, G. A.; Scott, M. L.; Pearson-Gallion, B.; Cockerham, E.; Li, H.; Peretik, J. M.; Hong, Y.; Dhanesha, N.; Yurdagul, A.; Rom, O.; Bhuiyan, M. S.; Orr, A. W.

10.1101/2025.05.31.654582 — pathology — Posted on 2025-06-01

5253 Population structure of Phytophthora infestans collected from potatoes in Guatemala and Honduras

Izarra, M. L.; Perez, W. G.; Vasquez, E. F.; Perez, G. E.; Gamboa, S.; Andrade-Piedra, J.; Flores, B.; Montejo, L.; Sanders, A.; Kreuze, J. F.

10.1101/2025.05.28.656702 — pathology — Posted on 2025-06-01

5254 KODAMA enables self-guided weakly supervised learning in spatial transcriptomics

Abdel-Shafy, E. A.; Kassim, M.; Vignoli, A.; Mamdouh, F.; Tyekucheva, S.; Ahmed, D.; Ojo, D.; Price, B.; Socciarelli, F.; Duarte-Delgado, N. P.; Ocharo, M.; Okeke, C. J.; Triboli, L.; MacIntyre, D. A.; Loda, M.; Sarkar, D.; Gupta, D.; Piazza, S.; Zerbini, L. F.; Tenori, L.; Cacciatore, S.

10.1101/2025.05.28.656544 — bioinformatics — Posted on 2025-06-01

5255 The clinical drug candidate anle138b binds predominantly to the central cavity in lipidic Aβ fibrils and modulates fibril formation.

Han, M.; Frieg, B.; Matthes, D.; Leonov, A.; Ryazanov, S.; Giller, K.; Nimerovsky, E.; Stampolaki, M.; Xue, K.; Overkamp, K.; Dienemann, C.; Riedel, D.; Giese, A.; Becker, S.; de Groot, B. L.; Schroeder, G.; Andreas, L. B.; Griesinger, C.

10.1101/2025.05.30.655790 — biochemistry — Posted on 2025-06-01

5256 Genomic signatures of climate-driven (mal)adaptation in an iconic conifer, the English yew (Taxus baccata L.)

Francisco, T.; Mayol, M.; Vajana, E.; Riba, M.; Westergren, M.; Cavers, S.; Pinosio, S.; Bagnoli, F.; Marchi, M.; Aravanopoulos, F. A.; Farsakoglou, A.-M.; Scotti, I.; Fady, B.; Vendramin, G. G.; Archambeau, J.; Piotti, A.; Gonzalez-Martinez, S. C.

10.1101/2025.05.29.656833 — genomics — Posted on 2025-06-01

5257 The XPF-like domain in SHOC1 required for homologous recombination and safeguarding autosome from meiotic silencing of unsynapsed chromatin

Zhang, Y.; Sun, Q.; Ji, Z.; Mo, R.; Zhou, Y.; Zhao, J.; Xu, S.; Li, N.; Sun, Y.; Bai, H.; Zhi, E.; Han, S.; Chen, H.; Zhang, J.; Qian, D.; Bu, X.; Huang, Y.; Tian, R.; Guo, Y.; Lv, J.; Zhao, L.; Yang, C.; Zhao, F.; Li, P.; Zhou, Z.; Li, Z.; Yao, C.

10.1101/2025.05.28.656576 — developmental biology — Posted on 2025-06-01

5258 WAGO-1 is a sexually dimorphic Argonaute protein required for proper germ granule structure and gametogenesis

DiNardo, A. L.; Kurhanewicz, N. A.; Wilson, H. R.; Berg, V.; Libuda, D. E.

10.1101/2025.05.29.656876 — developmental biology — Posted on 2025-06-01

5259 Targeted Ablation of Canonical Disulfide Bonds Mitigates TCR Mismatching in Engineered T Cells

Su, D.; Liu, G.

10.1101/2025.05.28.656745 — immunology — Posted on 2025-06-01

5260 Recovery of retinal terminal fields after traumatic brain injury: evidence of collateral sprouting and sexual dimorphism

Alexandris, A. S.; Yi, J.; Liu, C.; Belamarich, J.; Alam, Z.; Vats, A.; Peng, A.; Welsbie, D. S.; Zack, D. J.; Koliatsos, V. E.

10.1101/2025.05.28.656451 — neuroscience — Posted on 2025-06-01

5261 A Minimal Physiological Model of Perceptual Suppression and Breakthrough in Visual Rivalry

Whyte, C. J.; Wilson, H. R.; Shine, J. M.; Alais, D.

10.1101/2025.05.28.656716 — neuroscience — Posted on 2025-06-01

5262 Insulin-like androgenic gland factor regulates the development of internal and external secondary sexual characteristics in juvenile male kuruma prawn Marsupenaeus japonicus

Furukawa, T.; Yamane, F.; Takeuchi, R.; Ohira, T.; Toyota, K.; Miyazaki, T.; Tsutsui, N.

10.1101/2025.05.29.656773 — zoology — Posted on 2025-06-01

5263 nanoPhos enables ultra-sensitive and cell-type resolved spatialphosphoproteomics

Oliinyk, D.; Heymann, T.; Henneberg, L.; Bardziukova, A.; Thielert, M.; Kjaergaard, J.; Vasconez, S.; Oeller, M.; Rodriguez, E.; Rosenberger, F. A.; Mann, M.

10.1101/2025.05.29.656770 — systems biology — Posted on 2025-06-01

5264 Body Fluid Proteomic Landscape of Acute Exercise

Kurgan, N.; Kjaergaard, J.; Jespersen, N. Z.; Diez-Obrero, V.; Moreno-Justicia, R.; Heywood, S. E.; Lindqvist, C. B.; Ottander, L.; Samodova-Sommer, D.; Nielsen, N. S.; Durrer, C. G.; Ried-Larsen, M.; Rasmussen, S.; Loos, R. J. F.; Smit, R. A. J.; Pedersen, B. K.; Deshmukh, A. S.

10.1101/2025.05.28.656705 — physiology — Posted on 2025-06-01

5265 Molecular dynamics driving phenotypic divergence among KRAS mutants in pancreatic tumorigenesis

Grimont, A.; Falvo, D. J.; Sisso, W. J.; Zumbo, P.; Chan, C. W.; Santos, F.; Pan, G.; Cleveland, M.; Yaron, T.; Osterhoudt, A. S.; Meng, Y.; Zafra, M. P.; Fall, W. B.; Rendeiro, A. F.; Hissong, E.; Yantiss, R. K.; Betel, D.; Magnuson, M. A.; Leach, S. D.; Rustgi, A. K.; Dow, L. E.; Chandwani, R.

10.1101/2025.05.28.656689 — cancer biology — Posted on 2025-06-01

5266 Robust statistical assessment of Oncogenotype to Organotropism translation in xenografted zebrafish

Saucier, D.; Jiang, X.; Rajendran, D.; Ravishankar, R.; Butler, E.; Marchetto, A.; Kurmasheva, R.; Gruenewald, T.; Amatruda, J.; Danuser, G.

10.1101/2025.05.28.656734 — cancer biology — Posted on 2025-06-01

5267 PAMD-Ch17, a Polymeric Analog of Plerixafor, Induces Mitochondrial Dysfunction in T-ALL Cells Independent of CXCR4

Lam, C.; Dhir, A.; Jogdeo, C. M.; Panda, S.; Kapoor, E.; Tang, S.; Rivero, V.; McIntyre, E. M.; Xiao, P.; Black, A. R.; Hewitt, K.; Swenson, S. A.; Romanova, S.; Oupicky, D.; Hyde, R. K.

10.1101/2025.05.28.656643 — cancer biology — Posted on 2025-06-01

5268 Improving dosage and timing of radiopharmaceutical therapies using computational modeling of tumor and radioligand dynamics

Mollaheydar, E.; Saboury, B.; Rahmim, A.; Cytrynbaum, E. N.

10.1101/2025.05.28.656722 — cancer biology — Posted on 2025-06-01

5269 Targeted suppression of SPP1 inhibits tumor invasion and metastasis in NRF2 hyperactivated cisplatin resistant HNSCC

Kawabe, M.; Yang, S.; Bolanos, L. G.; Takamatsu, S.; Flores, S. A.; Castro, P. D.; Tsai, T.-Y.; Kaga, A. N.; Frederick, M. J.; Sandulache, V.; Kadara, H.; Myers, J. N.; Osman, A. A.

10.1101/2025.05.28.656679 — cancer biology — Posted on 2025-06-01

5270 Uncovering Symbolic Convergence in Human Sperm Motility: A Data-Driven Analysis of Monotonic Trajectory Clusters

Sergounioti, A.; Alonaris, E.; Rigas, D.; Kalles, D.

10.1101/2025.05.28.656538 — bioinformatics — Posted on 2025-06-01

5271 Neural Spectral Prediction for Structure Elucidation with Tandem Mass Spectrometry

Wang, R.; Manjrekar, M.; Mahjour, B.; Avila-Pacheco, J.; Provenzano, J.; Reynolds, E.; Lederbauer, M.; Mashin, E.; Goldman, S. L.; Wang, M.; Weng, J.-K.; Plata, D. L.; Clish, C. B.; Coley, C. W.

10.1101/2025.05.28.656653 — bioinformatics — Posted on 2025-06-01

5272 HAMRLNC: A Comprehensive Pipeline for High-throughput Analysis of Modified Ribonucleotides and Long Non-Coding Ribonucleic Acids

Obih, C. E.; Li, J.; melandri, G.; Pauli, D.; Lyons, E.; Nelson, A. D. L.; Gregory, B. D.

10.1101/2025.05.28.656613 — bioinformatics — Posted on 2025-06-01

5273 Geometry aware graph attention networks to explain single-cell chromatin state and gene expression

Malagoli, G.; Hanel, P.; Danese, A.; Wolf, G.; Colome-Tatche, M.

10.1101/2025.05.29.656611 — bioinformatics — Posted on 2025-06-01

5274 Controllable Gap Junctions by Vitamin B12 and Light

Cui, D.; Liu, S.; Huang, X.; Tang, X. A.; Zheng, M.; He, Z.; Xu, R.; Sun, C.; Xu, Y.; Tu, R.; Zou, P.; Xie, T.; Sun, F.

10.1101/2025.05.28.656405 — bioengineering — Posted on 2025-06-01

5275 Functional analysis of gene family evolution demonstrates expansion of digestive, immunity and olfactory functions in the black soldier fly (Hermetia illucens) lineage

Zhou, W.; Kunz, D.; Jiggins, C. D.

10.1101/2025.05.30.657015 — genomics — Posted on 2025-06-01

5276 Whole-genome polymorphisms and relatedness of rice varieties circulating in the Mediterranean market

Rodrigues, H. M.; Vieira, M. B.; Barros, P. M.; Oliveira, M. M.

10.1101/2025.05.29.656782 — genomics — Posted on 2025-06-01

5277 Biological characteristics of rabbit KLF12 and its regulation of proliferation and apoptosis of ovarian granulosa cells

Cai, J.; Zhao, B.; Bao, Z.; Li, Y.; Han, X.; Chen, Y.; Wu, X.

10.1101/2025.05.29.656763 — genetics — Posted on 2025-06-01

5278 Projected warming disrupts embryonic development and hatch timing in Antarctic fish

Streeter, M. S.; Le Francois, N. R.; Desvignes, T.; Grondin, J.; Postlethwait, J. H.; Detrich, H. W.; Daane, J.

10.1101/2025.05.28.656708 — developmental biology — Posted on 2025-06-01

5279 FGF receptor modulates planar cell polarity in the neuroectoderm via Vangl2 tyrosine phosphorylation

Chuykin, I.; Sokol, S.

10.1101/2025.05.28.656647 — developmental biology — Posted on 2025-06-01

5280 SUSTAINED SYSTEMIC AND NEUROINFLAMMATION IN COGNITIVE DYSFUNCTIONAL FEMALE MICE AFTER NON-SEVERE EXPERIMENTAL MALARIA

Rosa-Goncalves, P.; Siqueira-e-Silva, B. N.; Lima, M. N.; Chagas, L. d. S.; de-Sousa, L. P.; Caputo, L. F. G.; da Silva, I. J.; dos Santos, J. P. R.; Evaristo, C. C. d. A.; Nogueira, M. d. S.; Werneck, G. L.; Ribeiro-Gomes, F. L.; Totino, P. R. R.; Pratt-Riccio, L. R.; Maron-Gutierrez, T.; de Almeida, R. F.; Machado, M. P.; Serfaty, C. A.; Daniel-Ribeiro, C. T.

10.1101/2025.05.28.656400 — immunology — Posted on 2025-06-01

5281 Hair follicle stem cell fate supports distinct clinical endotypes in Hidradenitis Suppurativa

Onfroy, A.; Jean-Louis, F.; Le Corvoisier, P.; Coulpier, F.; Muret, K.; Bonnet, E.; Arrouasse, R.; Boucle, C.; Abid, S.; Sbidian, E.; Bergqvist, C.; Wolkenstein, P.; Godot, V.; Deleuze, J.-F.; Levy, Y.; Topilko, P.; Audureau, E.; Hue, S.

10.1101/2025.05.28.656362 — immunology — Posted on 2025-06-01

5282 Microtubule anchoring and coupling of CD20 to the RhoA/Rock1 pathway

Klasener, K.; Lee, C. E.; Bender, J.; Naumann, A.; Reimann, L.; Andrieux, G.; Nitschke, R.; Warscheid, B.; Warnatz, K.; Voll, R. E.; Reth, M.

10.1101/2025.05.29.656301 — immunology — Posted on 2025-06-01

5283 Germline polymorphism in the immunoglobulin kappa and lambda loci explain variation in the expressed light chain antibody repertoire

Engelbrecht, E.; Rodriguez, O. L.; Lees, W.; Vanwinkle, Z.; Shields, K.; Schultze, S.; Gibson, W. S.; Smith, D. R.; Jana, U.; Saha, S.; Peres, A.; Yaari, G.; Smith, M. L.; Watson, C. T.

10.1101/2025.05.28.656470 — immunology — Posted on 2025-06-01

5284 Effects of Natural Lithium and Lithium Isotopes on Voltage Gated Sodium Channel Activity in SH-SY5Y and IPSC Derived Cortical Neurons

Bukhteeva, I.; Livingstone, J. D.; Singh, K.; Pavlov, E. V.; Beazely, M. A.; Gingras, M. J. P.; Leonenko, Z.

10.1101/2025.05.28.656602 — neuroscience — Posted on 2025-06-01

5285 Protective role of Cannabidiol against nicotine pouch-induced seizure aggravation and alterations in brain glymphatic biomarkers.

Bhandari, B.; Naeini, S. E.; Rogers, H. M.; Alhashim, A. H.; Yu, J. C.; Seyyedi, M.; Young, N.; Salles, E. L.; Wang, L. P.; Baban, B.

10.1101/2025.05.28.656668 — neuroscience — Posted on 2025-06-01

5286 Overexpression of DnaJ chaperones in ameliorating toxicities associated with FUS and TDP-43

Ahire, S.; Bose, T.

10.1101/2025.05.28.656528 — neuroscience — Posted on 2025-06-01

5287 Opposing effects of H2A.Z on memory, transcription and pathology in male and female Alzheimer's disease mice and patients

Luo, J. Q.; Hategan, L. A.; Creighton, S.; Hua, S.; McLean, T. A. B.; Dahi, T. A.; Jin, Z.; Pirri, F.; Winston, S. M.; Reeves, I. L.; Fahnestock, M.; Brimble, M. A.; Walters, B. J.; Murphy, P. J.; Zovkic, I.

10.1101/2025.05.28.656659 — neuroscience — Posted on 2025-06-01

5288 Pyruvate kinase activates SARM1 to exacerbate axonal degeneration in diabetic peripheral neuropathy

Liu, J.; Li, W.; Li, C.; Jiang, Y.; Zhu, W. J.; Zhang, Z.; Zhao, Y. J.; Lin, J.; YU, W.

10.1101/2025.05.28.656718 — neuroscience — Posted on 2025-06-01

5289 Abnormal synaptic proteomes, impaired neural ensembles, and defective behaviors in autism mouse models are ameliorated by dietary intervention with nutrient mixtures

Huang, T.-N.; Lin, M.-H.; Hsu, T.-T.; Yu, C.-H.; Hsueh, Y.-P.

10.1101/2025.05.29.656761 — neuroscience — Posted on 2025-06-01

5290 Twist and Snout: Head and Body Morphologies Determine Feeding Kinematics in Substrate-Biting Fishes

Perevolotsky, T.; Brotman-Krass, J. M.; Ratner, Y.; Avigad, Y.; Summers, A. P.; Donatelli, C. M.; Holzman, R.

10.1101/2025.05.28.656629 — zoology — Posted on 2025-06-01

5291 Integrating Alternative Fragmentation Techniques into Standard LC-MS Workflows Using a Single Deep Learning Model Enhances Proteome Coverage

Levin, N.; Saylan, C. C.; Lapin, J.; Demyanenko, Y.; Yang, K. L.; Sidda, J.; Nesvizhskii, A.; Wilhelm, M.; Mohammed, S.

10.1101/2025.05.28.656555 — systems biology — Posted on 2025-06-01

5292 Maternal control of RNA decay safeguards embryo development

Del Toro-De Leon, G.; Trenti, M. S.; Vasudevan, V.; Krause, U.; Köhler, C.

10.1101/2025.05.28.656625 — plant biology — Posted on 2025-06-01

5293 Galactan mobilization during carbon starvation compromises cell wall-mediated fungal resistance in Arabidopsis

Reckleben, L.; Morton, R. N.; Munzert-Eberlein, K. S.; Thiel, S.; Rautengarten, C.; Tan, V.; Harres, K. L.; Zanoni, L.; Ebert, B.; Engelsdorf, T.

10.1101/2025.05.28.656597 — plant biology — Posted on 2025-06-01

5294 OGDHL regulates nucleotide metabolism, tumor growth, and neuroendocrine marker expression in prostate cancer

Bernard, M.; Ruiz, A.; Diaz, J.; Nunley, N.; Dove, R.; Heering, K.; Bopardikar, S.; Gallardo, A.; Hashimoto, T.; Agrawal, R.; Smith, C.; Wilde, B.; Matulionis, N.; Richards, H.; Sharifi, M.; Lang, J.; Zhao, S.; Haffner, M.; Boutros, P. C.; Christofk, H.; Goldstein, A. S.

10.1101/2025.05.28.656673 — cancer biology — Posted on 2025-06-01

5295 Integrating Drug-like Moieties and Binding Site Evolution for Kinase Inhibitor Prediction Using Ensemble Learning Models

Lin, W.-L.; Hsu, Y.-C.; Yang, J.-M.

10.1101/2025.05.28.656738 — bioinformatics — Posted on 2025-06-01

5296 Generating dynamic structures through physics-based sampling of trRosettaX2-predicted inter-residue geometries

Xiang, C.; Wang, W.; Peng, Z.; Yang, J.

10.1101/2025.05.28.656531 — bioinformatics — Posted on 2025-06-01

5297 Multivariate Mutual Information based Feature Selection for Predicting Histone Post-Translational Modifications in Epigenetic Datasets

Dhanasekhar, V. K.; Pillai, S. R. B.; Ramakrishnan, N.

10.1101/2025.05.28.656539 — bioinformatics — Posted on 2025-06-01

5298 Enhancing genome recovery across metagenomic samples using MAGmax

Arangasamy, Y.; Soeding, J.

10.1101/2025.05.28.656617 — bioinformatics — Posted on 2025-06-01

5299 LazySlide: accessible and interoperable whole slide image analysis

Zheng, Y.; Abila, E.; Chrenkova, E.; Winkler, J.; Rendeiro, A. F.

10.1101/2025.05.28.656548 — bioinformatics — Posted on 2025-06-01

5300 scExploreR: a flexible platform for democratized analysis of multimodal single-cell data by non-programmers

Showers, W.; Desai, J.; Gipson, S. R.; Engel, K. L.; Smith, C.; Jordan, C. T.; Gillen, A. E.

10.1101/2025.05.28.656649 — bioinformatics — Posted on 2025-06-01

5301 SummArIzeR: Simplifying cross-database enrichment result clustering and annotation via large language models

Brinkmann, M.; Bonelli, M.; Tosevska, A.

10.1101/2025.05.28.656331 — bioinformatics — Posted on 2025-06-01

5302 Non-consensus flanking sequence of hundreds of base pairs around in vivo binding sites: statistical beacons for transcription factor scanning

Faltejskova, K.; Sulc, J.; Vondrasek, J.

10.1101/2025.05.28.656598 — bioinformatics — Posted on 2025-06-01

5303 A universal pipeline MosaicProt enables large-scale modeling and detection of chimeric protein sequences for studies on programmed ribosomal frameshifting

Cakir, U.; Gabed, N.; Yurtseven, A.; Kryvoruchko, I. S.

10.1101/2025.05.29.656767 — bioinformatics — Posted on 2025-06-01

5304 Benchmarking Software for DDA-PASEF Immunopeptidomics

Chen, Y.; Preikschat, A.; Arnold, A.; Pecori, R.; Gomez-Zepeda, D.; Tenzer, S.

10.1101/2025.05.28.656277 — bioinformatics — Posted on 2025-06-01

5305 Noninvasive Control of Seizure Threshold with Acoustically Targeted Chemogenetics

Li, H.; Nouraein, S.; Lee, S.; Link, S. S.; Raisely, E. K.; Szablowski, J. O.

10.1101/2025.05.28.656723 — bioengineering — Posted on 2025-06-01

5306 The SHR/Akr Y chromosome reveals repeated turnover of the rat pseudoautosomal region

Bellott, D. W.; Skaletsky, H.; Hughes, J.; Brown, L. G.; Pyntikova, T.; Cho, T.-J.; Koutseva, N.; Zaghlul, S.; Kizghin, D.; Mendoza, M.; Raudsepp, T.; Dugan, S.; Khan, Z.; Wang, Q.; Watt, J.; Worley, K. C.; Scherer, S.; Muzny, D. M.; Gibbs, R. A.; Page, D. C.

10.1101/2025.05.28.656580 — genomics — Posted on 2025-06-01

5307 SMURF Reconstructs Single-Cells from Visium HD Data to Reveal Zonation of Transcriptional Programs in the Intestine

Guo, J.; Sarafinovska, S.; Hagenson, R.; Valentine, M.; Dougherty, J.; Mitra, R. D.; Muegge, B. D.

10.1101/2025.05.28.656357 — genomics — Posted on 2025-06-01

5308 How to enviromically predict breeding genotypes as if they were commercial cultivars?

Resende, R. T.

10.1101/2025.05.28.656616 — genetics — Posted on 2025-06-01

5309 Global epistasis in budding yeast driven by many natural variants whose effects scale with fitness

Goldstein, I.; Hale, J. J.; Ehrenreich, I. M.

10.1101/2025.05.28.656710 — genetics — Posted on 2025-06-01

5310 Viruses and vectors tied to honey bee colony losses

Lamas, Z.; Rinkevich, F.; Garavito, A.; Shaulis, A.; Boncristiani, D.; Hill, E.; Chen, Y. P.; Evans, J. D.

10.1101/2025.05.28.656706 — ecology — Posted on 2025-06-01

5311 Anisotropic fluorescence emission by diatoms modifies the underwater oceanic light field

Font-Munoz, J. S.; Arrieta, J.; Marc, S.; Tuval, I.; Basterretxea, G.

10.1101/2025.05.28.656578 — ecology — Posted on 2025-06-01

5312 Beneficial and detrimental consequences of AHR activation in intestinal infection

Diaz, O. P.; zhou, L.; Barrington, C.; Lindquist, D.; Graelmann, F.; Wincent, E.; Stockinger, B.

10.1101/2025.05.28.656570 — immunology — Posted on 2025-06-01

5313 Mind the Gap: Does Brain Age Improve Alzheimer's Disease Prediction?

Tan, T. W. K.; Nguyen, K.-N.; Zhang, C.; Kong, R.; Cheng, S. F.; Ji, F.; Chong, J. S. X.; Chong, E. J. Y.; Venketasubramanian, N.; Orban, C.; Chee, M. W. L.; Chen, C.; Zhou, J. H.; Yeo, B. T. T.; Alzheimer's Disease Neuroimaging Initiative, ; Australian Imaging Biomarkers and Lifestyle Study of Aging,

10.1101/2024.11.16.623903 — neuroscience — Posted on 2025-06-01

5314 A Movement-Independent Signature of Urgency During Human Perceptual Decision Making

McCone, H.; Devine, C. A.; McNickle, E.; Dully, J.; Geuzebroek, A. C.; McGovern, D. P.; Kelly, S. P.; O'Connell, R. G.

10.1101/2025.05.28.656559 — neuroscience — Posted on 2025-06-01

5315 Movement sonification during haptic exploration shifts emotional outcome without altering texture perception

Mouchnino, L.; Cornuault, P.-H.; Faucheu, J.; Witt, A.; Sutter, C.; Weiland, B.; Blouin, J.; Massi, F.; Chatelet, E.; Danna, J.

10.1101/2025.05.28.656569 — neuroscience — Posted on 2025-06-01

5316 Basal forebrain volume is associated with cortical amyloid burden in cognitively unimpaired older adults at varying genetic risk for Alzheimers disease

Cho, G.; Kelly, K.; Toyonaga, T.; Carson, R. E.; Miner, B.; Van Dyck, C.; Mecca, A. P.; O'Dell, R.

10.1101/2025.05.28.656557 — neuroscience — Posted on 2025-06-01

5317 A Standardized Method for Insect Color Analyses using Open Source Software: AInsectID Version 1.1 Color Merge

Sadia, H.; Muttaqin, S. S.; Alam, P.

10.1101/2025.05.28.656714 — zoology — Posted on 2025-06-01

5318 Antibiotic resistance genes detected in lichens: insights from Cladonia stellaris

Alonso-Garcia, M.; George, P. B. L.; Leclerc, S.; Veillette, M.; Duchaine, C.; Villarreal, J. C.

10.1101/2025.05.28.656581 — plant biology — Posted on 2025-06-01

5319 Stochastic gates for covariate selection in population pharmacokinetics modelling

Kekic, M.; Stepanov, O.; Wang, W.; Richardson, S.; Olabode, D.; Traynor, C.; Dearden, R.; Zhou, D.; Tang, W.; Gibbs, M.; Nowojewski, A.

10.1101/2025.05.28.656586 — pharmacology and toxicology — Posted on 2025-06-01

5320 Membrane Interfacial Potential Governs Surface Condensation and Fibrillation of α-Synuclein in Neurons

Shaikh, J.; Nagarajan, A.; Mitra, T.; Modak, A. S.; Biswas, K.; Meher, G.; Bhausaheb, A. J.; Kannan, N. A.; Sahu, B. S.; Ghatak, S.; Choubey, S.; Saleem, M.

10.1101/2025.05.30.657012 — biophysics — Posted on 2025-06-01

5321 Cell attachment and tail contraction of S. aureus phage phi812

Binovsky, J.; Siborova, M.; Novacek, J.; Bardy, P.; Baska, R.; Skubnik, K.; Botka, T.; Benesik, M.; Pantucek, R.; Tripsianes, K.; Plevka, P.

10.1101/2024.09.19.613683 — microbiology — Posted on 2025-06-01

5322 Immunoinformatic Designing and Evaluation of a Broad-Spectrum Multiepitope Vaccine Against MDR Acinetobacter baumannii, Klebsiella pneumoniae and Pseudomonas aeruginosa

Bhardwaj, N.; Sah, S. N.; Billa, A.; Gupta, V.; Capalash, N.; Sharma, P.

10.1101/2025.05.27.656513 — immunology — Posted on 2025-06-01

5323 Motor impairment and adaptation in a novel non-human primate model of internal capsule infarct

Sivakumar, S. S.; Anand, S. A.; Brawer, L.; Mellor, R. L.; Burkhalter, A.; Burton, H.; Brunner, P.; Bundy, D. T.; Leuthardt, E. C.; Moran, D. W.

10.1101/2025.05.27.656471 — neuroscience — Posted on 2025-06-01

5324 Reduced susceptibility to experimentally-induced complex visual hallucinations with age

Shenyan, O.; Haye, L.; Milne, G. A.; Lisi, M.; Greenwood, J. A.; Skipper, J. I.; Dekker, T. M.

10.1101/2025.05.27.656359 — neuroscience — Posted on 2025-06-01

5325 Prevalence of Bovine Fasciolosis and Identification of Risk Factors in Bahir Dar, Ethiopia

Mesfin, T.; Solomon, T.; Temesgen, A. B.

10.1101/2024.08.07.606800 — pathology — Posted on 2025-06-01

5326 KODA: Agentic Framework for Microbiome Drug Target Discovery

Aminian-Dehkordi, J.; Parsa, M. S.; Naghipourfar, M.; Mofrad, M.

10.1101/2025.05.27.656480 — bioinformatics — Posted on 2025-06-01

5327 Chevreul: An R Bioconductor Package for Exploratory Analysis of Full-Length Single Cell Sequencing

Stachelek, K.; Bhat, B.; Cobrinik, D.

10.1101/2025.05.27.656486 — bioinformatics — Posted on 2025-06-01

5328 Application of Spectral Domain Optical Coherence Tomography To Guide Cochlear Implant Electrode Array

Jiramongkolchai, P.; Amaral, M. M.; Paul, R.; Matt, A.; Nie, M.; Hao, S.; Adkins, A.; Liang, H.; Holden, T.; Buchman, C.; Zhou, C.

10.1101/2025.05.27.656464 — bioengineering — Posted on 2025-06-01

5329 Locomotion-induced neural activity independent of auditory feedback in the mouse inferior colliculus

Han, J.; Jiang, H.; Ji, Y. R.; Kim, G.

10.1101/2025.05.27.656503 — neuroscience — Posted on 2025-06-01

5330 Prevalence and modulation of rat off-track head-scanning on linear tracks: possible implications for representational and dynamical properties of hippocampal place cells

Davis, P. J.; Jones, S. T.; Savelli, F.

10.1101/2025.05.27.656456 — neuroscience — Posted on 2025-06-01

5331 Vascular endothelial growth factor receptors 1 and 3 mediate placental trophoblast leptin production in preeclampsia, inducing vascular dysfunction

Elgazzaz, M.; Ogbi, S.; Moronge, D.; Mellott, E.; Cooper, G.; Backer, K.; Hitchings, J.; Zarate, L. V.; Kavuri, S.; Lee, T. J.; Ilatovskaya, D.; Woodham, P. C.; Maher, J.; Annex, B. H.; Faulkner, J. L.

10.1101/2025.05.27.656489 — physiology — Posted on 2025-06-01

5332 Differential Sensitivity of Impedance Plethysmography andPhotoplethysmography Sensors to Temperature-Induced PeripheralVasoconstriction

Jung, S.; Thomson, S.; Pantelopoulos, A.; Sunden, L.; Richards, P.; Patel, S.; Sheng, S.

10.1101/2025.05.27.656391 — physiology — Posted on 2025-06-01

5333 Rules of engagement: determinants of chemokine receptor activation and selectivity by CCL27 and CCL28

Huang, M.; Celniker, A. F.; Chitsazi, R.; Dyer, D. P.; Jansma, A. L.; Kufareva, I.; Salanga, C. L.; Handel, T.

10.1101/2025.05.27.656466 — pharmacology and toxicology — Posted on 2025-06-01

5334 In-Silico Characterization of TP53 Splice Mutations in Somatic and Germline Tumours

Bhandarkar, A. A.; Kelly-Foleni, N. E.; Sarkar, D.; Jeffs, A.; Slatter, T.; Braithwaite, A.; Mehta, S.

10.1101/2025.05.27.656522 — cancer biology — Posted on 2025-06-01

5335 Engineering Sustained-Release Broadly Neutralizing Antibody Formulations

Jons, C. K.; Kasse, C. M.; Mayer, B. T.; Hyrien, O.; Sen, S.; Meany, E. L.; d'Aquino, A. I.; Ganesh, P.; Eckman, N.; Dong, C.; Yan, J.; Nguyen, L. T.; Doulames, V. M.; Song, Y. E.; Saouaf, O. M.; Williams, C. M.; Williams, S. C.; Paredes, J.; Raghavan, R.; Palomares, M.; Alpert, M.; Yates, N. L.; Tomaras, G.; Seaman, M. S.; Farzan, M.; Appel, E. A.

10.1101/2025.05.27.656504 — bioengineering — Posted on 2025-06-01

5336 Female cortical cellular mosaicism underlies shared MeCP2 and PCB impacted gene pathways

Sharifi, O.; Neier, K. E.; Valenzuela, A. E.; Torres, C. G.; Korf, I.; Lein, P. J.; Yasui, D. H.; LaSalle, J.

10.1101/2025.05.28.655836 — systems biology — Posted on 2025-06-01

5337 Transcriptomic profiling of desert tree Prosopis cineraria under heat stress reveals potential role of multiple gene families in its high thermotolerance

Sehgal, H.; Sharma, R. A.; Joshi, M.

10.1101/2025.05.31.652403 — plant biology — Posted on 2025-06-01

5338 Ketogenesis is dispensable for the metabolic adaptations to caloric restriction

Yeh, C.-Y.; Borgelt, L.; Vogt, B. J.; Clark, A. A.; Wong, T. T.; Grunow, I.; Sonsalla, M. M.; Babygirija, R.; Liu, Y.; Trautman, M. E.; Calubag, M. F.; Knopf, B. A.; Xiao, F.; Lamming, D.

10.1101/2025.05.29.656153 — physiology — Posted on 2025-06-01

5339 Multiscale Modeling Uncovers Macrophage Infiltration and TNF-α Signaling Networks for Targeting in Inflammatory Breast Cancer Tumor Emboli

PAI, P.; Van Berckelaer, C.; Van Laere, S.; Bennion, A.; Charity, T.; Yang, J.; Bertucci, F.; Van Dam, P.; Palmer, G. M.; McCall, S.; Dirix, L. Y.; Ueno, N. T.; Devi, G.

10.1101/2025.05.29.656249 — cancer biology — Posted on 2025-06-01

5340 Inter-tool analysis of a NIST dataset for assessing baseline nucleic acid sequence screening

Laird, T. S.; Flyangolts, K.; Bartling, C.; Gemler, B. T.; Beal, J.; Mitchell, T.; Murphy, S. T.; Berlips, J.; Foner, L.; Doughty, R.; Quintana, F.; Nute, M.; Treangen, T. J.; Godbold, G.; Ternus, K.; Alexanian, T.; Wheeler, N.; Forry, S. P.

10.1101/2025.05.30.655379 — bioinformatics — Posted on 2025-06-01

5341 Joint probabilistic modeling of pseudobulk and single-cell transcriptomics enables accurate estimation of cell type composition

Grouard, S.; Ouardini, K.; Rodriguez, Y.; Vert, J.-P.; Espin-Perez, A.

10.1101/2025.05.28.656123 — bioinformatics — Posted on 2025-06-01

5342 Visualizing the Chronicle of Multiple Cell Fate using a Near-IR Dual-RNA/DNA-Targeting Probe

Sutrisno, L.; Richards, G. J.; Evans, J. D.; Matsumoto, M.; Li, X.; Uto, K.; Hill, J. P.; Taki, M.; Yamaguchi, S.; Ariga, K.

10.1101/2025.05.29.655717 — bioengineering — Posted on 2025-06-01

5343 Breaking the Tendon Repair Barrier: A Biomimetic Soluble Collagen Scaffold Enables Full Functional Regeneration of Achilles Tendon in Rabbits

He, X.; Luo, Z.; He, S.

10.1101/2025.05.30.655895 — bioengineering — Posted on 2025-06-01

5344 Acoustic Prediction and Biomechanical Validation of Primary Stability in Uncemented Short-Stem Hip Prostheses: An In Vitro Study

Jahnke, A.; Schreynemackers, S.; Tawous, A.; Petersen, S.; Rickert, M.; Jahnke, B. A.

10.1101/2025.05.28.656119 — bioengineering — Posted on 2025-06-01

5345 Hedonic foraging: From reward to action

Clemente, A.; Penacchio, O.

10.1101/2025.05.04.652128 — animal behavior and cognition — Posted on 2025-06-01

5346 The Kocurious case of Noodlococcus: genomic insights into Kocuria rhizophila from characterisation of a laboratory contaminant

McCallum, G. E.; Ho, S. F. S.; Cummins, E. A.; Wildsmith, A. J.; McInnes, R. S.; Weigel, C.; Tong, L. Y. S.; Quick, J.; van Schaik, W.; Moran, R. A.

10.1101/2025.05.28.656266 — genomics — Posted on 2025-06-01

5347 Dietary inclusion of Asparagopsis taxiformis significantly reduces methane emissions in dairy ruminants by mechanistically altering vitamin B12 coenzyme production and other methanogenesis precursor pathways.

Lawther, K.; Dimonaco, N. J.; Guinguina, A.; Krizsan, S. J.; Huws, S. A.

10.1101/2025.05.29.656281 — genomics — Posted on 2025-06-01

5348 KLHL41 orchestrates sarcomere assembly and size to drive skeletal muscle hypertrophy in vivo

Han, H.; Shi, J.; Bongiorno, A. H.; Mansur, A.; Widrick, J.; Tate, G.; Gill, S.; Karimi, E.; Granzier, H.; Moore, J. R.; Gupta, V. A.

10.1101/2025.05.30.655367 — genetics — Posted on 2025-06-01

5349 A primate model organism for cardiac arrhythmias identifies a magnesium transporter in pacemaker function

Chang, S.; Karanewsky, C. J.; Pendleton, J. L.; Ren, L.; Anzeraey, A.; Froelicher, V.; Liang, D.; Razafindrakoto, A.; Ravelonjanahary, H. N.; Albertelli, M. A.; Quertermous, T.; Wright, P. C.; Perret, M.; Terrien, J.; Aujard, F.; Wu, J. C.; Krasnow, M. A.

10.1101/2025.05.28.655959 — genetics — Posted on 2025-06-01

5350 Half as high for twice as long: male bias in the fertile-age sex ratio

Nitschke, M. C.; Hawkes, K.; Kim, P.

10.1101/2025.05.19.654849 — evolutionary biology — Posted on 2025-06-01

5351 Rational design of respiratory syncytial virus dimeric F-subunit vaccines in protein and mRNA forms

Li, J.; Ma, X.; Xu, Z.; Guo, W.; Peng, R.; zhang, Y.; Meng, Y.; Wang, Q.; Li, S.; Chen, J.; Guo, Y.; Lu, X.; Wang, Q.; Guo, Y.; Jia, M.-a.; Li, Y.; Zhang, Y.; Li, S.; Du, P.; Wang, Q.; Gao, G. F.; Qi, J.

10.1101/2025.05.31.655981 — immunology — Posted on 2025-06-01

5352 Characterising Structural Brain Connectivity of Patients with First Episode of Psychosis

Sanchez, S. M.; Knösche, T.; Fürstova, P.; Skoch, A.; Spaniel, F.; Schmidt, H.; Hlinka, J.

10.1101/2025.05.30.656096 — neuroscience — Posted on 2025-06-01

5353 Dexmedetomidine produces more sleep-like brain activity compared to propofol

Krause, B. M.; Dappen, E. R.; Mueller, R. N.; Kawasaki, H.; Sanders, R. D.; Nourski, K. V.; Banks, M. I.

10.1101/2025.05.27.656383 — neuroscience — Posted on 2025-06-01

5354 Four-dimensional neural space for moral inference

Chen, J.; Santavirta, S.; Putkinen, V. J.; Boggio, P.; Nummenmaa, L.

10.1101/2025.05.28.656268 — neuroscience — Posted on 2025-06-01

5355 Modelling Audio-Visual Reaction Time with Recurrent Mean-Field Networks

Brady, R. M.; Butler, J. S.

10.1101/2025.05.29.656149 — neuroscience — Posted on 2025-06-01

5356 An atlas of TF driven gene programs across human cells

Pett, J. P.; Prete, M.; Pham, D.; England, N.; Yuan, H.; Prigmore, E.; Tuck, L.; Oszlanczi, A.; To, K.; Xu, C.; Suo, C.; Dann, E.; He, P.; Kedlian, V. R.; Kanemaru, K.; Cranley, J.; Yang, L.; Elmentaite, R.; Oliver, A. J.; Cujba, A.-M.; Cakir, B.; Murray, S.; Mahbubani, K. T.; Saeb-Parsy, K.; Gambardella, L.; Kasper, M.; Haniffa, M. A.; Nawijn, M. C.; Teichmann, S. A.; Meyer, K. B.

10.1101/2025.05.30.657075 — genetics — Posted on 2025-06-01

5357 Making new connections: An fNIRS machine learning classification study of neural synchrony in the default mode network

Miao, G. Q.; Lieberman, I. J.; Binnquist, A. L.; Pluta, A.; Goldstein, B. M.; Dale, R.; Lieberman, M. D.

10.1101/2025.05.31.656874 — neuroscience — Posted on 2025-06-01

5358 Encoding of speech modes and loudness in ventral precentral gyrus

Srinivasan, A.; Wairagkar, M.; Iacobacci, C.; Hou, X.; Card, N. S.; Jacques, B. G.; Pritchard, A. L.; Bechefsky, P. H.; Hochberg, L. R.; AuYong, N.; Pandarinath, C.; Brandman, D. M.; Stavisky, S. D.

10.1101/2025.05.30.657105 — neuroscience — Posted on 2025-06-01

5359 From Morphology to Computation: How Synaptic Organization Shapes Place Fields in CA1 Pyramidal Neurons

Tasciotti, S.; Iascone, D. M.; Chavlis, S.; Hammond, L.; Katz, Y.; Losonczy, A.; Polleaux, F.; Poirazi, P.

10.1101/2025.05.30.657022 — neuroscience — Posted on 2025-06-01

5360 Pupil responses to social stimuli are associated with adaptive behaviors across the first 24 months of life

Grzadzinski, R.; Carpenter, R. S.; Rutshon, J.; Jatkar, A.; Mata, K.; Bhatt, A.; Ortiz-Juza, M. M.; Dennehey, M. R.; Gilleskie, D. B.; Ellison, J.; Pegard, N.; Rodriguez-Romaguera, J.

10.1101/2025.05.30.656675 — physiology — Posted on 2025-06-01

5361 Cell-type-specific patterns and consequences of somatic mutation in development and aging brain

Kriz, A. J.; Mao, S.; Shao, D. D.; Snellings, D. A.; Andersen, R.; Dong, G.; Ma, C. C.; Cline, H. E.; Huang, A. Y.; Lee, E. A.; Walsh, C. A.

10.1101/2025.05.30.656844 — genomics — Posted on 2025-06-01

5362 Transplantation of GABAergic Interneuron Progenitors Restores Cortical Circuit Function in an Alzheimer's Disease Mouse Model

Yokomizo, S.; Maci, M.; Stafford, A. M.; Miller, M. R.; Perle, S. J.; Takahashi, S.; Brown-Harding, H.; Liang, L.; Lovely, A.; Algamal, M.; Gillani, R. L.; Zwang, T. J.; Richardson, D.; Naegele, J. R.; Vogt, D.; Kastanenka, K. V.

10.1101/2025.05.31.656412 — neuroscience — Posted on 2025-06-01

5363 The mGluR5 Agonist, CHPG, Enhances Numbers of Differentiated Human Oligodendrocytes

Huang, Y.; Geywitz, C.; Bandaru, A.; Glass, I.; Birth Defects Research Laboratory, ; Schirmer, L.; Nobuta, H.; Dreyfus, C.

10.1101/2025.05.31.656838 — neuroscience — Posted on 2025-06-01

Archive, 2025-06