bioRxiv Channel: Albert Einstein College of Medicine https://biorxiv.org This feed contains articles for bioRxiv Channel "Albert Einstein College of Medicine" bioRxiv bioRxiv https://biorxiv.org <![CDATA[ MOSAIC EPIGENETIC DYSREGULATION OF ECTODERMAL CELLS IN AUTISM SPECTRUM DISORDER ]]> https://biorxiv.org/cgi/content/short/004853v1?rss=1" Esther R. Berko Masako Suzuki Faygel Beren Christophe Lemetre Christine M. Alaimo R. Brent Calder Karen Ballaban-Gil Batya Gounder Kaylee Kampf Jill Kirschen Shahina B. Maqbool Zeineen Momin David M. Reynolds Natalie Russo Lisa Shulman Edyta Stasiek Jessica Tozour Maria Valicenti-McDermott Shenglong Wang Brett S. Abrahams Joseph Hargitai Dov Inbar Zhengdong Zhang Joseph D. Buxbaum Sophie Molholm John J. Foxe Robert W. Marion Adam Auton John Greally 2014-05-06 doi:10.1101/004853 Cold Spring Harbor Laboratory Press 2014-05-06 <![CDATA[ The meta-epigenomic structure of purified human stem cell populations is defined at cis-regulatory sequences ]]> https://biorxiv.org/cgi/content/short/007591v1?rss=1" N. Ari Wijetunga Fabien Delahaye Yong Mei Zhao Aaron Golden Jessica C Mar Francine H. Einstein John M. Greally 2014-08-01 doi:10.1101/007591 Cold Spring Harbor Laboratory Press 2014-08-01 <![CDATA[ Sexual dimorphism in epigenomic responses of stem cells to extreme fetal growth ]]> https://biorxiv.org/cgi/content/short/008482v1?rss=1" Fabien Delahaye Neil Ari Wijetunga Hye J Heo Jessica N Tozour Yong Mei Zhao John M Greally Francine H Einstein 2014-08-27 doi:10.1101/008482 Cold Spring Harbor Laboratory Press 2014-08-27 <![CDATA[ RNA:DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships ]]> https://biorxiv.org/cgi/content/short/020545v1?rss=1" Julie Nadel Rodoniki Athanasiadou Christophe Lemetre Neil Ari Wijetunga Pilib Ó Broin Hanae Sato Zhengdong Zhang Jeffrey Jeddeloh Cristina Montagna Aaron Golden Cathal Seoighe John M. Greally 2015-06-07 doi:10.1101/020545 Cold Spring Harbor Laboratory Press 2015-06-07 <![CDATA[ The genetics of Bene Israel from India reveals both substantial Jewish and Indian ancestry ]]> https://biorxiv.org/cgi/content/short/025809v1?rss=1" Yedael Y. Waldman Arjun Biddanda Natalie R. Davidson Paul Billing-Ross Maya Dubrovsky Christopher L. Campbell Carole Oddoux Eitan Friedman Gil Atzmon Eran Halperin Harry Ostrer Alon Keinan 2015-08-31 doi:10.1101/025809 Cold Spring Harbor Laboratory Press 2015-08-31 <![CDATA[ Agent based models to investigate cooperation between cancer cells ]]> https://biorxiv.org/cgi/content/short/031070v1?rss=1" Joao Xavier William Chang 2015-11-09 doi:10.1101/031070 Cold Spring Harbor Laboratory Press 2015-11-09 <![CDATA[ Single-chromosome aneuploidy commonly functions as a tumor suppressor ]]> https://biorxiv.org/cgi/content/short/040162v1?rss=1" Jason Meyer Sheltzer Julie H. Ko Nicole C. Habibe Burgos Erica S. Chung Colleen M. Meehl Verena Passerini Zuzana Storchova Angelika Amon 2016-02-19 doi:10.1101/040162 Cold Spring Harbor Laboratory Press 2016-02-19 <![CDATA[ C. elegans paraoxonase-like proteins control the functional expression of DEG/ENaC mechanosensory proteins ]]> https://biorxiv.org/cgi/content/short/040337v1?rss=1" Yushu Chen Shashank Bharill Zeynep Altun Robert O'Hagan Brian Coblitz Ehud I. Isacoff Martin Chalfie 2016-02-19 doi:10.1101/040337 Cold Spring Harbor Laboratory Press 2016-02-19 <![CDATA[ A direct multi-generational estimate of the human mutation rate from autozygous segments seen in thousands of parentally related individuals ]]> https://biorxiv.org/cgi/content/short/059436v1?rss=1" Vagheesh M Narasimhan Raheleh Rahbari Aylwyn Scally Arthur Wuster Dan Mason Yali Xue John Wright Richard C Trembath Eamonn R Maher David A van Heel Adam Auton Matthew E Hurles Chris Tyler-Smith Richard Durbin 2016-06-17 doi:10.1101/059436 Cold Spring Harbor Laboratory Press 2016-06-17 <![CDATA[ False Negatives Are a Significant Feature of Next Generation Sequencing Callsets ]]> https://biorxiv.org/cgi/content/short/066043v1?rss=1" Dean Bobo Mikhail Lipatov Juan L. Rodriguez-Flores Adam Auton Brenna M Henn 2016-07-26 doi:10.1101/066043 Cold Spring Harbor Laboratory Press 2016-07-26 <![CDATA[ The hidden treasure in your data: Phasing with unexpected weak anomalous scatterers from routine datasets ]]> https://biorxiv.org/cgi/content/short/068403v1?rss=1" Raghurama P Hegde Steven C Almo Udupi A Ramagopal 2016-08-08 doi:10.1101/068403 Cold Spring Harbor Laboratory Press 2016-08-08 <![CDATA[ iELVis: An open source MATLAB toolbox for localizing and visualizing human intracranial electrode data ]]> https://biorxiv.org/cgi/content/short/069179v1?rss=1" David M. Groppe Stephan Bickel Andrew R. Dykstra Xiuyuan Wang Pierre Mégevand Manuel R. Mercier Fred A. Lado Ashesh D. Mehta Christopher J. Honey 2016-08-11 doi:10.1101/069179 Cold Spring Harbor Laboratory Press 2016-08-11 <![CDATA[ Insights into the genetic epidemiology of Crohn’s and rare diseases in the Ashkenazi Jewish population ]]> https://biorxiv.org/cgi/content/short/077180v1?rss=1" C, 27-fold enrichment; p.Tyr427IlefsTer5, 12-fold enrichment). We next sought to use this catalog, of well-established relevance to Mendelian disease, to explore Crohns disease, a common disease with an estimated two to four-fold excess prevalence in AJ. We specifically evaluate whether strong acting rare alleles, enriched by the same founder-effect, contribute excess genetic risk to Crohns disease in AJ, and find that ten rare genetic risk factors in NOD2 and LRRK2 are strongly enriched in AJ, including several novel contributing alleles, show evidence of association to CD. Independently, we find that genomewide common variant risk defined by GWAS shows a strong difference between AJ and non-AJ European control population samples (0.97 s.d. higher, p<10-16). Taken together, the results suggest coordinated selection in AJ population for higher CD risk alleles in general. The results and approach illustrate the value of exome sequencing data in case-control studies along with reference data sets like ExAC to pinpoint genetic variation that contributes to variable disease predisposition across populations. ]]> Manuel Antonio Rivas Jukka Koskela Hailiang Huang Christine Stevens Brandon E Avila Talin Haritunians Benjamin Neale Mitja Kurki Andrea Ganna Daniel Graham Benjamin Glaser Inga Peter Gil Atzmon Nir Barzilai Adam Levine Elena Schiff Nikolas Pontikos Ben Weisburd Konrad J Karczewski Eric Minikel Britt-Sabina Petersen Laurent Beaugerie Philippe Seksik Jacques Cosnes Stefan Schreiber Bernd Bokemeyer Johannes Bethge NIDDK IBD Genetics consortium T2D-GENES consortium Graham Heap Tariq Ahmad Vincent Plagnol Anthony W Segal Stephan Targan Dan Turner Paivi Saavalainen Martti Farkkila Kimmo Kontula Matt 2016-09-25 doi:10.1101/077180 Cold Spring Harbor Laboratory Press 2016-09-25 <![CDATA[ p53 dynamically directs TFIID assembly on target gene promoters ]]> https://biorxiv.org/cgi/content/short/083014v1?rss=1" Coleman, R. A. Qiao, Z. Singh, S. K. Peng, C. S. Cianfrocco, M. Zhang, Z. Song, L. Piasecka, A. Aldeborgh, H. Basishvili, G. Rice, W. Liu, W.-L. 2016-10-24 doi:10.1101/083014 Cold Spring Harbor Laboratory Press 2016-10-24 <![CDATA[ mTORC1 in AGRP neurons integrates exteroceptive and interoceptive food-related cues in the modulation of adaptive energy expenditure in mice ]]> https://biorxiv.org/cgi/content/short/110544v1?rss=1" Blouet, C. Burke, L. Darwish, T. Cavanaugh, A. Virtue, S. Roth, E. Moro, J. Liu, S.-M. Xia, J. Dalley, J. Burling, K. Chua, S. Vidal-Puig, T. Schwartz, G. 2017-02-22 doi:10.1101/110544 Cold Spring Harbor Laboratory Press 2017-02-22 <![CDATA[ Identifying a TFIID interactome via integrated biochemical and high-throughput proteomic studies ]]> https://biorxiv.org/cgi/content/short/111682v1?rss=1" Liu, W.-L. Song, L. Dailey, G. Piasecka, A. Coleman, R. A. 2017-08-10 doi:10.1101/111682 Cold Spring Harbor Laboratory Press 2017-08-10 <![CDATA[ Emergence of an adaptive command for orienting behavior in premotor brainstem neurons of barn owls ]]> https://biorxiv.org/cgi/content/short/119180v1?rss=1" Cazettes, F. Fischer, B. J. Beckert, M. V. Pena, J. L. 2017-03-22 doi:10.1101/119180 Cold Spring Harbor Laboratory Press 2017-03-22 <![CDATA[ The Toxoplasma centrocone houses cell cycle regulatory factors ]]> https://biorxiv.org/cgi/content/short/122465v1?rss=1" Naumov, A. Kratzer, S. Ting, L.-M. Kim, K. Suvorova, E. S. White, M. W. 2017-03-30 doi:10.1101/122465 Cold Spring Harbor Laboratory Press 2017-03-30 <![CDATA[ Distinct effects of tubulin isotype mutations on neurite growth in Caenorhabditis elegans ]]> https://biorxiv.org/cgi/content/short/131326v1?rss=1" Zheng, C. Diaz-Cuadros, M. Jao, S. L. Nguyen, K. Hall, D. H. Chalfie, M. 2017-04-26 doi:10.1101/131326 Cold Spring Harbor Laboratory Press 2017-04-26 <![CDATA[ Intragenomic Redistribution Of Host Transcription Factor Binding With Toxoplasma gondii Infection ]]> https://biorxiv.org/cgi/content/short/132076v1?rss=1" Ulahannan, N. Suzuki, M. Simoes-Pires, C. A. Wicik, Z. Wijetunga, N. A. Croken, M. M. Bhattacharyya, S. Johnston, A. D. Kong, Y. Maqbool, S. B. Verma, A. Greally, J. M. 2017-04-28 doi:10.1101/132076 Cold Spring Harbor Laboratory Press 2017-04-28 <![CDATA[ Polymorphisms in the vitamin D receptor gene are associated with reduced rate of sputum culture conversion in multidrug-resistant tuberculosis patients in South Africa ]]> https://biorxiv.org/cgi/content/short/132852v1?rss=1" Magee, M. J. Sun, Y. V. Brust, J. C. Shah, N. S. Ning, Y. Allana, S. Campbell, A. Hui, Q. Mlisana, K. Moodley, P. Gandhi, N. R. 2017-05-03 doi:10.1101/132852 Cold Spring Harbor Laboratory Press 2017-05-03 <![CDATA[ Spatial distribution of extensively drug-resistant tuberculosis (XDR-TB) patients in KwaZulu-Natal, South Africa ]]> https://biorxiv.org/cgi/content/short/132886v1?rss=1" 50 km (n=109, 27%). The majority (77%) of participants travelled farther than the recommended distance to a clinic (5 km) and 39% travelled farther than the recommended distance to a hospital (30 km). Nearly half (46%) of participants were diagnosed at a health facility in eThekwini district, of whom, 36% resided outside the Durban metropolitan area.nnConclusionsXDR-TB cases are widely distributed throughout KwaZulu-Natal province with a denser focus in eThekwini district. Patients travelled long distances to the health facility where they were diagnosed with XDR-TB, suggesting a potential role for migration or transportation in the XDR-TB epidemic. ]]> Kapwata, T. Morris, N. Gandhi, N. Campbell, A. Mthiyane, T. Mpangase, P. Nelson, K. Allana, S. Brust, J. Moodley, P. Mlisana, K. Shah, S. 2017-05-03 doi:10.1101/132886 Cold Spring Harbor Laboratory Press 2017-05-03 <![CDATA[ Intercellular mRNA Trafficking Via Membrane Nanotubes In Mammalian Cells ]]> https://biorxiv.org/cgi/content/short/137836v1?rss=1" Haimovich, G. Ecker, C. M. Dunagin, M. C. Eggan, E. Raj, A. Gerst, J. E. Singer, R. H. 2017-05-14 doi:10.1101/137836 Cold Spring Harbor Laboratory Press 2017-05-14 <![CDATA[ Mosaic Chromosomal Aneuploidy Detection By Sequencing (MAD-seq) ]]> https://biorxiv.org/cgi/content/short/142299v1?rss=1" Kong, Y. Berko, E. R. Marcketta, A. Maqbool, S. B. Simoes-Pires, C. A. Kronn, D. F. Ye, K. Q. Suzuki, M. Auton, A. Greally, J. M. 2017-05-25 doi:10.1101/142299 Cold Spring Harbor Laboratory Press 2017-05-25 <![CDATA[ Enriched expression of genes associated with autism spectrum disorders in human inhibitory neurons ]]> https://biorxiv.org/cgi/content/short/142968v1?rss=1" Wang, P. Zhao, D. Lachman, H. Zheng, D. 2017-05-27 doi:10.1101/142968 Cold Spring Harbor Laboratory Press 2017-05-27 <![CDATA[ Multiple conserved cell adhesion protein interactions mediate neural wiring of a sensory circuit in C. elegans ]]> https://biorxiv.org/cgi/content/short/148080v1?rss=1" Kim, B. Emmons, S. 2017-06-09 doi:10.1101/148080 Cold Spring Harbor Laboratory Press 2017-06-09 <![CDATA[ A Genome-wide Association and Admixture Mapping Study of Bronchodilator Drug Response in African Americans with Asthma ]]> https://biorxiv.org/cgi/content/short/157198v1?rss=1" Spear, M. L. Hu, D. Pino-Yanes, M. Huntsman, S. Eng, C. Levin, A. M. White, M. J. McGarry, M. E. Thakur, N. Galanter, J. M. Mak, A. C. Y. Oh, S. S. Davis, A. Kumar, R. Farber, H. J. Meade, K. Avila, P. C. Serebrisky, D. Lenoir, M. A. Brigino-Buenaventura, E. A. Rodriquez Cintron, W. Thyne, S. M. Rodriguez-Santana, J. R. Ford, J. G. Chapela, R. Moreno Estrada, A. Sandoval, K. Seibold, M. A. Williams, L. K. Winkler, C. A. Torgerson, D. G. Hernandez, R. D. Burchard, E. G. 2017-06-28 doi:10.1101/157198 Cold Spring Harbor Laboratory Press 2017-06-28 <![CDATA[ Differential activation of Fyn kinase distinguishes saturated and unsaturated fats in mouse macrophages ]]> https://biorxiv.org/cgi/content/short/157529v1?rss=1" Tarabra, E. Lee, T.-W. A. Zammit, V. A. Vatish, M. Yamada, E. Pessin, J. E. Bastie, C. C. 2017-06-29 doi:10.1101/157529 Cold Spring Harbor Laboratory Press 2017-06-29 <![CDATA[ High-depth whole genome sequencing of a large population-specific reference panel: Enhancing sensitivity, accuracy, and imputation ]]> https://biorxiv.org/cgi/content/short/167924v1?rss=1" Lencz, T. Yu, J. Palmer, C. Carmi, S. Ben-Avraham, D. Barzilai, N. Bressman, S. Darvasi, A. Cho, J. Clark, L. Gumus, Z. Joseph, V. Klein, R. Lipkin, S. Offit, K. Ostrer, H. Ozelius, L. Peter, I. Atzmon, G. Pe'er, I. 2017-07-24 doi:10.1101/167924 Cold Spring Harbor Laboratory Press 2017-07-24 <![CDATA[ On information metrics for spatial coding ]]> https://biorxiv.org/cgi/content/short/189084v1?rss=1" Souza, B. Pavao, R. Belchior, H. Tort, A. 2017-09-15 doi:10.1101/189084 Cold Spring Harbor Laboratory Press 2017-09-15 <![CDATA[ Sociodemographic patterning in the oral microbiome of a diverse sample of New Yorkers ]]> https://biorxiv.org/cgi/content/short/189225v1?rss=1" Renson, A. Jones, H. E. Beghini, F. Segata, N. Zolnik, C. Usyk, M. Thorpe, L. Burk, R. Waldron, L. D. Dowd, J. B. 2017-09-18 doi:10.1101/189225 Cold Spring Harbor Laboratory Press 2017-09-18 <![CDATA[ C. elegans DBL-1/BMP Regulates Lipid Accumulation via Interaction with Insulin Signaling ]]> https://biorxiv.org/cgi/content/short/191049v1?rss=1" Clark, J. Meade, M. Ranepura, G. Hall, D. H. Savage-Dunn, C. 2017-09-19 doi:10.1101/191049 Cold Spring Harbor Laboratory Press 2017-09-19 <![CDATA[ WHOLE GENOME BISULPHITE SEQUENCING USING THE ILLUMINA HISEQ X SYSTEM ]]> https://biorxiv.org/cgi/content/short/193193v1?rss=1" Suzuki, M. Liao, W. Wos, F. Johnston, A. D. DeGrazia, J. Ishii, J. Bloom, T. Zody, M. C. Germer, S. Greally, J. M. 2017-09-24 doi:10.1101/193193 Cold Spring Harbor Laboratory Press 2017-09-24 <![CDATA[ Electrophysiological correlates of semantic dissimilarity reflect the comprehension of natural, narrative speech. ]]> https://biorxiv.org/cgi/content/short/193201v1?rss=1" Broderick, M. P. Anderson, A. J. Di Liberto, G. M. Crosse, M. J. Lalor, E. C. 2017-09-24 doi:10.1101/193201 Cold Spring Harbor Laboratory Press 2017-09-24 <![CDATA[ Multiethnic Meta-analysis Identifies New Loci for Pulmonary Function ]]> https://biorxiv.org/cgi/content/short/196048v1?rss=1" Wyss, A. B. Sofer, T. Lee, M. K. Terzikhan, N. Nguyen, J. N. Lahousse, L. Latourelle, J. C. Smith, A. V. Bartz, T. M. Feitosa, M. F. Gao, W. Ahluwalia, T. S. Tang, W. Oldmeadow, C. Duan, Q. de Jong, K. Wojczynski, M. K. Wang, X.-Q. Noordam, R. Hartwig, F. P. Jackson, V. E. Wang, T. Obeidat, M. Hobbs, B. D. Huan, T. Kichaev, G. Jin, J. Graff, M. Harris, T. B. Kalhan, R. Heckbert, S. R. Paternoster, L. Burkart, K. M. Liu, Y. Holliday, E. G. Wilson, J. G. Vonk, J. M. Sanders, J. Barr, R. G. de Mutsert, R. Baptista Menezes, A. M. Adams, H. H. H. van den Be 2017-10-05 doi:10.1101/196048 Cold Spring Harbor Laboratory Press 2017-10-05 <![CDATA[ ECM cross-linking regulates invadopodia dynamics ]]> https://biorxiv.org/cgi/content/short/198580v1?rss=1" Esmaeili Pourfarhangi, K. Bergman, A. Gligorijevic, B. 2017-10-04 doi:10.1101/198580 Cold Spring Harbor Laboratory Press 2017-10-04 <![CDATA[ Molecular structures and mechanisms of DNA break processing in mouse meiosis ]]> https://biorxiv.org/cgi/content/short/2019.12.17.876854v1?rss=1" Yamada, S. Hinch, A. G. Kamido, H. Zhang, Y. Edelmann, W. Keeney, S. 2019-12-17 doi:10.1101/2019.12.17.876854 Cold Spring Harbor Laboratory Press 2019-12-17 <![CDATA[ Implications of TP53 Allelic State for Genome Stability, Clinical Presentation and Outcomes in Myelodysplastic Syndromes ]]> https://biorxiv.org/cgi/content/short/2019.12.19.868844v1?rss=1" Bernard, E. Nannya, Y. Hasserjian, R. P. Devlin, S. M. Tuechler, H. Medina-Martinez, J. S. Yoshizato, T. Shiozawa, Y. Saiki, R. Malcovati, L. Levine, M. F. Arango, J. E. Zhou, Y. Sole, F. Cargo, C. A. Haase, D. Creignou, M. Germing, U. Zhang, Y. Gundem, G. Sarian, A. van de Loosdrecht, A. A. Jadersten, M. Tobiasson, M. Kosmider, O. Follo, M. Y. Thol, F. Pinheiro, R. F. Santini, V. Kotsianidis, I. Boultwood, J. Santos, F. P. S. Schanz, J. Kasahara, S. Ishikawa, T. Tsurumi, H. Takaori-Kondo, A. Kiguchi, T. Polprasert, C. Bennett, J. M. Klimek, V. M. Savon 2019-12-19 doi:10.1101/2019.12.19.868844 Cold Spring Harbor Laboratory Press 2019-12-19 <![CDATA[ Alteration of the premature tRNA landscape by gammaherpesvirus infection ]]> https://biorxiv.org/cgi/content/short/2019.12.22.886382v1?rss=1" Glaunsinger, B. Tucker, J. M. Schaller, A. M. Willis, I. M. 2019-12-23 doi:10.1101/2019.12.22.886382 Cold Spring Harbor Laboratory Press 2019-12-23 <![CDATA[ Microglial homeostasis requires balanced CSF-1/CSF-2 receptor signaling ]]> https://biorxiv.org/cgi/content/short/2019.12.23.885186v1?rss=1" Chitu, V. Biundo, F. Shlager, G. G. L. Park, E. S. Wang, P. Gulinello, M. E. Gokhan, S. Ketchum, H. C. Saha, K. DeTure, M. A. Dickson, D. W. Wszolek, Z. K. Zheng, D. Croxford, A. L. Becher, B. Sun, D. Mehler, M. F. Stanley, E. R. 2019-12-23 doi:10.1101/2019.12.23.885186 Cold Spring Harbor Laboratory Press 2019-12-23 <![CDATA[ A cellular stress response induced by the CRISPR/dCas9 activation system is not heritable through cell divisions ]]> https://biorxiv.org/cgi/content/short/2019.12.23.887224v1?rss=1" Johnston, A. D. Abdulrazak, A. Sato, H. Maqbool, S. Suzuki, M. Greally, J. M. Simoes-Pires, C. A. 2019-12-23 doi:10.1101/2019.12.23.887224 Cold Spring Harbor Laboratory Press 2019-12-23 <![CDATA[ Zebrafish dazl regulates cystogenesis upstream of the meiotic transition and germline stem cell specification and independent of meiotic checkpoints. ]]> https://biorxiv.org/cgi/content/short/2019.12.23.887687v1?rss=1" Bertho, S. Clapp, M. Banisch, T. U. Bandemer, J. Raz, E. Marlow, F. 2019-12-27 doi:10.1101/2019.12.23.887687 Cold Spring Harbor Laboratory Press 2019-12-27 <![CDATA[ The conserved herpesviral kinase ORF36 activates B2 retrotransposons during murine gammaherpesvirus infection ]]> https://biorxiv.org/cgi/content/short/2020.01.06.895789v1?rss=1" Schaller, A. Tucker, J. Willis, I. M. Glaunsinger, B. A. 2020-01-06 doi:10.1101/2020.01.06.895789 Cold Spring Harbor Laboratory Press 2020-01-06 <![CDATA[ Human papillomavirus 16 positive cervical cancer in Guatemala: The D2 and D3 sublineages differ in integration rate and age of diagnosis ]]> https://biorxiv.org/cgi/content/short/2020.01.07.897546v1?rss=1" Lou, H. Boland, J. F. Torres-Gonzalez, E. Albanez, A. Zhou, W. Steinberg, M. Diaw, L. Mitchell, J. Roberson, D. Cullen, M. Garland, L. Bass, S. Burk, R. Yeager, M. Wentzensen, N. Schiffman, M. Alvirez, E. Gharzouzi, E. Mirabello, L. Dean, M. 2020-01-08 doi:10.1101/2020.01.07.897546 Cold Spring Harbor Laboratory Press 2020-01-08 <![CDATA[ In vitro characterization of protein effector export in the bradyzoite stage of Toxoplasma gondii ]]> https://biorxiv.org/cgi/content/short/2020.01.08.899773v1?rss=1" Mayoral, J. A. Shamamian, P. Weiss, L. M. 2020-01-09 doi:10.1101/2020.01.08.899773 Cold Spring Harbor Laboratory Press 2020-01-09 <![CDATA[ CB1 receptor-mediated inhibitory LTD triggers presynaptic remodeling via protein synthesis and ubiquitination ]]> https://biorxiv.org/cgi/content/short/2020.01.09.900464v1?rss=1" Monday, H. R. Bourdenx, M. Jordan, B. A. Castillo, P. E. 2020-01-09 doi:10.1101/2020.01.09.900464 Cold Spring Harbor Laboratory Press 2020-01-09 <![CDATA[ The neural computations for stimulus presence and modal identity diverge along a shared circuit ]]> https://biorxiv.org/cgi/content/short/2020.01.09.900563v1?rss=1" Tovar, D. A. Noel, J.-P. Ishizawa, Y. Patel, S. R. Eskandar, E. Wallace, M. T. 2020-01-09 doi:10.1101/2020.01.09.900563 Cold Spring Harbor Laboratory Press 2020-01-09 <![CDATA[ A binary arginine methylation switch on histone H3 Arginine 2 regulates its interaction with WDR5 ]]> https://biorxiv.org/cgi/content/short/2020.01.13.904581v1?rss=1" Lorton, B. M. Harijan, R. K. Burgos, E. S. Bonnano, J. B. Almo, S. C. Shechter, D. 2020-01-14 doi:10.1101/2020.01.13.904581 Cold Spring Harbor Laboratory Press 2020-01-14 <![CDATA[ AAV Ablates Neurogenesis in the Adult Murine Hippocampus ]]> https://biorxiv.org/cgi/content/short/2020.01.18.911362v1?rss=1" Johnston, S. T. Parylak, S. L. Kim, S. Mac, N. Lim, C. Gallina, I. Bloyd, C. Newberry, A. Saavedra, C. Novák, O. Goncalves, J. T. Gage, F. H. Shtrahman, M. 2020-01-19 doi:10.1101/2020.01.18.911362 Cold Spring Harbor Laboratory Press 2020-01-19 <![CDATA[ Transcriptional analysis supports the expression of human snRNA variants and reveals U2 snRNA homeostasis by an abundant U2 variant ]]> https://biorxiv.org/cgi/content/short/2020.01.24.917260v1?rss=1" Kosmyna, B. Gupta, V. Query, C. C. 2020-01-25 doi:10.1101/2020.01.24.917260 Cold Spring Harbor Laboratory Press 2020-01-25 <![CDATA[ Flexible contextual modulation of naturalistic texture perception in peripheral vision ]]> https://biorxiv.org/cgi/content/short/2020.01.24.918813v1?rss=1" Herrera, D. Coen-Cagli, R. Gomez-Sena, L. 2020-01-25 doi:10.1101/2020.01.24.918813 Cold Spring Harbor Laboratory Press 2020-01-25 <![CDATA[ Joint Inference of Clonal Structure using Single-cell DNA-Seq and RNA-Seq data ]]> https://biorxiv.org/cgi/content/short/2020.02.04.934455v1?rss=1" Bai, X. Wan, L. Xia, C. 2020-02-05 doi:10.1101/2020.02.04.934455 Cold Spring Harbor Laboratory Press 2020-02-05 <![CDATA[ F-box protein MEC-15 promotes microtubule stability and neurite growth by antagonizing the HSP90 chaperone network in Caenorhabditis elegans ]]> https://biorxiv.org/cgi/content/short/2020.02.13.944967v1?rss=1" Zheng, C. Atlas, E. Lee, H. M. T. Jao, S. L. J. Nguyen, K. C. Q. Hall, D. H. Chalfie, M. 2020-02-13 doi:10.1101/2020.02.13.944967 Cold Spring Harbor Laboratory Press 2020-02-13 <![CDATA[ C. elegans nuclear RNAi factor SET-32 deposits the transgenerational heritable histone modification, H3K23me3 ]]> https://biorxiv.org/cgi/content/short/2020.02.19.956656v1?rss=1" Schwartz-Orbach, L. Zhang, C. Sidoli, S. Amin, R. Kaur, D. Zhebrun, A. Ni, J. Gu, S. G. 2020-02-20 doi:10.1101/2020.02.19.956656 Cold Spring Harbor Laboratory Press 2020-02-20 <![CDATA[ A Multiscale and Comparative Model for Receptor Binding of 2019 Novel Coronavirus and the Implication of its Life Cycle in Host Cells ]]> https://biorxiv.org/cgi/content/short/2020.02.20.958272v1?rss=1" Su, Z. Wu, Y. 2020-02-21 doi:10.1101/2020.02.20.958272 Cold Spring Harbor Laboratory Press 2020-02-21 <![CDATA[ A virion-based assay for glycoprotein thermostability reveals key determinants of filovirus entry and its inhibition ]]> https://biorxiv.org/cgi/content/short/2020.02.25.965772v1?rss=1" Bortz, R. H. Wong, A. C. Grodus, M. G. Recht, H. Pulanco, M. C. Lasso, G. Anthony, S. J. Mittler, E. Jangra, R. K. Chandran, K. 2020-02-26 doi:10.1101/2020.02.25.965772 Cold Spring Harbor Laboratory Press 2020-02-26 <![CDATA[ A lipid metabolic map of the pathogenic fungus Histoplasma capsulatum ]]> https://biorxiv.org/cgi/content/short/2020.03.02.973412v1?rss=1" Zamith-Miranda, D. Heyman, H. M. Burnet, M. C. Couvillion, S. P. Zheng, X. Munoz, N. Kyle, J. E. Zink, E. M. Weitz, K. K. Bloodsworth, K. J. Clair, G. C. Zucker, J. D. Teuton, J. R. Payne, S. H. Kim, Y.-M. Reyes Gil, M. Baker, E. S. Bredeweg, E. L. Nosanchuk, J. D. Nakayasu, E. S. 2020-03-03 doi:10.1101/2020.03.02.973412 Cold Spring Harbor Laboratory Press 2020-03-03 <![CDATA[ Structure of a Single Chain H2A/H2B Dimer ]]> https://biorxiv.org/cgi/content/short/2020.03.15.992685v1?rss=1" Warren, C. Bonanno, J. B. Almo, S. C. Shechter, D. 2020-03-15 doi:10.1101/2020.03.15.992685 Cold Spring Harbor Laboratory Press 2020-03-15 <![CDATA[ Fidgetin-like 2 is a novel negative regulator of axonal growth and can be targeted to promote functional nerve regeneration after injury. ]]> https://biorxiv.org/cgi/content/short/2020.03.19.999508v1?rss=1" Baker, L. A. Tar, M. Villegas, G. Charafeddine, R. Kramer, A. Vafaeva, O. Nacharaju, P. Friedman, J. Davies, K. Sharp, D. 2020-03-20 doi:10.1101/2020.03.19.999508 Cold Spring Harbor Laboratory Press 2020-03-20 <![CDATA[ Neural Correlates of Positive and Negative Valence System Dysfunction in Adolescents Revealed by Data-Driven Parcellation and Resting-State Network Modeling ]]> https://biorxiv.org/cgi/content/short/2020.03.20.001032v1?rss=1" Gabbay, V. Liu, Q. DeWitt, S. J. Mehra, L. M. Alonso, C. M. Ely, B. A. 2020-03-23 doi:10.1101/2020.03.20.001032 Cold Spring Harbor Laboratory Press 2020-03-23 <![CDATA[ A role for KIF9 in male fertility ]]> https://biorxiv.org/cgi/content/short/2020.03.21.001602v1?rss=1" Chen, K. Cho, S. Y. Zhang, Y. Beck, A. Segall, J. E. 2020-03-23 doi:10.1101/2020.03.21.001602 Cold Spring Harbor Laboratory Press 2020-03-23 <![CDATA[ Loss of dmrt1 restores female fates in the absence of cyp19a1a but not rbpms2 ]]> https://biorxiv.org/cgi/content/short/2020.03.26.009522v1?rss=1" Romano, S. Kaufman, O. H. Marlow, F. 2020-03-26 doi:10.1101/2020.03.26.009522 Cold Spring Harbor Laboratory Press 2020-03-26 <![CDATA[ Nuclear Import of the HIV-1 Core Precedes Reverse Transcription and Uncoating ]]> https://biorxiv.org/cgi/content/short/2020.03.31.018747v1?rss=1" Selyutina, A. Persaud, M. Lee, K. KewalRamani, V. Diaz-Griffero, F. 2020-04-01 doi:10.1101/2020.03.31.018747 Cold Spring Harbor Laboratory Press 2020-04-01 <![CDATA[ Common Fronto-temporal Effective Connectivity in Humans and Monkeys ]]> https://biorxiv.org/cgi/content/short/2020.04.03.024042v1?rss=1" Rocchi, F. Oya, H. Balezeau, F. Billig, A. J. Kocsis, Z. Jenison, R. Nourski, K. V. Kovach, C. K. Steinschneider, M. Kikuchi, Y. Rhone, A. E. Dlouhy, B. J. Kawasaki, H. Adolphs, R. Greenlee, J. D. W. Griffiths, T. D. Howard, M. A. Petkov, C. I. 2020-04-05 doi:10.1101/2020.04.03.024042 Cold Spring Harbor Laboratory Press 2020-04-05 <![CDATA[ The dynamic Nexus: Gap junctions control protein localization and mobility in distinct and surprising ways ]]> https://biorxiv.org/cgi/content/short/2020.04.06.027540v1?rss=1" McCutcheon, S. Stout, R. F. Spray, D. C. 2020-04-07 doi:10.1101/2020.04.06.027540 Cold Spring Harbor Laboratory Press 2020-04-07 <![CDATA[ Spatio-temporal mapping of mechanical force generated by macrophages during FcγR-dependent phagocytosis reveals adaptation to target stiffness ]]> https://biorxiv.org/cgi/content/short/2020.04.14.041335v1?rss=1" Rougerie, P. Cox, D. 2020-04-15 doi:10.1101/2020.04.14.041335 Cold Spring Harbor Laboratory Press 2020-04-15 <![CDATA[ A multi-layered and dynamic apical extracellular matrix shapes the vulva lumen in Caenorhabditis elegans ]]> https://biorxiv.org/cgi/content/short/2020.04.14.041483v1?rss=1" Cohen, J. D. Sparacio, A. P. Belfi, A. C. Forman-Rubinsky, R. Hall, D. H. Maul-Newby, H. Frand, A. R. Sundaram, M. V. 2020-04-15 doi:10.1101/2020.04.14.041483 Cold Spring Harbor Laboratory Press 2020-04-15 <![CDATA[ Neurophysiological indices of audiovisual speech integration are enhanced at the phonetic level for speech in noise ]]> https://biorxiv.org/cgi/content/short/2020.04.18.048124v1?rss=1" O'Sullivan, A. E. Crosse, M. J. Di Liberto, G. M. de Cheveigne, A. Lalor, E. C. 2020-04-20 doi:10.1101/2020.04.18.048124 Cold Spring Harbor Laboratory Press 2020-04-20 <![CDATA[ One-shot analysis of translated mammalian lncRNAs with AHARIBO ]]> https://biorxiv.org/cgi/content/short/2020.04.20.050062v1?rss=1" Minati, L. Firrito, C. Del Piano, A. Peretti, A. Sidoli, S. Peroni, D. Belli, R. Gandolfi, F. Romanel, A. Bernabo, P. Zasso, J. Quattrone, A. Guella, G. Lauria, F. Viero, G. Clamer, M. 2020-04-20 doi:10.1101/2020.04.20.050062 Cold Spring Harbor Laboratory Press 2020-04-20 <![CDATA[ Atypical response inhibition and error processing in 22q11.2 Deletion Syndrome and Schizophrenia: Towards neuromarkers of disease progression and risk ]]> https://biorxiv.org/cgi/content/short/2020.04.29.068932v1?rss=1" Francisco, A. A. Horsthuis, D. J. Popiel, M. Foxe, J. J. Molholm, S. 2020-05-01 doi:10.1101/2020.04.29.068932 Cold Spring Harbor Laboratory Press 2020-05-01 <![CDATA[ Multiethnic catalog of structural variants and their translational impact for disease phenotypes across 19,652 genomes ]]> https://biorxiv.org/cgi/content/short/2020.05.02.074096v1?rss=1" Sedlazeck, F. J. Yu, B. Mansfield, A. J. Chen, H. Krasheninina, O. Tin, A. Qi, Q. Zarate, S. Traynelis, J. Menon, V. BCM HGSC Sequencing Lab, Hu, J. doddapaneni, h. v. Metcalf, G. Coresh, J. Kaplan, R. muzny, d. m. Jun, G. Gibbs, R. A. Salerno, W. Boerwinkle, E. 2020-05-03 doi:10.1101/2020.05.02.074096 Cold Spring Harbor Laboratory Press 2020-05-03 <![CDATA[ Direct intracellular visualization of Ebola virus-receptor interaction by in situ proximity ligation ]]> https://biorxiv.org/cgi/content/short/2020.05.05.080085v1?rss=1" Mittler, E. Alkutkar, T. P. Jangra, R. K. Chandran, K. 2020-05-06 doi:10.1101/2020.05.05.080085 Cold Spring Harbor Laboratory Press 2020-05-06 <![CDATA[ Oscillatory entrainment mechanisms and anticipatory predictive processes in Autism Spectrum Disorder (ASD) ]]> https://biorxiv.org/cgi/content/short/2020.05.07.083154v1?rss=1" Beker, S. Foxe, J. J. Molholm, S. 2020-05-08 doi:10.1101/2020.05.07.083154 Cold Spring Harbor Laboratory Press 2020-05-08 <![CDATA[ The Effect of a Ketogenic Diet and Synergy with Rapamycin in a Mouse Model of Breast Cancer. ]]> https://biorxiv.org/cgi/content/short/2020.05.13.093872v1?rss=1" Zou, Y. Feinman, R. D. Fineberg, S. Pearlman, A. Fine, E. J. 2020-05-13 doi:10.1101/2020.05.13.093872 Cold Spring Harbor Laboratory Press 2020-05-13 <![CDATA[ Broad sarbecovirus neutralizing antibodies define a key site of vulnerability on the SARS-CoV-2 spike protein ]]> https://biorxiv.org/cgi/content/short/2020.05.15.096511v1?rss=1" Walker, L. M. Wec, A. Z. Wrap, D. Herbert, A. S. Maurer, D. P. Haslwanter, D. Sakharkar, M. Jangra, R. K. Dieterle, M. E. Lilov, A. Huang, D. Tse, L. V. Johnson, N. V. Hsieh, C.-L. Wang, N. Nett, J. H. Champney, E. Burnina, I. Brown, M. Lin, S. Sinclair, M. Johnson, C. Pudi, S. Bortz, R. Wirchnianski, A. S. Laudermilch, E. Florez, C. Fels, J. M. O'Brien, C. M. Graham, B. S. Nemazee, D. Burton, D. R. Baric, R. S. Voss, J. E. Chandran, K. Dye, J. M. McLellan, J. S. 2020-05-15 doi:10.1101/2020.05.15.096511 Cold Spring Harbor Laboratory Press 2020-05-15 <![CDATA[ A replication-competent vesicular stomatitis virus for studies of SARS-CoV-2 spike-mediated cell entry and its inhibition ]]> https://biorxiv.org/cgi/content/short/2020.05.20.105247v1?rss=1" Dieterle, M. E. Haslwanter, D. Bortz, R. H. Wirchnianski, A. S. Lasso, G. Vergnolle, O. Abbasi, S. A. Fels, J. M. Laudermilch, E. Florez, C. Mengotto, A. Kimmel, D. Malonis, R. J. Georgiev, G. Quiroz, J. Barnhill, J. Pirofski, L.-A. Daily, J. P. Dye, J. M. Lai, J. R. Herbert, A. S. Chandran, K. Jangra, R. K. 2020-05-20 doi:10.1101/2020.05.20.105247 Cold Spring Harbor Laboratory Press 2020-05-20 <![CDATA[ Cadherin clusters stabilized by a combination of specific and nonspecific Cis-Interactions ]]> https://biorxiv.org/cgi/content/short/2020.05.22.110015v1?rss=1" Thompson, C. J. Su, Z. Vu, V. H. Wu, Y. Leckband, D. E. Schwartz, D. K. 2020-05-23 doi:10.1101/2020.05.22.110015 Cold Spring Harbor Laboratory Press 2020-05-23 <![CDATA[ Beyond the connectome: A map of a brain architecture derived from whole-brain volumetric reconstructions ]]> https://biorxiv.org/cgi/content/short/2020.05.24.112870v1?rss=1" Brittin, C. A. Cook, S. J. Hall, D. H. Emmons, S. W. Cohen, N. 2020-05-27 doi:10.1101/2020.05.24.112870 Cold Spring Harbor Laboratory Press 2020-05-27 <![CDATA[ HIV Diversity Considerations in the Application of the Intact Proviral DNA Assay (IPDA) ]]> https://biorxiv.org/cgi/content/short/2020.05.26.115006v1?rss=1" Kinloch, N. N. Ren, Y. Conce Alberto, W. D. Dong, W. Khadka, P. Huang, S. H. Mota, T. M. Wilson, A. Shahid, A. Kirkby, D. Harris, M. Kovacs, C. Benko, E. Ostrowski, M. A. Del Rio Estrada, P. M. Wimpelberg, A. Cannon, C. Hardy, W. D. MacLaren, L. Goldstein, H. Brumme, C. J. Lee, G. Q. Lynch, R. M. Brumme, Z. L. Jones, R. B. 2020-05-29 doi:10.1101/2020.05.26.115006 Cold Spring Harbor Laboratory Press 2020-05-29 <![CDATA[ Structural basis of mechano-chemical coupling by the mitotic kinesin KIF14 ]]> https://biorxiv.org/cgi/content/short/2020.06.01.128371v1?rss=1" Benoit, M. P. M. H. Asenjo, A. B. Paydar, M. Dhakal, S. Kwok, B. H. Sosa, H. 2020-06-02 doi:10.1101/2020.06.01.128371 Cold Spring Harbor Laboratory Press 2020-06-02 <![CDATA[ Nicotinamide combined with gemcitabine is an immunomodulatory therapy that restrains pancreatic cancer in mice ]]> https://biorxiv.org/cgi/content/short/2020.06.02.129809v1?rss=1" Selvanesan, B. C. Meena, K. Beck, A. Meheus, L. Lara, O. Rooman, I. Gravekamp, C. 2020-06-03 doi:10.1101/2020.06.02.129809 Cold Spring Harbor Laboratory Press 2020-06-03 <![CDATA[ Health benefits attributed to 17α-estradiol, a lifespan-extending compound, are mediated through estrogen receptor α ]]> https://biorxiv.org/cgi/content/short/2020.06.02.130674v1?rss=1" Mann, S. Hadad, N. Nelson, M. Rothman, A. Sathiaseelan, R. Ali-Mondal, S. Agbaga, M.-P. Unnikrishnan, A. Malayannan, S. Hawse, J. Huffmam, D. Freeman, W. M. Stout, M. B. 2020-06-03 doi:10.1101/2020.06.02.130674 Cold Spring Harbor Laboratory Press 2020-06-03 <![CDATA[ SUMOylation of SAMHD1 at Lysine 595 is required for HIV-1 restriction in non-cycling cells ]]> https://biorxiv.org/cgi/content/short/2020.06.04.133439v1?rss=1" Martinat, C. Cormier, A. Tobaly-Tapiero, J. Palmic, N. Casartelli, N. Coggins, S. A. Buchrieser, J. Persaud, M. Diaz-Griffero, F. Espert, L. Bossis, G. Lesage, P. Schwartz, O. Kim, B. Margottin, F. Saib, A. Zamborlini, A. 2020-06-05 doi:10.1101/2020.06.04.133439 Cold Spring Harbor Laboratory Press 2020-06-05 <![CDATA[ Adipose tissue-derived neurotrophic factor 3 regulates sympathetic innervation and thermogenesis in adipose tissue ]]> https://biorxiv.org/cgi/content/short/2020.06.06.137273v1?rss=1" Cui, X. Jing, J. Wu, R. Cao, Q. Li, F. Li, K. Wang, S. Yu, L. Schwartz, G. J. Shi, H. Shi, H. Xue, B. 2020-06-07 doi:10.1101/2020.06.06.137273 Cold Spring Harbor Laboratory Press 2020-06-07 <![CDATA[ Characterization of the SARS-CoV-2 S Protein: Biophysical, Biochemical, Structural, and Antigenic Analysis ]]> https://biorxiv.org/cgi/content/short/2020.06.14.150607v1?rss=1" Herrera, N. G. Morano, N. C. Celikgil, A. Georgiev, G. I. Malonis, R. J. Lee, J. H. Tong, K. Vergnolle, O. Massimi, A. B. Yen, L. Y. Noble, A. J. Kopylov, M. Bonanno, J. B. Garrett-Thompson, S. C. Hayes, D. B. Brenowitz, M. Garforth, S. J. Eng, E. T. Lai, J. R. Almo, S. C. 2020-06-15 doi:10.1101/2020.06.14.150607 Cold Spring Harbor Laboratory Press 2020-06-15 <![CDATA[ Resident macrophages establish and control lipid stores via PDGFcc production ]]> https://biorxiv.org/cgi/content/short/2020.06.15.152397v1?rss=1" Cox, N. Crozet, L. Holtman, I. R. Loyher, P.-L. Lazarov, T. Mass, E. Stanley, R. Glass, C. K. Geissmann, F. 2020-06-15 doi:10.1101/2020.06.15.152397 Cold Spring Harbor Laboratory Press 2020-06-15 <![CDATA[ Neuronal variability reflects probabilistic inference tuned to natural image statistics ]]> https://biorxiv.org/cgi/content/short/2020.06.17.142182v1?rss=1" Festa, D. Aschner, A. Davila, A. Kohn, A. Coen-Cagli, R. 2020-06-19 doi:10.1101/2020.06.17.142182 Cold Spring Harbor Laboratory Press 2020-06-19 <![CDATA[ A Novel Therapeutic Approach to Corneal Alkaline Burn Model by Targeting Fidgetin-like 2, a Microtubule Regulator ]]> https://biorxiv.org/cgi/content/short/2020.06.18.159533v1?rss=1" Wang, J. Dey, A. Kramer, A. Miao, Y. Liu, J. Baker, L. Friedman, J. Nacharaju, P. Chuck, R. S. Zhang, C. Sharp, D. 2020-06-19 doi:10.1101/2020.06.18.159533 Cold Spring Harbor Laboratory Press 2020-06-19 <![CDATA[ A forward genetic screen identifies Dolk as a regulator of startle magnitude through the potassium channel subunit Kv1.1 ]]> https://biorxiv.org/cgi/content/short/2020.06.19.161240v1?rss=1" Meserve, J. H. Nelson, J. C. Marsden, K. C. Hsu, J. Echeverry, F. A. Jain, R. A. Wolman, M. A. Pereda, A. E. Granato, M. 2020-06-19 doi:10.1101/2020.06.19.161240 Cold Spring Harbor Laboratory Press 2020-06-19 <![CDATA[ Blockade of LAG-3 in PD-L1-deficient mice enhances clearance of blood stage malaria independent of humoral responses ]]> https://biorxiv.org/cgi/content/short/2020.06.22.164566v1?rss=1" Furtado, R. Chorro, L. Zimmerman, N. Guillen, E. Spaulding, E. Chin, S. S. Daily, J. Lauvau, G. 2020-06-22 doi:10.1101/2020.06.22.164566 Cold Spring Harbor Laboratory Press 2020-06-22 <![CDATA[ Deconstructing glucose-mediated catabolite repression of the lac operon of Escherichia coli: II. Positive feedback exists and drives the repression ]]> https://biorxiv.org/cgi/content/short/2020.06.23.166959v1?rss=1" Aggarwal, R. K. Narang, A. 2020-06-24 doi:10.1101/2020.06.23.166959 Cold Spring Harbor Laboratory Press 2020-06-24 <![CDATA[ Transcriptomic and proteomic regulation through abundant, dynamic, and independent arginine methylation by Type I and Type II PRMTs ]]> https://biorxiv.org/cgi/content/short/2020.06.23.167601v1?rss=1" Lehman, S. M. Chen, H. Burgos, E. S. Maron, M. Gayatri, S. Nieves, E. Bai, D. L. Sidoli, S. Gupta, V. Marunde, M. R. Bone, J. R. Sun, Z.-W. Bedford, M. T. Shabanowitz, J. Hunt, D. F. Shechter, D. 2020-06-24 doi:10.1101/2020.06.23.167601 Cold Spring Harbor Laboratory Press 2020-06-24 <![CDATA[ The genome of North American beaver provides insights into the mechanisms of its longevity and cancer resistance ]]> https://biorxiv.org/cgi/content/short/2020.06.25.171322v1?rss=1" Zhang, Q. Tombline, G. Ablaeva, J. Zhang, L. Zhou, X. Smith, Z. Xiaoli, A. M. Wang, Z. Lin, J.-R. Jabalameli, M. R. Mitra, J. Nguyen, N. Vijg, J. Seluanov, A. Gladyshev, V. N. Gorbunova, V. Zhang, Z. D. 2020-06-27 doi:10.1101/2020.06.25.171322 Cold Spring Harbor Laboratory Press 2020-06-27 <![CDATA[ Genetics of human gut microbiome composition ]]> https://biorxiv.org/cgi/content/short/2020.06.26.173724v1?rss=1" Kurilshikov, A. Medina-Gomez, C. Bacigalupe, R. Radjabzadeh, D. Wang, J. Demirkan, A. Le Roy, C. I. Raygoza Garay, J. A. Finnicum, C. Liu, X. Zhernakova, D. Bonder, M. J. Hansen, T. H. Frost, F. Ruhlemann, M. C. Turpin, W. Moon, J.-Y. Kim, H.-N. Lull, K. Barkan, E. Shah, S. A. Fornage, M. Szopinska-Tokov, J. Wallen, Z. Borisevich, D. Agreus, L. Andreasson, A. Bang, C. Bedrani, L. Bell, J. T. Bisgaard, H. Boehnke, M. Boomsma, D. I. Burk, R. D. Claringbould, A. Croitoru, K. Davies, G. Van Duijn, C. Duijts, L. Falony, G. Fu, J. van der Graaf, A. Hansen, T 2020-06-28 doi:10.1101/2020.06.26.173724 Cold Spring Harbor Laboratory Press 2020-06-28 <![CDATA[ Functional characterization of Polr3a hypomyelinating leukodystrophy mutations in the S. cerevisiae homolog, RPC160. ]]> https://biorxiv.org/cgi/content/short/2020.06.30.180125v1?rss=1" Moir, R. D. Lavados, C. Lee, J. Willis, I. M. 2020-07-02 doi:10.1101/2020.06.30.180125 Cold Spring Harbor Laboratory Press 2020-07-02 <![CDATA[ Cell Type-Specific Chromatin Accessibility Analysis in the Mouse and Human Brain ]]> https://biorxiv.org/cgi/content/short/2020.07.04.188094v1?rss=1" Rocks, D. Jaric, I. Tesfa, L. Greally, J. M. Suzuki, M. Kundakovic, M. 2020-07-04 doi:10.1101/2020.07.04.188094 Cold Spring Harbor Laboratory Press 2020-07-04 <![CDATA[ Functional succinate dehydrogenase deficiency is a pathognomonic adverse feature of clear cell renal cancer ]]> https://biorxiv.org/cgi/content/short/2020.07.05.188433v1?rss=1" View larger version (28K): org.highwire.dtl.DTLVardef@728d5eorg.highwire.dtl.DTLVardef@9f2e24org.highwire.dtl.DTLVardef@8e7011org.highwire.dtl.DTLVardef@15f8d33_HPS_FORMAT_FIGEXP M_FIG Graphical abstract depicting the consequential adverse downregulation of Succinate Dehydrogenase in ccRCC and its central role in oxidative phosphorylation C_FIG ]]> Aggarwal, R. K. Zou, Y. Luchtel, R. A. Pradhan, K. Ashai, N. Ramachandra, N. Albanese, J. Yang, J.-i. Wang, X. Aluri, S. Gordon, S. Machha, V. Tischer, A. Aboumohamed, A. Gartrell, B. A. Hafizi, S. Pullman, J. Shenoy, N. 2020-07-06 doi:10.1101/2020.07.05.188433 Cold Spring Harbor Laboratory Press 2020-07-06 <![CDATA[ Toxoplasma gondii PPM3C, a secreted protein phosphatase, affects parasitophorous vacuole effector export ]]> https://biorxiv.org/cgi/content/short/2020.07.06.189308v1?rss=1" Mayoral, J. Tomita, T. Tu, V. Aguilan, J. T. Sidoli, S. Weiss, L. M. 2020-07-06 doi:10.1101/2020.07.06.189308 Cold Spring Harbor Laboratory Press 2020-07-06 <![CDATA[ The evolutionary history of ACE2 usage within the coronavirus subgenus Sarbecovirus ]]> https://biorxiv.org/cgi/content/short/2020.07.07.190546v1?rss=1" Wells, H. L. Letko, M. C. Lasso, G. Ssebide, B. Nziza, J. Byarugaba, D. K. Navarrete-Macias, I. Liang, E. Cranfield, M. Han, B. A. Tingley, M. W. Diuk-Wasser, M. Goldstein, T. Kreuder Johnson, C. Mazet, J. Chandran, K. Munster, V. Gilardi, K. Anthony, S. J. 2020-07-07 doi:10.1101/2020.07.07.190546 Cold Spring Harbor Laboratory Press 2020-07-07 <![CDATA[ Metabolic features of mouse and human retinas: rods vs. cones, macula vs. periphery, retina vs. RPE ]]> https://biorxiv.org/cgi/content/short/2020.07.10.196295v1?rss=1" Bo Li Ting Zhang Wei Liu Yekai Wang Rong Xu Shaoxue Zeng Rui Zhang Mark C Gillies Ling Zhu Jianhai Du 2020-07-10 doi:10.1101/2020.07.10.196295 Cold Spring Harbor Laboratory Press 2020-07-10 <![CDATA[ A glycoprotein mutation that emerged during the 2013-2016 Ebola virus epidemic alters proteolysis and accelerates membrane fusion ]]> https://biorxiv.org/cgi/content/short/2020.07.13.201863v1?rss=1" Fels, J. M. Bortz, R. H. Alkutkar, T. P. Mittler, E. Jangra, R. K. Spence, J. S. Chandran, K. 2020-07-15 doi:10.1101/2020.07.13.201863 Cold Spring Harbor Laboratory Press 2020-07-15 <![CDATA[ Exome-wide association studies in general and long-lived populations identify genetic variants related to human age ]]> https://biorxiv.org/cgi/content/short/2020.07.19.188789v1?rss=1" Sin-Chan, P. Gosalia, N. Gao, C. Van Hout, C. V. Ye, B. Marcketta, A. Li, A. H. O'Dushlaine, C. Li, D. Overton, J. D. Reid, J. D. Baras, A. Genetics Center, R. Carey, D. J. Ledbetter, D. H. Rader, D. Ritchie, M. D. Damrauer, S. M. Milman, S. Barzilai, N. Glass, D. J. Economides, A. N. Shuldiner, A. R. 2020-07-19 doi:10.1101/2020.07.19.188789 Cold Spring Harbor Laboratory Press 2020-07-19 <![CDATA[ HIV coinfection is associated with low fitness rpoB variants in rifampicin-resistant Mycobacterium tuberculosis ]]> https://biorxiv.org/cgi/content/short/2020.07.20.208835v1?rss=1" Loiseau, C. Brites, D. Reinhard, M. Zuercher, K. Borrell, S. Ballif, M. Fenner, L. Cox, H. Rutaihwa, L. K. Wilkinson, R. J. Yotebieng, M. Carter, E. J. Abimiku, A. Marcy, O. Gotuzzo, E. Avihingsanon, A. Zetola, N. Doulla, B. Boettger, E. C. Egger, M. Gagneux, S. 2020-07-22 doi:10.1101/2020.07.20.208835 Cold Spring Harbor Laboratory Press 2020-07-22 <![CDATA[ Multiple Capsid Protein Binding Sites Mediate Selective Packaging of the Alphavirus Genomic RNA ]]> https://biorxiv.org/cgi/content/short/2020.07.20.212746v1?rss=1" Brown, R. S. Anastasakis, D. G. Hafner, M. Kielian, M. 2020-07-20 doi:10.1101/2020.07.20.212746 Cold Spring Harbor Laboratory Press 2020-07-20 <![CDATA[ Quantitative sub-cellular acyl-CoA analysis reveals distinct nuclear regulation ]]> https://biorxiv.org/cgi/content/short/2020.07.30.229468v1?rss=1" Trefely, S. Huber, K. Liu, J. Singh, J. Doan, M. Lovell, C. D. Noji, M. von Krusenstiern, E. Jiang, H. Bostwick, A. Izzo, L. Zhao, S. Bedi, K. C. Rame, J. E. Bogner-Strauss, J. G. Mesaros, C. Wellen, K. E. Snyder, N. W. 2020-07-30 doi:10.1101/2020.07.30.229468 Cold Spring Harbor Laboratory Press 2020-07-30 <![CDATA[ Hematopoietic stem cells fail to regenerate following inflammatory challenge. ]]> https://biorxiv.org/cgi/content/short/2020.08.01.230433v1?rss=1" Bogeska, R. Kaschutnig, P. Fawaz, M. Mikecin, A.-M. Buechler-Schaeff, M. Paffenholz, S. Asada, N. Frauhammer, F. Buettner, F. Ball, M. Knoch, J. Staeble, S. Walter, D. Petri, A. Carreno-Gonzalez, M. J. Wagner, V. Brors, B. Haas, S. Lipka, D. B. Essers, M. A. G. Holland-Letz, T. Mallm, J.-P. Rippe, K. Frenette, P. S. Rieger, M. A. Milsom, M. D. 2020-08-03 doi:10.1101/2020.08.01.230433 Cold Spring Harbor Laboratory Press 2020-08-03 <![CDATA[ Hypertonic saline solution inhibits SARS-CoV-2 in vitro assay ]]> https://biorxiv.org/cgi/content/short/2020.08.04.235549v1?rss=1" Machado, R. R. G. Glaser, T. Araujo, D. B. Petiz, L. L. Oliveira, D. B. L. Durigon, G. S. Leal, A. L. Pinho, J. R. R. Ferreira, L. C. S. Ulrich, H. Durigon, E. L. R. Guzzo, C. R. 2020-08-04 doi:10.1101/2020.08.04.235549 Cold Spring Harbor Laboratory Press 2020-08-04 <![CDATA[ Orphan CpG islands boost the regulatory activity of poisedenhancers and dictate the responsiveness of their target genes ]]> https://biorxiv.org/cgi/content/short/2020.08.05.237768v1?rss=1" Pachano, T. Sanchez-Gaya, V. Mariner-Fauli, M. Ealo, T. Asenjo, H. G. Respuela, P. Cruz-Molina, S. van IJcken, W. Landeira, D. Rada-Iglesias, A. 2020-08-05 doi:10.1101/2020.08.05.237768 Cold Spring Harbor Laboratory Press 2020-08-05 <![CDATA[ Signatures and mechanisms of efficacious therapeutic ribonucleotides against SARS-CoV-2 revealed by analysis of its replicase using magnetic tweezers ]]> https://biorxiv.org/cgi/content/short/2020.08.06.240325v1?rss=1" Seifert, M. Bera, S. C. van Nies, P. Kirchdoerfer, R. N. Shannon, A. Le, T.-T.-N. Grove, T. L. Papini, F. S. Arnold, J. J. Almo, S. C. Canard, B. Depken, M. Cameron, C. E. Dulin, D. 2020-08-06 doi:10.1101/2020.08.06.240325 Cold Spring Harbor Laboratory Press 2020-08-06 <![CDATA[ The Posterior Insular Cortex is Necessary for the Consolidation of Tone Fear ]]> https://biorxiv.org/cgi/content/short/2020.08.12.248294v1?rss=1" de Paiva, J. P. Q. Bueno, A. P. A. dos Santos Corrêa, M. Oliveira, M. G. Ferreira, T. L. Fornari, R. V. 2020-08-12 doi:10.1101/2020.08.12.248294 Cold Spring Harbor Laboratory Press 2020-08-12 <![CDATA[ miRNA-mediated loss of m6A increases nascent translation in glioblastoma ]]> https://biorxiv.org/cgi/content/short/2020.08.28.271536v1?rss=1" Zepecki, J. P. Karambizi, D. Fajardo, J. E. Snyder, K. M. Guetta-Terrier, C. Tang, O. Y. Chen, J.-S. Sarkar, A. Fiser, A. Toms, S. A. Tapinos, N. 2020-08-29 doi:10.1101/2020.08.28.271536 Cold Spring Harbor Laboratory Press 2020-08-29 <![CDATA[ Confinement Discerns Swarmers from Planktonic Bacteria ]]> https://biorxiv.org/cgi/content/short/2020.08.30.274316v1?rss=1" Chen, W. Mani, N. Karani, H. Li, H. Mani, S. Tang, J. X. 2020-08-30 doi:10.1101/2020.08.30.274316 Cold Spring Harbor Laboratory Press 2020-08-30 <![CDATA[ A genetic screen identifies processes that couple oocyte maturation to proteostasis in the immortal C. elegans germ lineage ]]> https://biorxiv.org/cgi/content/short/2020.08.31.276006v1?rss=1" Samaddar, M. Goudeau, J. Sanchez, M. Hall, D. H. Bohnert, K. A. Ingaramo, M. Kenyon, C. 2020-08-31 doi:10.1101/2020.08.31.276006 Cold Spring Harbor Laboratory Press 2020-08-31 <![CDATA[ Pathogenic Mutations in the Kinesin-3 Motor KIF1A Diminish Force Generation and Movement Through Allosteric Mechanisms ]]> https://biorxiv.org/cgi/content/short/2020.09.03.281576v1?rss=1" Budaitis, B. G. Jariwala, S. Rao, L. Sept, D. Verhey, K. Gennerich, A. 2020-09-03 doi:10.1101/2020.09.03.281576 Cold Spring Harbor Laboratory Press 2020-09-03 <![CDATA[ The kinesin-8 member Kif19 alters microtubule dynamics, suppresses cell adhesion, and promotes cancer cell invasion ]]> https://biorxiv.org/cgi/content/short/2020.09.04.282657v1?rss=1" Eisenberg, S. Dey, A. Brinbaum, R. Sharp, D. 2020-09-04 doi:10.1101/2020.09.04.282657 Cold Spring Harbor Laboratory Press 2020-09-04 <![CDATA[ Combined protein and transcript single cell RNA sequencing reveals cardiovascular disease and HIV signatures ]]> https://biorxiv.org/cgi/content/short/2020.09.10.292086v1?rss=1" Vallejo, J. Saigusa, R. Gulati, R. Ghosheh, Y. Durant, C. P. Roy, P. Ehinger, E. Pattarabanjird, T. Padgett, L. E. Olingy, C. E. Hanna, D. B. Landay, A. L. Tracy, R. P. Lazar, J. M. Mack, W. J. Weber, K. M. Adimora, A. A. Hodis, H. N. Tien, P. C. Ofotokun, I. Heath, S. L. Dinh, H. Q. Shemesh, A. McNamara, C. A. Lanier, L. L. Hedrick, C. C. Kaplan, R. C. Ley, K. 2020-09-12 doi:10.1101/2020.09.10.292086 Cold Spring Harbor Laboratory Press 2020-09-12 <![CDATA[ YY1 cistrome analysis uncovers an essential requirement of the YY1:BRD4-PFKP regulatory axis for promoting tumorigenesis of castration-resistant prostate cancer ]]> https://biorxiv.org/cgi/content/short/2020.09.17.302596v1?rss=1" Cai, L. Xu, C. Tsai, Y.-H. Galbo, P. Gong, W. Storey, A. Xu, Y. Byrum, S. Whang, Y. Parker, J. Mackintosh, S. Edmondson, R. Tackett, A. Huang, J. Zheng, D. Earp, S. Wang, G. G. 2020-09-19 doi:10.1101/2020.09.17.302596 Cold Spring Harbor Laboratory Press 2020-09-19 <![CDATA[ Live imaging of breast tumors shows macrophage-dependent induction and TMEM-mediated enrichment of cancer stem cells during metastatic dissemination ]]> https://biorxiv.org/cgi/content/short/2020.09.18.303388v1?rss=1" 60% of circulating tumor cells. Mechanistically, stemness is induced in non-stem cancer cells upon their direct contact with macrophages via Notch signaling. In breast cancers from patients, the density of TMEM doorways correlates strongly with the proportion of cancer cells expressing stem cell markers, indicating that in human breast cancer TMEM doorways are not only cancer cell intravasation portals but also CSC programming sites. One Sentence SummaryIntravital imaging reveals macrophage-mediated induction of cancer stem cells in vivo and their dramatic enrichment on dissemination through TMEM doorways. ]]> Sharma, V. P. Tang, B. Wang, Y. Karagiannis, G. S. Xue, E. A. Entenberg, D. Borriello, L. Coste, A. Duran, C. L. Eddy, R. J. Kim, G. Ye, X. Jones, J. G. Grunblatt, E. Agi, N. Roy, S. Bandyopadhyaya, G. Adler, E. Surve, C. R. Esposito, D. Goswami, S. Guo, W. Condeelis, J. S. Wakefield, L. M. Oktay, M. H. 2020-09-20 doi:10.1101/2020.09.18.303388 Cold Spring Harbor Laboratory Press 2020-09-20 <![CDATA[ The regulatory function of the AAA4 ATPase domain of cytoplasmic dynein ]]> https://biorxiv.org/cgi/content/short/2020.09.20.305243v1?rss=1" Gennerich, A. Liu, X. Rao, L. 2020-09-20 doi:10.1101/2020.09.20.305243 Cold Spring Harbor Laboratory Press 2020-09-20 <![CDATA[ Degenerating Drosophila Larval Epidermal Cells Drive Thorax Closure ]]> https://biorxiv.org/cgi/content/short/2020.09.22.304451v1?rss=1" Athilingam, T. Parihar, S. S. Bhattacharya, R. Rizvi, M. S. Kumar, A. Sinha, P. 2020-09-22 doi:10.1101/2020.09.22.304451 Cold Spring Harbor Laboratory Press 2020-09-22 <![CDATA[ A Highly Conserved 310-Helix Within the Kinesin Motor Domain is Critical for Kinesin Function and Human Health. ]]> https://biorxiv.org/cgi/content/short/2020.09.22.308320v1?rss=1" Lam, A. J. Rao, L. Anazawa, Y. Okada, K. Chiba, K. Niwa, S. Gennerich, A. Nowakowski, D. W. McKenney, R. J. 2020-09-22 doi:10.1101/2020.09.22.308320 Cold Spring Harbor Laboratory Press 2020-09-22 <![CDATA[ TRIM5α restriction of HIV-1-N74D viruses in lymphocytes is caused by a loss of cyclophilin A protection ]]> https://biorxiv.org/cgi/content/short/2020.09.29.318121v1?rss=1" Selyutina, A. Simons, L. M. Bulnes-Ramos, A. Hultquist, J. F. Diaz-Griffero, F. 2020-09-29 doi:10.1101/2020.09.29.318121 Cold Spring Harbor Laboratory Press 2020-09-29 <![CDATA[ The Phaeodactylum tricornutum Diaminopimelate Decarboxylase was Acquired via Horizontal Gene Transfer from Bacteria and Displays Substrate Promiscuity ]]> https://biorxiv.org/cgi/content/short/2020.10.01.322594v1?rss=1" Bielinski, V. A. Brunson, J. K. Ghosh, A. Moosburner, M. A. Garza, E. A. Fussy, Z. Bai, J. McKinnie, S. M. K. Moore, B. Allen, A. E. Almo, S. C. Dupont, C. L. 2020-10-02 doi:10.1101/2020.10.01.322594 Cold Spring Harbor Laboratory Press 2020-10-02 <![CDATA[ Sleeve gastrectomy promotes sustained weight loss while increasing heat production in middle aged, obese female mice ]]> https://biorxiv.org/cgi/content/short/2020.10.04.325787v1?rss=1" Emiliano, A. B. He, Y. Higuchi, S. Lopatinsky, N. Nemr, R. Schwartz, G. J. 2020-10-05 doi:10.1101/2020.10.04.325787 Cold Spring Harbor Laboratory Press 2020-10-05 <![CDATA[ Fat Mass Regain in Middle-Aged Mice after Sleeve Gastrectomy is divergent from plasma leptin levels ]]> https://biorxiv.org/cgi/content/short/2020.10.05.326785v1?rss=1" 0.05). SWM group had a significantly lower cumulative food intake throughout the study, except for week 1 (p<0.01). Glucose tolerance was only demonstrably better in the SG group compared to SH group at 8 weeks post-operatively (p<0.01). Plasma leptin was significantly lower in the SG group compared to both SWM and SH groups group by the second post-operative month (p<0.01), in spite of SGs increasing fat mass accumulation. In the second post-operative month, both FGF-21 and GDF-15 were increased in the SH group compared to the SG and SWM groups (p<0.05), while there was no difference in plasma insulin among the three groups. Heat production was surprisingly higher in the SH group compared to the other two groups (p<0.05), even though brown adipose tissue Peroxisome Proliferator-Activated Receptor Gamma (PPARg) and Cidea mRNA expression were significantly higher in SG and SWM compared to SH (p<0.01). There was no change in BAT UCP-1 mRNA expression among the groups (p>0.05). There was also no change in fecal lipid content among the groups (p>0.05). ConclusionsSG in obese, middle aged male mice leads is accompanied by fat mass regain in the second post-operative month, while plasma leptin levels continue to be significantly lower. This raises the question of whether the observed fat mass regain consists mostly of visceral adipose tissue. ]]> Emiliano, A. He, Y. Higuchi, S. Nemr, R. Lopatinsky, N. Schwartz, G. J. 2020-10-07 doi:10.1101/2020.10.05.326785 Cold Spring Harbor Laboratory Press 2020-10-07 <![CDATA[ The Drosophila histone demethylase KDM5 is required during early neurodevelopment for proper mushroom body formation and cognitive function ]]> https://biorxiv.org/cgi/content/short/2020.10.09.324939v1?rss=1" Hatch, H. A. M. Belalcazar, H. M. Marshall, O. J. Secombe, J. 2020-10-09 doi:10.1101/2020.10.09.324939 Cold Spring Harbor Laboratory Press 2020-10-09 <![CDATA[ Vulnerability of ARID1A deficient cancer cells to pyrimidine synthesis blockade ]]> https://biorxiv.org/cgi/content/short/2020.10.12.331975v1?rss=1" Li, Z. Mi, S. Osagie, O. I. Ji, J. Yang, C.-P. H. Schwartz, M. Hui, P. Huang, G. S. 2020-10-12 doi:10.1101/2020.10.12.331975 Cold Spring Harbor Laboratory Press 2020-10-12 <![CDATA[ The histone demethylase KDM5 is required for synaptic structure and function at the Drosophila neuromuscular junction ]]> https://biorxiv.org/cgi/content/short/2020.10.12.335711v1?rss=1" Secombe, J. Belalcazar, H. M. Hicks, E. L. Zamurrad, S. Liebl, F. L. W. 2020-10-12 doi:10.1101/2020.10.12.335711 Cold Spring Harbor Laboratory Press 2020-10-12 <![CDATA[ Neuronal NOX4 knockdown alleviates pathological tau-related alterations in a humanized mouse model of tauopathy ]]> https://biorxiv.org/cgi/content/short/2020.10.14.338954v1?rss=1" View larger version (26K): org.highwire.dtl.DTLVardef@1dac496org.highwire.dtl.DTLVardef@1a07dd5org.highwire.dtl.DTLVardef@1a5653aorg.highwire.dtl.DTLVardef@198f3e4_HPS_FORMAT_FIGEXP M_FIG C_FIG ]]> Luengo, E. Trigo-Alonso, P. Fernandez-Mendivil, C. Nunez, A. del Campo, M. Porrero, C. Garcia-Magro, N. Negredo, P. Sanchez, C. Bernal, J. A. Rabano, A. Hoozemans, J. Casas, A. I. Schmidt, H. H. Cuervo, A. M. Lopez, M. G. 2020-10-14 doi:10.1101/2020.10.14.338954 Cold Spring Harbor Laboratory Press 2020-10-14 <![CDATA[ NG2+/Nestin+ mesenchymal stem cells dictate DTC dormancy in the bone marrow through TGFβ2 ]]> https://biorxiv.org/cgi/content/short/2020.10.22.349514v1?rss=1" Nobre, A. R. Risson, E. Singh, D. K. Di Martino, J. S. Cheung, J. F. Wang, J. Johnson, J. Russnes, H. G. Bravo-Cordero, J. J. Birbrair, A. Naume, B. Azhar, M. Frenette, P. S. Aguirre-Ghiso, J. A. 2020-10-22 doi:10.1101/2020.10.22.349514 Cold Spring Harbor Laboratory Press 2020-10-22 <![CDATA[ A Transgenic System for Targeted Ablation of Reproductive and Maternal-Effect genes ]]> https://biorxiv.org/cgi/content/short/2020.10.22.351403v1?rss=1" Bertho, S. Kaufman, O. Lee, K. Santos-Ledo, A. Dellal, D. Marlow, F. L. 2020-10-23 doi:10.1101/2020.10.22.351403 Cold Spring Harbor Laboratory Press 2020-10-23 <![CDATA[ Retrograde suppression of post-tetanic potentiation at the mossy fiber-CA3 pyramidal cell synapse ]]> https://biorxiv.org/cgi/content/short/2020.10.23.352377v1?rss=1" Makani, S. Lutzu, S. Lituma, P. J. Hunt, D. L. Castillo, P. E. 2020-10-24 doi:10.1101/2020.10.23.352377 Cold Spring Harbor Laboratory Press 2020-10-24 <![CDATA[ Regulation of intracellular signaling and neuron function by Bardet-Biedl Syndrome proteins in patient-specific iPSC-derived neurons ]]> https://biorxiv.org/cgi/content/short/2020.10.29.359851v1?rss=1" Wang, L. Liu, Y. Stratigopoulos, G. Panigrahi, S. Sui, L. Leduc, C. A. Glover, H. J. De Rosa, M. C. Burnett, L. C. Williams, D. J. Shang, L. Goland, R. Tsang, S. H. Wardlaw, S. Egli, D. Zheng, D. Doege, C. A. Leibel, R. L. 2020-10-29 doi:10.1101/2020.10.29.359851 Cold Spring Harbor Laboratory Press 2020-10-29 <![CDATA[ The G protein-Coupled Metabotropic Glutamate Receptor 1 controls neuronal macroautophagy ]]> https://biorxiv.org/cgi/content/short/2020.11.02.365783v1?rss=1" Donoso, M. Speranza, L. Kalinowska, M. Castillo, C. De Sanctis, C. Francesconi, A. 2020-11-02 doi:10.1101/2020.11.02.365783 Cold Spring Harbor Laboratory Press 2020-11-02 <![CDATA[ Comparative molecular and immunoregulatory analysis of extracellular vesicles from Candida albicans and Candida auris. ]]> https://biorxiv.org/cgi/content/short/2020.11.04.368472v1?rss=1" Zamith-Miranda, D. Heyman, H. M. Couvillion, S. P. Cordero, R. J. B. Rodrigues, M. Nimrichter, L. Casadevall, A. Amatuzzi, R. Alves, L. R. Nakayasu, E. S. Nosanchuk, J. D. 2020-11-04 doi:10.1101/2020.11.04.368472 Cold Spring Harbor Laboratory Press 2020-11-04 <![CDATA[ Modelling the neural code in large populations of correlated neurons ]]> https://biorxiv.org/cgi/content/short/2020.11.05.369827v1?rss=1" Sokoloski, S. Aschner, A. Coen-Cagli, R. 2020-11-06 doi:10.1101/2020.11.05.369827 Cold Spring Harbor Laboratory Press 2020-11-06 <![CDATA[ TSC1 loss-of-function increases risk for tauopathy by inducing tau acetylation and preventing autophagy-mediated tau clearance ]]> https://biorxiv.org/cgi/content/short/2020.11.08.371922v1?rss=1" Alquezar, C. Schoch, K. M. Geier, E. G. Ramos, E. M. Scrivo, A. Li, K. Argouarch, A. R. Mlynarski, E. E. Dombroski, B. Yokoyama, J. S. Cuervo, A. M. Burlingame, A. L. Schellenberg, G. D. Miller, T. M. Miller, B. L. Kao, A. W. 2020-11-08 doi:10.1101/2020.11.08.371922 Cold Spring Harbor Laboratory Press 2020-11-08 <![CDATA[ Mechanistic Dissection of Spatial Organization in NF-κB Signaling Pathways by Hybrid Simulations ]]> https://biorxiv.org/cgi/content/short/2020.11.11.378331v1?rss=1" Wu, Y. Dhusia, K. Su, Z. 2020-11-11 doi:10.1101/2020.11.11.378331 Cold Spring Harbor Laboratory Press 2020-11-11 <![CDATA[ The regulation of liver gene expression by carbohydrates is mouse strain specific ]]> https://biorxiv.org/cgi/content/short/2020.11.11.378497v1?rss=1" Chi, Y. Youn, D. Y. Xiaoli, A. M. Liu, L. Pessin, J. B. Yang, F. Pessin, J. E. 2020-11-11 doi:10.1101/2020.11.11.378497 Cold Spring Harbor Laboratory Press 2020-11-11 <![CDATA[ The structural basis of fatty acid elongation by the ELOVL elongases ]]> https://biorxiv.org/cgi/content/short/2020.11.11.378570v1?rss=1" Nie, L. Pike, A. C. Pascoa, T. C. Bushell, S. R. Quigley, A. Ruda, G. F. Chu, A. Cole, V. Speedman, D. Moreira, T. Shrestha, L. Mukhopadhyay, S. M. Burgess-Brown, N. A. Love, J. D. Brennan, P. E. Carpenter, E. P. 2020-11-11 doi:10.1101/2020.11.11.378570 Cold Spring Harbor Laboratory Press 2020-11-11 <![CDATA[ Glia actively sculpt sensory neurons by controlled phagocytosis to tune animal behavior ]]> https://biorxiv.org/cgi/content/short/2020.11.11.378893v1?rss=1" Raiders, S. Black, E. C. Bae, A. MacFarlane, S. Shaham, S. Singhvi, A. 2020-11-12 doi:10.1101/2020.11.11.378893 Cold Spring Harbor Laboratory Press 2020-11-12 <![CDATA[ Upregulated functionality of mitochondria-associated ER membranes in a mouse model of traumatic brain injury ]]> https://biorxiv.org/cgi/content/short/2020.11.13.381756v1?rss=1" View larger version (40K): org.highwire.dtl.DTLVardef@12d0989org.highwire.dtl.DTLVardef@1cd1eb2org.highwire.dtl.DTLVardef@19a56caorg.highwire.dtl.DTLVardef@1b7f3e1_HPS_FORMAT_FIGEXP M_FIG C_FIG ]]> Agrawal, R. R. Larrea, D. Shi, L. Song, D. Xu, Y. Yun, T. D. Emmanuele, V. Cummins, L. G. Macaluso, F. P. Kernie, S. G. Min, W. Deckelbaum, R. J. Area-Gomez, E. 2020-11-15 doi:10.1101/2020.11.13.381756 Cold Spring Harbor Laboratory Press 2020-11-15 <![CDATA[ Temporal dynamics of implicit memory underlying serial dependence ]]> https://biorxiv.org/cgi/content/short/2020.11.17.386821v1?rss=1" Bilacchi, C. M. Sirius, E. V. P. Cravo, A. M. de Azevedo Neto, R. M. 2020-11-19 doi:10.1101/2020.11.17.386821 Cold Spring Harbor Laboratory Press 2020-11-19 <![CDATA[ TC10 regulates breast cancer invasion and metastasis by controlling membrane type-1 matrix metalloproteinase at invadopodia ]]> https://biorxiv.org/cgi/content/short/2020.11.17.386854v1?rss=1" Hülsemann, M. Donnelly, S. K. Verkhusha, P. V. Mao, S. S. P. H. Segall, J. E. Hodgson, L. 2020-11-17 doi:10.1101/2020.11.17.386854 Cold Spring Harbor Laboratory Press 2020-11-17 <![CDATA[ Type I PRMTs and PRMT5 Independently Regulate Both snRNP Arginine Methylation and Post-Transcriptional Splicing ]]> https://biorxiv.org/cgi/content/short/2020.11.18.389288v1?rss=1" Maron, M. I. Burgos, E. S. Gupta, V. Casill, A. D. Kosmyna, B. Chen, H. Gamble, M. J. Query, C. C. Shechter, D. 2020-11-19 doi:10.1101/2020.11.18.389288 Cold Spring Harbor Laboratory Press 2020-11-19 <![CDATA[ find-tfbs: a tool to identify functional non-coding variants associated with complex human traits using open chromatin maps and phased whole-genome sequences ]]> https://biorxiv.org/cgi/content/short/2020.11.23.394296v1?rss=1" 2000 associations at P<1x10-9, implicating specific blood cell-types, transcription factors and causal genes. The vast majority of these associations are captured by variants identified in large genome-wide association studies (GWAS) for blood-cell traits. find-tfbs is computationally efficient and robust, allowing for the rapid identification of non-coding variants associated with multiple human phenotypes in very large sample size. Availabilityhttps://github.com/Helkafen/find-tfbs and https://github.com/Helkafen/find-tfbs-demo Contactssebastian.meric.de.bellefon@umontreal.ca and guillaume.lettre@umontreal.ca Supplementary informationSupplementary data are available. ]]> Meric de Bellefon, S. Thibord, F. Auer, P. L. Blangero, J. Coban-Akdemir, Z. H. Floyd, J. S. Fornage, M. Johnsen, J. M. Lange, L. A. Lewis, J. P. Mathias, R. A. McHugh, C. P. Moon, J.-Y. Reiner, A. P. Stilp, A. M. NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, Lettre, G. 2020-11-23 doi:10.1101/2020.11.23.394296 Cold Spring Harbor Laboratory Press 2020-11-23 <![CDATA[ SUN-MKL1 crosstalk regulates nuclear deformation and fast motility of breast carcinoma cells in fibrillar ECM micro-environment ]]> https://biorxiv.org/cgi/content/short/2020.11.24.396390v1?rss=1" Sharma, V. P. Williams, J. Leung, E. Sanders, J. Eddy, R. Castracane, J. Oktay, M. H. Entenberg, D. Condeelis, J. S. 2020-11-24 doi:10.1101/2020.11.24.396390 Cold Spring Harbor Laboratory Press 2020-11-24 <![CDATA[ The HSPG Syndecan is a core organizer of cholinergic synapses in C. elegans ]]> https://biorxiv.org/cgi/content/short/2020.11.25.395806v1?rss=1" Zhou, X. Vachon, C. Cizeron, M. Romatif, O. Buelow, H. Jospin, M. Bessereau, J.-L. 2020-11-26 doi:10.1101/2020.11.25.395806 Cold Spring Harbor Laboratory Press 2020-11-26 <![CDATA[ Fat Tissue Regulates the Pathogenesis and Severity of Cardiomyopathy in Murine Chagas Disease ]]> https://biorxiv.org/cgi/content/short/2020.11.25.397596v1?rss=1" Nagajyothi, J. F. Lizardo, K. Ayyappan, J. P. Oswal, N. Weiss, L. M. Scherer, P. E. 2020-11-26 doi:10.1101/2020.11.25.397596 Cold Spring Harbor Laboratory Press 2020-11-26 <![CDATA[ DIETARY MONOTERPENOIDS AS A NEW CLASS OF ALLOSTERIC HUMAN ARYL HYDROCARBON RECEPTOR ANTAGONISTS ]]> https://biorxiv.org/cgi/content/short/2020.11.30.404178v1?rss=1" Poulikova, K. Zuvalova, I. Vyhlidalova, B. Krasulova, K. Jiskrova, E. Vrzal, R. Kortagere, S. Kopecna, M. Kopecny, D. Sebela, M. Rolfes, K. M. Haarmann-Stemmann, T. Mani, S. Dvorak, Z. 2020-12-01 doi:10.1101/2020.11.30.404178 Cold Spring Harbor Laboratory Press 2020-12-01 <![CDATA[ Electrical synaptic transmission requires a postsynaptic scaffolding protein ]]> https://biorxiv.org/cgi/content/short/2020.12.03.410696v1?rss=1" Lasseigne, A. M. Echeverry, F. A. A. Ijaz, S. Michel, J. C. Martin, E. A. Marsh, A. J. Trujillo, E. Marsden, K. C. Pereda, A. E. Miller, A. C. 2020-12-04 doi:10.1101/2020.12.03.410696 Cold Spring Harbor Laboratory Press 2020-12-04 <![CDATA[ Integrated transcriptional analysis of the cellular and extracellular vesicle RNA content of Candida auris in response to caspofungin ]]> https://biorxiv.org/cgi/content/short/2020.12.04.411843v1?rss=1" Zamith Miranda, D. Amatuzzi, R. F. Martins, S. T. Vieira, A. Z. Munhoz da Rocha, I. F. Rodrigues, M. Trentin, G. Almeida, F. Nakayasu, E. S. Nosanchuk, J. D. Alves, L. R. 2020-12-05 doi:10.1101/2020.12.04.411843 Cold Spring Harbor Laboratory Press 2020-12-05 <![CDATA[ Deletion of PI3-Kinase Promotes Myelodysplasia Through Dysregulation of Autophagy in Hematopoietic Stem Cells ]]> https://biorxiv.org/cgi/content/short/2020.12.04.412593v1?rss=1" Ames, K. Kaur, I. Shi, Y. Tong, M. M. Sinclair, T. Hemmati, S. Glushakow-Smith, S. G. Tein, E. E. Gurska, L. Dubin, R. Shan, J. Pradhan, K. Verma, A. Montagna, C. Gritsman, K. 2020-12-06 doi:10.1101/2020.12.04.412593 Cold Spring Harbor Laboratory Press 2020-12-06 <![CDATA[ Developmental loss of ErbB4 in PV interneurons disrupts state-dependent cortical circuit dynamics. ]]> https://biorxiv.org/cgi/content/short/2020.12.09.418590v1?rss=1" Batista-Brito, R. Majumdar, A. Nuno, A. Vinck, M. Cardin, J. A. 2020-12-10 doi:10.1101/2020.12.09.418590 Cold Spring Harbor Laboratory Press 2020-12-10 <![CDATA[ Defective oligodendrocyte development and function in an RNA polymerase III mutant leukodystrophic mouse ]]> https://biorxiv.org/cgi/content/short/2020.12.09.418657v1?rss=1" Merheb, E. Cui, M.-H. DuBois, J. C. Branch, C. A. Gulinello, M. Shafit-Zagardo, B. Moir, R. D. Willis, I. M. 2020-12-10 doi:10.1101/2020.12.09.418657 Cold Spring Harbor Laboratory Press 2020-12-10 <![CDATA[ The SEQC2 Epigenomics Quality Control (EpiQC) Study: Comprehensive Characterization of Epigenetic Methods, Reproducibility, and Quantification ]]> https://biorxiv.org/cgi/content/short/2020.12.14.421529v1?rss=1" Foox, J. Nordlund, J. Lalancette, C. Gong, T. Lacey, M. Lent, S. Langhorst, B. W. Ponnaluri, V. K. C. Williams, L. Padmamabhan, K. Cavalcante, R. G. Lundmark, A. Butler, D. Gurvitch, J. M. Greally, J. M. Suzuki, M. Menor, M. Nasu, M. Alonso, A. Sheridan, C. Scherer, A. Bruinsma, S. Golda, G. Muszynska, A. Łabaj, P. P. Campbell, M. A. Wos, F. Raine, A. Liljedahl, U. Axelsson, T. Wang, C. Chen, Z. Yang, Z. Li, J. Yang, X. Wang, H. Melnick, A. Guo, S. Blume, A. Franke, V. Ibanez de Caceres, I. Rodriguez-Antolin, C. Rosas, R. Davis, J. W. Ishii, J. Megh 2020-12-14 doi:10.1101/2020.12.14.421529 Cold Spring Harbor Laboratory Press 2020-12-14 <![CDATA[ Methylation of Dual Specificity Phosphatase 4 Controls Cell Differentiation ]]> https://biorxiv.org/cgi/content/short/2020.12.16.422727v1?rss=1" Su, H. Jiang, M. Senevirathne, C. Aluri, S. Zhang, T. Guo, H. Xavier-Ferrucio, J. Jin, S. Tran, N.-T. Liu, S.-M. Sun, C.-W. Zhu, Y. Zhao, Q. Chen, Y. Cable, L. Shen, Y. Liu, J. Qu, C.-K. Han, X. Klug, C. A. Bhatia, R. Chen, Y. Nimer, S. D. Zheng, Y. G. Iancu-Rubin, C. Jin, J. Deng, H. Krause, D. S. Xiang, J. Verma, A. Luo, M. Zhao, X. 2020-12-16 doi:10.1101/2020.12.16.422727 Cold Spring Harbor Laboratory Press 2020-12-16 <![CDATA[ Rare coding variants in 35 genes associate with circulating lipid levels: a multi-ancestry analysis of 170,000 exomes ]]> https://biorxiv.org/cgi/content/short/2020.12.22.423783v1?rss=1" 170,000 individuals from multiple ancestries: 97,493 European, 30,025 South Asian, 16,507 African, 16,440 Hispanic/Latino, 10,420 East Asian, and 1,182 Samoan. We identified 35 genes associated with circulating lipid levels. Ten of these: ALB, SRSF2, JAK2, CREB3L3, TMEM136, VARS, NR1H3, PLA2G12A, PPARG and STAB1 have not been implicated for lipid levels using rare coding variation in population-based samples. We prioritize 32 genes identified in array-based genome-wide association study (GWAS) loci based on gene-based associations, of which three: EVI5, SH2B3, and PLIN1, had no prior evidence of rare coding variant associations. Most of the associated genes showed evidence of association in multiple ancestries. Also, we observed an enrichment of gene-based associations for low-density lipoprotein cholesterol drug target genes, and for genes closest to GWAS index single nucleotide polymorphisms (SNP). Our results demonstrate that gene-based associations can be beneficial for drug target development and provide evidence that the gene closest to the array-based GWAS index SNP is often the functional gene for blood lipid levels. ]]> Hindy, G. Dornbos, P. Chaffin, M. D. Liu, D. J. Wang, M. X. Aguilar-Salinas, C. A. Antonacci-Fulton, L. Ardissino, D. Arnett, D. K. Aslibekyan, S. Atzmon, G. Ballantyne, C. M. Barajas-Olmos, F. Barzilai, N. Becker, L. C. Bielak, L. F. Bis, J. C. Blangero, J. Boerwinkle, E. Bonnycastle, L. L. Bottinger, E. Bowden, D. W. Bown, M. J. Brody, J. A. Broome, J. G. Burtt, N. P. Cade, B. E. Centeno-Cruz, F. Chan, E. Chang, Y.-C. Chen, Y.-D. I. Cheng, C.-Y. Choi, W. J. Chowdhury, R. Contreras-Cubas, C. Cordova, E. J. Correa, A. Cupples, L. A. Curran, J. E. Danesh, 2020-12-23 doi:10.1101/2020.12.22.423783 Cold Spring Harbor Laboratory Press 2020-12-23 <![CDATA[ Single cell multi-omic analysis identifies a Tbx1-dependent multilineage primed population in the murine cardiopharyngeal mesoderm ]]> https://biorxiv.org/cgi/content/short/2020.12.24.424342v1?rss=1" Nomaru, H. Liu, Y. De Bono, C. Righelli, D. Cirino, A. Wang, W. Racedo, S. E. Dantas, A. Cai, C. Angelini, C. Christiaen, L. Kelly, R. Baldini, A. Zheng, D. Morrow, B. E. 2020-12-24 doi:10.1101/2020.12.24.424342 Cold Spring Harbor Laboratory Press 2020-12-24 <![CDATA[ GENERATION AND CHARACTERIZATION OF IMMORTALIZED MOUSE CORTICAL ASTROCYTES FROM WILDTYPE AND CONNEXIN43 KNOCKOUT MICE ]]> https://biorxiv.org/cgi/content/short/2020.12.28.424504v1?rss=1" Cibelli, A. Lopez-Quintero, S. V. McCutcheon, S. Scemes, E. Spray, D. C. Stout, R. F. Suadicani, S. O. Thi, M. M. Urban-Maldonado, M. 2020-12-29 doi:10.1101/2020.12.28.424504 Cold Spring Harbor Laboratory Press 2020-12-29 <![CDATA[ Genetic depletion studies define receptor usage by virulent hantaviruses in human endothelial cells ]]> https://biorxiv.org/cgi/content/short/2020.12.30.424861v1?rss=1" Dieterle, M. E. Sola-Riera, C. Jangra, R. K. Ye, C. Goodfellow, S. M. Mittler, E. Kasikci, E. Bradfute, S. B. Klingström, J. Chandran, K. 2021-01-04 doi:10.1101/2020.12.30.424861 Cold Spring Harbor Laboratory Press 2021-01-04 <![CDATA[ MAVERICC: Efficient marker-free rescue of vaccinia virus recombinants by in vitro CRISPR-Cas9 engineering ]]> https://biorxiv.org/cgi/content/short/2021.01.05.425447v1?rss=1" View larger version (19K): org.highwire.dtl.DTLVardef@17151cborg.highwire.dtl.DTLVardef@b0f480org.highwire.dtl.DTLVardef@184166corg.highwire.dtl.DTLVardef@dc177d_HPS_FORMAT_FIGEXP M_FIG C_FIG Overview of MAVERICC. Conceptual overview of the approach outlined in this manuscript. To make VACV recombinants, the parental virus is first purified and vDNA is isolated with phenol:chloroform extraction. This purified vDNA is then treated with Cas9 enzyme and sgRNAs that are directed to a specific locus in the VACV genome. The cleaved vDNA is then transfected into FWPV-infected BSC-40 cells along with a transfer amplicon containing an insertion or mutation of interest flanked by homologous sequences. Recombination is allowed to occur for 5-7 days, during which time the cleaved vDNA is healed by the transfer amplicon, thus editing the VACV genome, and packaged into infectious viral particles. Individual plaques are grown up and rVACVs are isolated after a single round of plaque purification. Image was created with Biorender.com. ]]> Laudermilch, E. Chandran, K. 2021-01-05 doi:10.1101/2021.01.05.425447 Cold Spring Harbor Laboratory Press 2021-01-05 <![CDATA[ Nucleus accumbens neurons encode initiation and vigor of reward approach behavior ]]> https://biorxiv.org/cgi/content/short/2021.01.12.425739v1?rss=1" Levcik, D. Sugi, A. H. Pochapski, J. A. Baltazar, G. Pulido, L. N. Villas-Boas, C. Aguilar-Rivera, M. Fuentes-Flores, R. Nicola, S. M. Da Cunha, C. 2021-01-12 doi:10.1101/2021.01.12.425739 Cold Spring Harbor Laboratory Press 2021-01-12 <![CDATA[ Variational autoencoders learn universal latent representations of metabolomics data ]]> https://biorxiv.org/cgi/content/short/2021.01.14.426721v1?rss=1" Gomari, D. P. Schweickart, A. Cerchietti, L. Paietta, E. Fernandez, H. Al-Amin, H. Suhre, K. Krumsiek, J. 2021-01-17 doi:10.1101/2021.01.14.426721 Cold Spring Harbor Laboratory Press 2021-01-17 <![CDATA[ Extracellular vesicles regulate yeast growth, biofilm formation, and yeast-to-hypha differentiation in Candida albicans ]]> https://biorxiv.org/cgi/content/short/2021.01.21.427696v1?rss=1" Honorato, L. Demetrio, J. F. Ellis, C. C. Piffer, A. C. Pereira, Y. Frases, S. Araujo, G. Pontes, B. Mendes, M. T. Pereira, M. D. Guimaraes, A. J. da Silva, N. M. Vargas, G. Joffe, L. Del Poeta, M. Nosanchuk, J. D. Zamith Miranda, D. Reis, F. Rodrigues, M. L. Martins, S. Alves, L. R. Almeida, I. C. Nimrichter, L. 2021-01-22 doi:10.1101/2021.01.21.427696 Cold Spring Harbor Laboratory Press 2021-01-22 <![CDATA[ Genome-wide analysis of mitochondrial DNA copy number reveals multiple loci implicated in nucleotide metabolism, platelet activation, and megakaryocyte proliferation ]]> https://biorxiv.org/cgi/content/short/2021.01.25.428086v1?rss=1" Longchamps, R. J. Yang, S. Y. Castellani, C. A. Shi, W. Lane, J. Grove, M. L. Bartz, T. M. Sarnowski, C. Burrows, K. Guyatt, A. L. Gaunt, T. R. Kacprowski, T. Yang, J. De, P. L. Yu, L. CHARGE Aging and Longevity Group, Bergman, A. Xia, R. Fornage, M. Feitosa, M. F. Wojczynski, M. K. Kraja, A. T. Province, M. A. Amin, N. Rivadeneira, F. Tiemeier, H. Uitterlinden, A. G. Broer, L. Van, J. Van, C. Raffield, L. M. Lange, L. Rich, S. S. Lemaitre, R. N. Goodarzi, M. O. Sitlani, C. M. Mak, A. C. Bennett, D. A. Rodriguez, S. Murabito, J. M. Lunetta, K. L. Soto 2021-01-28 doi:10.1101/2021.01.25.428086 Cold Spring Harbor Laboratory Press 2021-01-28 <![CDATA[ Spatial organization of transcript elongation and splicing kinetics ]]> https://biorxiv.org/cgi/content/short/2021.01.28.428713v1?rss=1" Casill, A. D. Haimowitz, A. J. Kosmyna, B. Query, C. C. Ye, K. Gamble, M. J. 2021-01-29 doi:10.1101/2021.01.28.428713 Cold Spring Harbor Laboratory Press 2021-01-29 <![CDATA[ Comparing synaptic proteomes across seven mouse models for autism reveals molecular subtypes and deficits in Rho GTPase signaling ]]> https://biorxiv.org/cgi/content/short/2021.02.02.429412v1?rss=1" Carbonell, A. U. Freire-Cobo, C. Deyneko, I. V. Erdjument-Bromage, H. Clipperton-Allen, A. Rasmusson, R. Page, D. T. Neubert, T. A. Jordan, B. A. 2021-02-02 doi:10.1101/2021.02.02.429412 Cold Spring Harbor Laboratory Press 2021-02-02 <![CDATA[ Feedforward and feedback interactions between visual cortical areas use different population activity patterns ]]> https://biorxiv.org/cgi/content/short/2021.02.08.430346v1?rss=1" Semedo, J. Jasper, A. I. Zandvakili, A. Aschner, A. Machens, C. Kohn, A. Yu, B. M. 2021-02-10 doi:10.1101/2021.02.08.430346 Cold Spring Harbor Laboratory Press 2021-02-10 <![CDATA[ Human retinal organoids release extracellular vesicles that regulate gene expression in target human retinal progenitors ]]> https://biorxiv.org/cgi/content/short/2021.02.10.430690v1?rss=1" Zhou, J. Flores-Bellver, M. Pan, J. Benito-Martin, A. Shi, C. Onwumere, O. Mighty, J. Qian, J. Zhong, X. Hogue, T. Amponsah-Antwi, B. Einbond, L. Gharbaran, R. Wu, H. Chen, B.-J. Zheng, Z. Tchaikovskaya, T. Zhang, X. Peinado, H. Canto-Soler, V. Redenti, S. 2021-02-11 doi:10.1101/2021.02.10.430690 Cold Spring Harbor Laboratory Press 2021-02-11 <![CDATA[ Hyper-connectivity between the left motor cortex and prefrontal cortex is associated with the severity of dysfunction of the descending pain modulatory system in fibromyalgia ]]> https://biorxiv.org/cgi/content/short/2021.02.11.430747v1?rss=1" Caumo, W. Oliveira Franco, A. Fernandes, C. Vicunha, P. Bandeira, J. Aratanha, M. A. Torres, I. L. Fregni, F. 2021-02-11 doi:10.1101/2021.02.11.430747 Cold Spring Harbor Laboratory Press 2021-02-11 <![CDATA[ Disrupting short-term memory in premotor but not visual cortex affects serial dependence in visuomotor integration ]]> https://biorxiv.org/cgi/content/short/2021.02.18.431802v1?rss=1" de Azevedo Neto, R. M. Bartels, A. 2021-02-18 doi:10.1101/2021.02.18.431802 Cold Spring Harbor Laboratory Press 2021-02-18 <![CDATA[ BTBD9 is a novel component of IGF signaling and regulates manganese-induced dopaminergic dysfunction ]]> https://biorxiv.org/cgi/content/short/2021.02.18.431924v1?rss=1" Chen, P. Zheng, F. Li, S. Cheng, H. Bornhorst, J. Li, Y. Yang, B. Lee, K. H. Ke, T. Schwerdtle, T. Yang, X. Bowman, A. B. Aschner, M. 2021-02-22 doi:10.1101/2021.02.18.431924 Cold Spring Harbor Laboratory Press 2021-02-22 <![CDATA[ VAL genes regulate vegetative phase change via miR156-dependent and independent mechanisms ]]> https://biorxiv.org/cgi/content/short/2021.02.23.432516v1?rss=1" Fouracre, J. P. He, J. Chen, V. J. Sidoli, S. Poethig, R. S. 2021-02-24 doi:10.1101/2021.02.23.432516 Cold Spring Harbor Laboratory Press 2021-02-24 <![CDATA[ Widespread ripples synchronize human cortical activity ]]> https://biorxiv.org/cgi/content/short/2021.02.23.432582v1?rss=1" Dickey, C. W. Verzhbinsky, I. A. Jiang, X. Rosen, B. Q. Kajfez, S. Stedelin, B. Shih, J. J. Ben-Haim, S. Raslan, A. M. Madsen, J. R. Eskandar, E. N. Gonzalez-Martinez, J. Cash, S. S. Halgren, E. 2021-02-24 doi:10.1101/2021.02.23.432582 Cold Spring Harbor Laboratory Press 2021-02-24 <![CDATA[ Donor-derived vasculature is required to support neocortical cell grafts after stroke ]]> https://biorxiv.org/cgi/content/short/2021.02.27.433204v1?rss=1" Krzyspiak, J. Yan, J. Ghosh, H. Galinski, B. Lituma, P. J. Alvina, K. Washburn, S. Gronska-Peski, M. Tai, Y. D. McDermott, K. Zukin, S. Weiser, D. Castillo, P. E. Khodakhah, K. Hebert, J. 2021-02-28 doi:10.1101/2021.02.27.433204 Cold Spring Harbor Laboratory Press 2021-02-28 <![CDATA[ Memory CD8+ T cells mediate early pathogen-specific protection through localized delivery of chemokines and IFNγ to clusters of inflammatory monocytes ]]> https://biorxiv.org/cgi/content/short/2021.03.01.433468v1?rss=1" Boutet, M. Benet, Z. Guillen, E. Koch, C. SOUDJA, S. M. Delahaye, F. Fooksman, D. Lauvau, G. 2021-03-02 doi:10.1101/2021.03.01.433468 Cold Spring Harbor Laboratory Press 2021-03-02 <![CDATA[ Lamp1 mediates lipid transport, but is dispensable for autophagy in Drosophila ]]> https://biorxiv.org/cgi/content/short/2021.03.03.432938v1?rss=1" Chaudrhy, N. Sica, M. Surabhi, S. Sanchez Hernandez, D. Mesquita, A. Selimovic, A. Riaz, A. Bai, H. Macintosh, G. C. Jenny, A. 2021-03-03 doi:10.1101/2021.03.03.432938 Cold Spring Harbor Laboratory Press 2021-03-03 <![CDATA[ Induction of Bdnf from promoter I following electroconvulsive seizures contributes to structural plasticity in neurons of the piriform cortex ]]> https://biorxiv.org/cgi/content/short/2021.03.04.433962v1?rss=1" Ramnauth, A. D. Maynard, K. Kardian, A. S. Phan, B. N. Tippani, M. Rajpurohit, S. Hobbs, J. W. Page, S. C. Jaffe, A. E. Martinowich, K. 2021-03-04 doi:10.1101/2021.03.04.433962 Cold Spring Harbor Laboratory Press 2021-03-04 <![CDATA[ Cell competition removes segmental aneuploid cells from Drosophila imaginal disc-derived tissues based on ribosomal protein gene dose ]]> https://biorxiv.org/cgi/content/short/2021.03.05.433802v1?rss=1" ji, z. Chuen, J. Kiparaki, M. baker, n. e. 2021-03-06 doi:10.1101/2021.03.05.433802 Cold Spring Harbor Laboratory Press 2021-03-06 <![CDATA[ Increased disease burden in Interleukin-3 deficient mice after Mycobacterium tuberculosis and herpes simplex virus infections ]]> https://biorxiv.org/cgi/content/short/2021.03.07.434271v1?rss=1" Kunnath-Velayudhan, S. Ng, T. W. Saini, N. K. Goldberg, M. F. Arora, P. Xu, J. Kim, J. Herold, B. C. Chan, J. Jacobs, W. R. Porcelli, S. A. 2021-03-08 doi:10.1101/2021.03.07.434271 Cold Spring Harbor Laboratory Press 2021-03-08 <![CDATA[ Expansion-Assisted Iterative-FISH defines lateral hypothalamus spatio-molecular organization ]]> https://biorxiv.org/cgi/content/short/2021.03.08.434304v1?rss=1" Wang, Y. Eddison, M. Fleishman, G. Weigert, M. Xu, S. Henry, F. E. Wang, T. Lemire, A. L. Schmidt, U. Yang, H. Rokicki, K. Goina, C. Svoboda, K. Myers, E. W. Saalfeld, S. Korff, W. Sternson, S. M. Tillberg, P. W. 2021-03-08 doi:10.1101/2021.03.08.434304 Cold Spring Harbor Laboratory Press 2021-03-08 <![CDATA[ The CATP-8/P5A-type ATPase functions in multiple pathways during neuronal patterning ]]> https://biorxiv.org/cgi/content/short/2021.03.10.434729v1?rss=1" Tang, L. Trivedi, M. Freund, J. Salazar, C. Ramirez-Suarez, N. Lee, G. Rahman, M. Wang, Y. Grant, B. Bülow, H. E. 2021-03-10 doi:10.1101/2021.03.10.434729 Cold Spring Harbor Laboratory Press 2021-03-10 <![CDATA[ A Fragment-based approach to assess the ligandability of ArgB, ArgC, ArgD and ArgF in the L-arginine biosynthetic pathway of Mycobacterium tuberculosis. ]]> https://biorxiv.org/cgi/content/short/2021.03.12.435067v1?rss=1" Gupta, P. Thomas, S. E. Cory-Wright, J. Sebastián-Pérez, V. Burgess, A. Cattermole, E. Meghir, C. Abell, C. Coyne, A. G. Jacobs, W. R. Blundell, T. L. Tiwari, S. Mendes, V. 2021-03-12 doi:10.1101/2021.03.12.435067 Cold Spring Harbor Laboratory Press 2021-03-12 <![CDATA[ The Hox transcription factor Ultrabithorax binds RNA and regulates co-transcriptional splicing through an interplay with RNA polymerase II ]]> https://biorxiv.org/cgi/content/short/2021.03.25.434787v1?rss=1" Carnesecchi, J. Boumpas, P. van Nierop y Sanchez, P. Domsch, K. Pinto, H. D. Borges Pinto, P. Lohmann, I. 2021-03-25 doi:10.1101/2021.03.25.434787 Cold Spring Harbor Laboratory Press 2021-03-25 <![CDATA[ Gene structure, differential exon usage, and expression of the testis long intergenic non-protein coding RNA 1016 in humans reveals isoform-specific roles in controlling biological processes ]]> https://biorxiv.org/cgi/content/short/2021.03.26.437262v1?rss=1" Ramos, E. I. Yang, B. Vasquez, Y. M. Lin, K. Y. Choudhari, R. Gadad, S. S. 2021-03-28 doi:10.1101/2021.03.26.437262 Cold Spring Harbor Laboratory Press 2021-03-28 <![CDATA[ Tbx1, a 22q11.2-encoded gene, is a link between alterations in fimbria myelination and cognitive speed in mice ]]> https://biorxiv.org/cgi/content/short/2021.03.29.437581v1?rss=1" Hiramoto, T. Sumiyoshi, A. Yamauchi, T. Tanigaki, K. Shi, Q. Kang, G. Ryoke, R. Nonaka, H. Enomoto, S. Izumi, T. Bhat, M. A. Kawashima, R. Hiroi, N. 2021-03-30 doi:10.1101/2021.03.29.437581 Cold Spring Harbor Laboratory Press 2021-03-30 <![CDATA[ Candida albicans enhances the progression of oral squamous cell cancrinoma in vitro and in vivo ]]> https://biorxiv.org/cgi/content/short/2021.03.31.437836v1?rss=1" Vadovics, M. Igaz, N. Alfoldi, R. Rakk, D. Veres, E. Szucs, B. Horvath, M. Toth, R. Szucs, A. Horvath, P. Tiszlavicz, L. Vagvolgyi, C. Nosanchuk, J. Szekeres, A. Kiricsi, M. Puskas, L. Gacser, A. 2021-03-31 doi:10.1101/2021.03.31.437836 Cold Spring Harbor Laboratory Press 2021-03-31 <![CDATA[ Cellular variability of nonsense-mediated mRNA decay ]]> https://biorxiv.org/cgi/content/short/2021.03.31.437867v1?rss=1" Sato, H. Singer, R. H. 2021-03-31 doi:10.1101/2021.03.31.437867 Cold Spring Harbor Laboratory Press 2021-03-31 <![CDATA[ Radiation Exposure of the Base of the Heart Accelerates Coronary Atherosclerosis ]]> https://biorxiv.org/cgi/content/short/2021.04.08.438992v1?rss=1" Nepali, P. R. Mathieu, M. Kitz, S. Nakauchi, C. Gabriels, K. Russell, J. Monette, S. te Poele, J. A. Heeneman, S. Rimner, A. Qiu, Y. Kurland, I. J. Stewart, F. A. Jaimes, E. A. Haimovitz-Friedman, A. 2021-04-09 doi:10.1101/2021.04.08.438992 Cold Spring Harbor Laboratory Press 2021-04-09 <![CDATA[ Non-clinical evidence supports anti-inflammatories as more effective medication than antihistamines against tarantula local effects envenomation ]]> https://biorxiv.org/cgi/content/short/2021.04.13.439720v1?rss=1" Alves, B. R. Sutti, R. Silva, P. I. Bertani, R. Santos-Junior, J. G. Rocha e Silva, T. A. Linardi, A. 2021-04-14 doi:10.1101/2021.04.13.439720 Cold Spring Harbor Laboratory Press 2021-04-14 <![CDATA[ Continuous multiplexed population representations of task context in the mouse primary visual cortex ]]> https://biorxiv.org/cgi/content/short/2021.04.20.440666v1?rss=1" Hajnal, M. A. Tran, D. Einstein, M. Martelo, M. V. Safaryan, K. Polack, P.-O. Golshani, P. Orban, G. 2021-04-20 doi:10.1101/2021.04.20.440666 Cold Spring Harbor Laboratory Press 2021-04-20 <![CDATA[ Altered synaptic connectivity and brain function in mice lacking microglial adapter protein Iba1 ]]> https://biorxiv.org/cgi/content/short/2021.04.23.441023v1?rss=1" Lituma, P. J. Woo, E. O'Hara, B. F. Castillo, P. E. Sibinga, N. E. S. Nandi, S. 2021-04-23 doi:10.1101/2021.04.23.441023 Cold Spring Harbor Laboratory Press 2021-04-23 <![CDATA[ Redundancy between spectral and higher-order texture statistics for natural image segmentation ]]> https://biorxiv.org/cgi/content/short/2021.04.26.441524v1?rss=1" Herrera-Esposito, D. Gomez-Sena, L. Coen-Cagli, R. 2021-04-27 doi:10.1101/2021.04.26.441524 Cold Spring Harbor Laboratory Press 2021-04-27 <![CDATA[ Nopp140-chaperoned 2'-O-methylation of small nuclear RNAs in Cajal bodies ensures splicing fidelity ]]> https://biorxiv.org/cgi/content/short/2021.04.29.441821v1?rss=1" Bizarro, J. Deryusheva, S. Wacheul, L. Gupta, V. Ernst, F. G. Lafontaine, D. L. Gall, J. G. Meier, U. T. 2021-04-29 doi:10.1101/2021.04.29.441821 Cold Spring Harbor Laboratory Press 2021-04-29 <![CDATA[ Cerebellar neuronal dysfunction accompanies early motor symptoms in Spinocerebellar Ataxia Type 3 and is partially alleviated upon chronic citalopram treatment ]]> https://biorxiv.org/cgi/content/short/2021.04.29.441865v1?rss=1" Palarz, K. Neves-Carvalho, A. Duarte-Silva, S. Maciel, P. Khodakhah, K. 2021-04-29 doi:10.1101/2021.04.29.441865 Cold Spring Harbor Laboratory Press 2021-04-29 <![CDATA[ Single-molecule imaging of microRNA-mediated gene silencing in cells ]]> https://biorxiv.org/cgi/content/short/2021.04.30.442050v1?rss=1" Kobayashi, H. Singer, R. H. 2021-04-30 doi:10.1101/2021.04.30.442050 Cold Spring Harbor Laboratory Press 2021-04-30 <![CDATA[ Activation of extrasynaptic kainate receptors drives hilar mossy cell activity ]]> https://biorxiv.org/cgi/content/short/2021.05.01.442200v1?rss=1" Ramos, C. C. Lutzu, S. Yamasaki, M. Yanagawa, Y. Watanabe, M. Sakimura, K. Tomita, S. Castillo, P. E. 2021-05-01 doi:10.1101/2021.05.01.442200 Cold Spring Harbor Laboratory Press 2021-05-01 <![CDATA[ Definitive Hematopoietic Stem Cells Minimally Contribute to Embryonic Hematopoiesis ]]> https://biorxiv.org/cgi/content/short/2021.05.02.442359v1?rss=1" Ulloa, B. A. Habbsa, S. S. Potts, K. S. Lewis, A. McKinstry, M. Payne, S. G. Flores, J. Nizhnik, A. Feliz Norberto, M. Mosimann, C. Bowman, T. V. 2021-05-03 doi:10.1101/2021.05.02.442359 Cold Spring Harbor Laboratory Press 2021-05-03 <![CDATA[ Haploinsufficiency of the essential gene RpS12 causes defects in erythropoiesis and hematopoietic stem cell maintenance ]]> https://biorxiv.org/cgi/content/short/2021.05.04.442585v1?rss=1" Folgado Marco, V. Ames, K. Gritsman, K. Baker, N. E. 2021-05-04 doi:10.1101/2021.05.04.442585 Cold Spring Harbor Laboratory Press 2021-05-04 <![CDATA[ The terminal heme synthetic enzyme, Coproheme Decarboxylase, coordinates heme synthesis and uptake in response to iron in Mycobacteria ]]> https://biorxiv.org/cgi/content/short/2021.05.10.443464v1?rss=1" Donegan, R. K. Copeland, J. Edgha, S. Brown, G. Hale, O. F. Mitra, A. Yang, H. Dailey, H. A. Niederweis, M. Jain, P. Reddi, A. R. 2021-05-10 doi:10.1101/2021.05.10.443464 Cold Spring Harbor Laboratory Press 2021-05-10 <![CDATA[ Kinesin-3 mediated delivery of presynaptic neurexin stabilizes growing dendritic spines and postsynaptic components in vivo ]]> https://biorxiv.org/cgi/content/short/2021.05.11.443328v1?rss=1" Oliver, D. Ramachandran, S. Philbrook, A. Lambert, C. M. Nguyen, K. C. Q. Hall, D. H. Francis, M. 2021-05-11 doi:10.1101/2021.05.11.443328 Cold Spring Harbor Laboratory Press 2021-05-11 <![CDATA[ Cortical ripples provide the conditions for consolidation during NREM sleep in humans ]]> https://biorxiv.org/cgi/content/short/2021.05.11.443637v1?rss=1" Dickey, C. W. Verzhbinsky, I. A. Jiang, X. Rosen, B. Q. Kajfez, S. Eskandar, E. N. Gonzalez-Martinez, J. Cash, S. S. Halgren, E. 2021-05-13 doi:10.1101/2021.05.11.443637 Cold Spring Harbor Laboratory Press 2021-05-13 <![CDATA[ Ancestral diversity improves discovery and fine-mapping of genetic loci for anthropometric traits - the Hispanic/Latino Anthropometry Consortium ]]> https://biorxiv.org/cgi/content/short/2021.05.27.445969v1?rss=1" 60 established anthropometric loci in Hispanic/Latino populations at genome-wide significance--representing up to 30% of previously-reported index SNP anthropometric associations. Trans-ethnic meta-analysis of the three ancestries showed a small-to-moderate impact of uncorrected population stratification on the resulting effect size estimates. Our novel findings demonstrate that future studies may also benefit from leveraging differences in linkage disequilibrium patterns to discover novel loci and additional signals with less residual population stratification. ]]> Fernandez-Rhodes, L. Graff, M. Buchanan, V. L. Justice, A. E. Highland, H. M. Guo, X. Young, K. L. Adhikari, K. Allred, N. P. Below, J. E. Bradfield, J. Pereira, A. C. Glover, L. Kim, D. Lilly, A. G. Shrestha, P. Thomas, A. G. Zhang, X. Chen, M. Chiang, C. Pulit, S. Horimoto, A. Krieger, J. E. Guindo-Martinez, M. Preuss, M. Schumann, C. Smit, R. A. J. Torres-Mejia, G. Acuna-Alonzo, V. Bedoya, G. Bortolini, M.-C. Canizales-Quinteros, S. Gallo, C. Gonzalez-Jose, R. Poletti, G. Rothhammer, F. Hakonarson, H. Adler, S. G. Igo, R. Iyengar, S. Nicholas, S. B. 2021-05-29 doi:10.1101/2021.05.27.445969 Cold Spring Harbor Laboratory Press 2021-05-29 <![CDATA[ Micro-Meta App: an interactive software tool to facilitate the collection of microscopy metadata based on community-driven specifications ]]> https://biorxiv.org/cgi/content/short/2021.05.31.446382v1?rss=1" Rigano, A. Ehmsen, S. Ozturk, S. U. Ryan, J. Balashov, A. Hammer, M. Kirli, K. Bellve, K. Boehm, U. Brown, C. M. Chambers, J. J. Coleman, R. A. Cosolo, A. Faklaris, O. Fogarty, K. Guilbert, T. Hamacher, A. B. Itano, M. S. Keeley, D. P. Kunis, S. Lacoste, J. Laude, A. Ma, W. Marcello, M. Montero-Llopis, P. Nelson, G. Nitschke, R. Pimentel, J. A. Weidtkamp-Peters, S. Park, P. J. Alver, B. Grunwald, D. Strambio-De-Castillia, C. 2021-05-31 doi:10.1101/2021.05.31.446382 Cold Spring Harbor Laboratory Press 2021-05-31 <![CDATA[ Transcriptomic changes highly similar to Alzheimer's disease are observed in a subpopulation of individuals during normal brain aging ]]> https://biorxiv.org/cgi/content/short/2021.06.01.446628v1?rss=1" 70 years), we found that samples from cognitively normal older individuals clustered with the "healthy aging" subgroup while AD samples mainly clustered with the "AD similar" subgroups. This may imply that individuals in the healthy aging subgroup will likely remain cognitively normal when they become older and vice versa. In summary, our results suggest that on the transcriptome level, aging and LOAD have strong interconnections in some brain regions in a subpopulation of cognitively normal aging individuals. This supports the theory that the initiation of LOAD occurs decades earlier than the manifestation of clinical phenotype and it may be essential to closely study the "normal brain aging" to identify the very early molecular events that may lead to LOAD development. ]]> Peng, S. Zeng, L. Haure-mirande, J.-v. Wang, M. Huffman, D. M. Haroutunian, V. Ehrlich, M. Zhang, B. Tu, Z. 2021-06-02 doi:10.1101/2021.06.01.446628 Cold Spring Harbor Laboratory Press 2021-06-02 <![CDATA[ Mycobacterium tuberculosis H2S functions as a sink to modulate central metabolism, bioenergetics, and drug susceptibility ]]> https://biorxiv.org/cgi/content/short/2021.06.02.446746v1?rss=1" Kunota, T. T. R. Rahman, M. A. Truebody, B. E. Mackenzie, J. S. Saini, V. Lamprecht, D. A. Adamson, J. H. Sevalkar, R. R. Lancaster, J. R. Berney, M. Glasgow, J. N. Steyn, A. J. 2021-06-02 doi:10.1101/2021.06.02.446746 Cold Spring Harbor Laboratory Press 2021-06-02 <![CDATA[ Resource-efficient pooled sequencing expands translational impact in solid tumors ]]> https://biorxiv.org/cgi/content/short/2021.06.06.447265v1?rss=1" DiNatale, R. G. Mano, R. Makarov, V. Rusk, N. Drill, E. Winer, A. Sankin, A. Yoo, A. Freeman, B. A. Hsieh, J. J. Chen, Y.-B. Coleman, J. A. Berger, M. G. Ostrovnaya, I. Chan, T. A. Russo, P. Reznik, E. Hakimi, A. A. 2021-06-07 doi:10.1101/2021.06.06.447265 Cold Spring Harbor Laboratory Press 2021-06-07 <![CDATA[ Presynaptic FMRP and local protein synthesis support structural and functional plasticity of glutamatergic axon terminals ]]> https://biorxiv.org/cgi/content/short/2021.06.07.447454v1?rss=1" Monday, H. R. Kharod, S. C. Yoon, Y. J. Singer, R. H. Castillo, P. E. 2021-06-08 doi:10.1101/2021.06.07.447454 Cold Spring Harbor Laboratory Press 2021-06-08 <![CDATA[ A combination of RBD and NTD neutralizing antibodies limits the generation of SARS-CoV-2 spike neutralization-escape mutants ]]> https://biorxiv.org/cgi/content/short/2021.06.10.447999v1?rss=1" Haslwanter, D. Dieterle, M. E. Wec, A. Z. O'Brien, C. M. Sakharkar, M. Florez, C. Tong, K. Rappazzo, C. G. Lasso, G. Vergnolle, O. Wirchnianski, A. S. Bortz, R. H. Laudermilch, E. Fels, J. M. Mengotto, A. Malonis, R. J. Georgiev, G. I. Quiroz, J. Wrapp, D. Wang, N. Dye, K. E. Barnhill, J. Dye, J. M. McLellan, J. S. Daily, J. P. Lai, J. R. Herbert, A. S. Walker, L. Chandran, K. Jangra, R. K. 2021-06-11 doi:10.1101/2021.06.10.447999 Cold Spring Harbor Laboratory Press 2021-06-11 <![CDATA[ HVEM structures and mutants reveal distinct functions of binding to LIGHT and BTLA/CD160 ]]> https://biorxiv.org/cgi/content/short/2021.06.16.448617v1?rss=1" Liu, W. Chou, T.-F. Garrett-Thomson, S. C. Seo, G.-Y. Fedorov, E. Ramagopa, U. A. Bonanno, J. B. Kakugawa, K. Cheroutre, H. Kronenberg, M. Almo, S. C. 2021-06-16 doi:10.1101/2021.06.16.448617 Cold Spring Harbor Laboratory Press 2021-06-16 <![CDATA[ Alzheimer's disease-associated P460L mutation in ephrin receptor type A1 (EphA1) leads to dysregulated Rho-GTPase signaling ]]> https://biorxiv.org/cgi/content/short/2021.06.17.448790v1?rss=1" Kim, Y. Lasso, G. Patel, H. Vardarajan, B. Santa-Maria, I. Lefort, R. 2021-06-18 doi:10.1101/2021.06.17.448790 Cold Spring Harbor Laboratory Press 2021-06-18 <![CDATA[ Resolving the structure of phage-bacteria interactions in the context of natural diversity ]]> https://biorxiv.org/cgi/content/short/2021.06.27.449121v1?rss=1" Kauffman, K. M. Chang, W. K. Brown, J. M. Hussain, F. A. Yang, J. Y. Polz, M. F. Kelly, L. 2021-06-27 doi:10.1101/2021.06.27.449121 Cold Spring Harbor Laboratory Press 2021-06-27 <![CDATA[ Inhibition of cancer cells in culture. The effects of treatment with ketone bodies and/or rapamycin treatment ]]> https://biorxiv.org/cgi/content/short/2021.06.27.450024v1?rss=1" Miller, A. Lin, B. Pincus, M. R. Fine, E. J. Feinman, R. D. 2021-06-28 doi:10.1101/2021.06.27.450024 Cold Spring Harbor Laboratory Press 2021-06-28 <![CDATA[ Activity-dependent LTP in the dentate gyrus promotes epileptic seizures ]]> https://biorxiv.org/cgi/content/short/2021.06.30.450628v1?rss=1" Nasrallah, K. Frechou, M. A. Yoon, Y. J. Persaud, S. Goncalves, T. Castillo, P. E. 2021-06-30 doi:10.1101/2021.06.30.450628 Cold Spring Harbor Laboratory Press 2021-06-30 <![CDATA[ Anti-tumor efficacy of an MMAE conjugated antibody targeting cell surface TACE/ADAM17-cleaved Amphiregulin in breast cancer ]]> https://biorxiv.org/cgi/content/short/2021.07.07.451518v1?rss=1" Lofgren, K. A. Sreekumar, S. Jenkins, E. C. Ernzen, K. J. Kenny, P. A. 2021-07-08 doi:10.1101/2021.07.07.451518 Cold Spring Harbor Laboratory Press 2021-07-08 <![CDATA[ The transcription factor Xrp1 orchestrates both reduced translation and cell competition upon defective ribosome assembly or function ]]> https://biorxiv.org/cgi/content/short/2021.07.12.452023v1?rss=1" Kiparaki, M. Khan, C. Folgado Marco, V. Chuen, J. Baker, N. E. 2021-07-12 doi:10.1101/2021.07.12.452023 Cold Spring Harbor Laboratory Press 2021-07-12 <![CDATA[ Transcriptional regulation of neural stem cell expansion in adult hippocampus ]]> https://biorxiv.org/cgi/content/short/2021.07.14.452351v1?rss=1" Guo, N. McDermott, K. Shih, Y.-T. Zanga, H. Ghosh, D. Goncalves, T. Sahay, A. 2021-07-14 doi:10.1101/2021.07.14.452351 Cold Spring Harbor Laboratory Press 2021-07-14 <![CDATA[ A dynamic and combinatorial histone code drives malaria parasite asexual and sexual development ]]> https://biorxiv.org/cgi/content/short/2021.07.19.452879v1?rss=1" von Grüning, H. Coradin, M. Mendoza, M. Reader, J. Sidoli, S. Garcia, B. Birkholtz, L.-M. 2021-07-20 doi:10.1101/2021.07.19.452879 Cold Spring Harbor Laboratory Press 2021-07-20 <![CDATA[ Toxoplasma gondii subverts the host ESCRT machinery for parasite uptake of host cytosolic proteins ]]> https://biorxiv.org/cgi/content/short/2021.07.21.453261v1?rss=1" Rivera-Cuevas, Y. Mayoral, J. Di Cristina, M. Lawrence, A.-L. E. Olafsson, E. B. Thornhill, D. Waldman, B. S. Ono, A. Sexton, J. Lourido, S. Weiss, L. M. Carruthers, V. B. 2021-07-21 doi:10.1101/2021.07.21.453261 Cold Spring Harbor Laboratory Press 2021-07-21 <![CDATA[ Cytolytic memory CD4+ T cell clonotypes are expanded during Plasmodium falciparum infection ]]> https://biorxiv.org/cgi/content/short/2021.07.21.453277v1?rss=1" Furtado, R. Delahaye, F. Zhang, J. Sung, J. Karell, P. Kim, R. S. Caillat-Zucman, S. Liang, L. Felgner, P. Bauleni, A. Gama, S. Buchwald, A. Taylor, T. Seydel, K. Laufer, M. Daily, J. Lauvau, G. 2021-07-23 doi:10.1101/2021.07.21.453277 Cold Spring Harbor Laboratory Press 2021-07-23 <![CDATA[ Uncovering the Bromodomain Interactome using Site-Specific Azide-Acetyllysine Photochemistry, Proteomic Profiling and Structural Characterization ]]> https://biorxiv.org/cgi/content/short/2021.07.28.453719v1?rss=1" Islam, K. Wagner, S. Ghosh, A. Sudhamalla, B. Jnawali, H. N. Debiec, R. Fedorov, E. 2021-07-28 doi:10.1101/2021.07.28.453719 Cold Spring Harbor Laboratory Press 2021-07-28 <![CDATA[ Targeted in silico characterization of fusion transcripts in tumor and normal tissues via FusionInspector ]]> https://biorxiv.org/cgi/content/short/2021.08.02.454639v1?rss=1" Haas, B. Dobin, A. Ghandi, M. Van Arsdale, A. Tickle, T. L. Robinson, J. T. Gilliani, R. Kasif, S. Regev, A. 2021-08-04 doi:10.1101/2021.08.02.454639 Cold Spring Harbor Laboratory Press 2021-08-04 <![CDATA[ Isolation and characterization of human monoclonal antibodies to pneumococcal capsular polysaccharide 3 ]]> https://biorxiv.org/cgi/content/short/2021.08.02.454853v1?rss=1" Babb, R. Doyle, C. R. Pirofski, L.-a. 2021-08-03 doi:10.1101/2021.08.02.454853 Cold Spring Harbor Laboratory Press 2021-08-03 <![CDATA[ Cytoplasmic labile iron accumulates in aging stem cells perturbing a key rheostat for identity control ]]> https://biorxiv.org/cgi/content/short/2021.08.03.454947v1?rss=1" Kao, Y.-R. Chen, J. Kumari, R. Tatiparthy, M. Ma, Y. Aivalioti, M. Zintiridou, A. Thiruthuvanathan, V. Reisz, J. Stransky, S. Sidoli, S. Steidl, U. D'Alessandro, A. Will, B. 2021-08-05 doi:10.1101/2021.08.03.454947 Cold Spring Harbor Laboratory Press 2021-08-05 <![CDATA[ Adrenergic Attenuation of Immune Activity is Associated with Anhedonia in Adolescents ]]> https://biorxiv.org/cgi/content/short/2021.08.07.455522v1?rss=1" Nguyen, T. N. B. Ely, B. A. Kim-Schulze, S. Gabbay, V. 2021-08-09 doi:10.1101/2021.08.07.455522 Cold Spring Harbor Laboratory Press 2021-08-09 <![CDATA[ Cleavage of histone H2A during embryonic stem cell differentiation destabilizes nucleosomes to counteract gene activation ]]> https://biorxiv.org/cgi/content/short/2021.08.10.455684v1?rss=1" Coradin, M. Cesare, J. Lan, Y. Zhu, Z. Lund, P. J. Sidoli, S. Kori, Y. Lu, C. Porter, E. G. Robert, C. W. M. Garcia, B. A. 2021-08-10 doi:10.1101/2021.08.10.455684 Cold Spring Harbor Laboratory Press 2021-08-10 <![CDATA[ Arf6 anchors Cdr2 nodes at the cell cortex to control cell size at division ]]> https://biorxiv.org/cgi/content/short/2021.08.17.456680v1?rss=1" Opalko, H. E. Miller, K. E. Kim, H.-S. Vargas-Garcia, C. A. Singh, A. Keogh, M.-C. Moseley, J. B. 2021-08-17 doi:10.1101/2021.08.17.456680 Cold Spring Harbor Laboratory Press 2021-08-17 <![CDATA[ Modeling Neural Variability in Deep Networks with Dropout ]]> https://biorxiv.org/cgi/content/short/2021.08.19.457035v1?rss=1" Pan, X. Coen-Cagli, R. Schwartz, O. 2021-08-19 doi:10.1101/2021.08.19.457035 Cold Spring Harbor Laboratory Press 2021-08-19 <![CDATA[ Type I PRMTs and PRMT5 Inversely Regulate Post-Transcriptional Intron Detention ]]> https://biorxiv.org/cgi/content/short/2021.08.20.457069v1?rss=1" Maron, M. I. Casill, A. D. Gupta, V. Sidoli, S. Query, C. C. Gamble, M. J. Shechter, D. 2021-08-20 doi:10.1101/2021.08.20.457069 Cold Spring Harbor Laboratory Press 2021-08-20 <![CDATA[ Genotype-specific Features Reduce the Susceptibility of South American Yellow Fever Virus Strains to Vaccine-Induced Antibodies ]]> https://biorxiv.org/cgi/content/short/2021.08.22.457235v1?rss=1" Haslwanter, D. Lasso, G. Wec, A. Z. Furtado, N. D. Raphael, L. M. S. Sun, Y. Stransky, S. Pedreno-Lopez, N. Tse, A. Correia, C. A. Bornholdt, Z. A. Sakharkar, M. Avelino-Silva, V. I. Moyer, C. L. Watkins, D. I. Kallas, E. G. Sidoli, S. Walker, L. M. Bonaldo, M. C. Chandran, K. 2021-08-22 doi:10.1101/2021.08.22.457235 Cold Spring Harbor Laboratory Press 2021-08-22 <![CDATA[ JAK2V617F mutant megakaryocytes contribute to hematopoietic aging in a murine model of myeloproliferative neoplasm ]]> https://biorxiv.org/cgi/content/short/2021.08.24.457582v1?rss=1" Lee, S. Wong, H. Castiglione, M. Murphy, M. Kaushansky, K. Zhan, H. 2021-08-27 doi:10.1101/2021.08.24.457582 Cold Spring Harbor Laboratory Press 2021-08-27 <![CDATA[ Cell competition between wild-type and JAK2V617F mutant cells prevents disease relapse after stem cell transplantation in a murine model of myeloproliferative neoplasm ]]> https://biorxiv.org/cgi/content/short/2021.08.24.457589v1?rss=1" Zhang, H. Castiglione, M. Zheng, L. Zhan, H. 2021-08-26 doi:10.1101/2021.08.24.457589 Cold Spring Harbor Laboratory Press 2021-08-26 <![CDATA[ Disentangling the flow of signals between populations of neurons ]]> https://biorxiv.org/cgi/content/short/2021.08.30.458230v1?rss=1" Gokcen, E. Jasper, A. I. Semedo, J. D. Zandvakili, A. Kohn, A. Machens, C. K. Yu, B. M. 2021-09-01 doi:10.1101/2021.08.30.458230 Cold Spring Harbor Laboratory Press 2021-09-01 <![CDATA[ Multi-omic profiling of histone variant H3.3 lysine 27 methylation reveals a distinct role from canonical H3 in stem cell differentiation ]]> https://biorxiv.org/cgi/content/short/2021.08.31.458429v1?rss=1" Kori, Y. Lund, P. J. Trovato, M. Sidoli, S. Yuan, Z.-F. Noh, K.-M. Garcia, B. A. 2021-09-02 doi:10.1101/2021.08.31.458429 Cold Spring Harbor Laboratory Press 2021-09-02 <![CDATA[ Silencing of hippocampal synaptic transmission impairs spatial reward search on a head-fixed tactile treadmill task ]]> https://biorxiv.org/cgi/content/short/2021.09.03.458092v1?rss=1" Jordan, J. T. Goncalves, J. T. 2021-09-05 doi:10.1101/2021.09.03.458092 Cold Spring Harbor Laboratory Press 2021-09-05 <![CDATA[ Reovirus sensitizes microsatellite stable colorectal cancer to anti-PD-1 treatment via cross-talk in innate and adaptive immune systems ]]> https://biorxiv.org/cgi/content/short/2021.09.03.458915v1?rss=1" Augustine, T. John, P. Friedman, T. Jiffry, J. Guzik, H. Mannan, R. Gupta, R. Delano, C. Mariadason, J. Zang, X. Maitra, R. Goel, S. 2021-09-04 doi:10.1101/2021.09.03.458915 Cold Spring Harbor Laboratory Press 2021-09-04 <![CDATA[ Stabilization of spine Synaptopodin by mGluR1 is required for mGluR-LTD ]]> https://biorxiv.org/cgi/content/short/2021.09.14.460352v1?rss=1" Speranza, L. Inglebert, Y. De Sanctis, C. Wu, P. Y. Kalinowska, M. McKinney, R. A. Francesconi, A. 2021-09-17 doi:10.1101/2021.09.14.460352 Cold Spring Harbor Laboratory Press 2021-09-17 <![CDATA[ Peptide fusion improves prime editing efficiency ]]> https://biorxiv.org/cgi/content/short/2021.09.22.461415v1?rss=1" Velimirovic, M. Zanetti, L. Shen, M. W. Fife, J. D. Lin, L. Cha, M. Akinci, E. Barnum, D. Yu, T. Sherwood, R. I. 2021-09-23 doi:10.1101/2021.09.22.461415 Cold Spring Harbor Laboratory Press 2021-09-23 <![CDATA[ Reovirus infection is regulated by NPC1 and endosomal cholesterol homeostasis ]]> https://biorxiv.org/cgi/content/short/2021.09.27.462002v1?rss=1" Ortega Gonzalez, P. Taylor, G. M. Jangra, R. Tenorio Vela, R. Fernandez de Castro Martin, I. Mainou, B. Orchard, R. Wilen, C. B. Brigleb, P. A. Sojati, J. Chandran, K. Risco, C. Dermody, T. S. 2021-09-28 doi:10.1101/2021.09.27.462002 Cold Spring Harbor Laboratory Press 2021-09-28 <![CDATA[ Neuronal glucose metabolism sets cholinergic tone and controls thermo-regulated signaling at the neuromuscular junction ]]> https://biorxiv.org/cgi/content/short/2021.09.28.462124v1?rss=1" Tang, Y. Zong, H. Kwon, H. Qiu, Y. Pessin, J. B. Wu, L. Buddo, K. A. Boykov, I. Schmidt, C. Lin, C.-T. Neufer, P. D. Schwartz, G. J. Kurland, I. J. Pessin, J. E. 2021-09-30 doi:10.1101/2021.09.28.462124 Cold Spring Harbor Laboratory Press 2021-09-30 <![CDATA[ Cx43 carboxyl terminal domain determines AQP4 and Cx30 endfoot organization and blood brain barrier permeability ]]> https://biorxiv.org/cgi/content/short/2021.09.30.462547v1?rss=1" Cibelli, A. Stout, R. Timmermann, A. de Menezes, L. Guo, P. Maass, K. Seifert, G. Steinhaeuser, C. Spray, D. C. Scemes, E. 2021-10-01 doi:10.1101/2021.09.30.462547 Cold Spring Harbor Laboratory Press 2021-10-01 <![CDATA[ Natural and designed proteins inspired by extremotolerant organisms can form condensates and attenuate apoptosis in human cells ]]> https://biorxiv.org/cgi/content/short/2021.10.01.462432v1?rss=1" Veling, M. T. Nguyen, D. T. Thadani, N. N. Oster, M. E. Rollins, N. J. Brock, K. P. Bethel, N. P. Baker, D. Way, J. C. Marks, D. S. Chang, R. L. Silver, P. A. 2021-10-01 doi:10.1101/2021.10.01.462432 Cold Spring Harbor Laboratory Press 2021-10-01 <![CDATA[ Chi3l1 is a modulator of glioma stem cell states and a therapeutic vulnerability for glioblastoma ]]> https://biorxiv.org/cgi/content/short/2021.10.01.462786v1?rss=1" Guetta-Terrier, C. Karambizi, D. Akosman, B. Chen, J.-S. Kamle, S. Fajardo, J. E. Fiser, A. Singh, R. Toms, S. A. Lee, C. G. Elias, J. A. Tapinos, N. 2021-10-01 doi:10.1101/2021.10.01.462786 Cold Spring Harbor Laboratory Press 2021-10-01 <![CDATA[ SUMM4 complex couples insulator function and DNA replication timingcontrol ]]> https://biorxiv.org/cgi/content/short/2021.10.02.462895v1?rss=1" Andreyeva, E. N. Emelyanov, A. V. Nevil, M. Sun, L. Vershilova, E. Hill, C. A. Keogh, M. C. Duronio, R. J. Skoultchi, A. I. Fyodorov, D. V. 2021-10-03 doi:10.1101/2021.10.02.462895 Cold Spring Harbor Laboratory Press 2021-10-03 <![CDATA[ Neutrophil reverse migration from liver fuels neutrophilic inflammation to tissue injury in Nonalcoholic Steatohepatitis. ]]> https://biorxiv.org/cgi/content/short/2021.10.03.462893v1?rss=1" Feliz Norberto, M. Michael, C. de Oliveira, S. 2021-10-04 doi:10.1101/2021.10.03.462893 Cold Spring Harbor Laboratory Press 2021-10-04 <![CDATA[ PAX3-FOXO1 coordinates enhancer architecture, eRNA transcription, andRNA polymerase pause release at select gene targets ]]> https://biorxiv.org/cgi/content/short/2021.10.03.462944v1?rss=1" Zhang, S. Wang, J. Liu, Q. McDonald, W. H. Bomber, M. Layden, H. Ellis, J. Borinstein, S. Hiebert, S. W. Stengel, K. R. 2021-10-04 doi:10.1101/2021.10.03.462944 Cold Spring Harbor Laboratory Press 2021-10-04 <![CDATA[ Role of EXO1 nuclease activity in genome maintenance, the immune response and tumor suppression in Exo1D173A mice ]]> https://biorxiv.org/cgi/content/short/2021.10.05.463200v1?rss=1" Wang, S. Lee, K. Gray, S. Zhang, Y. Tangcatherin, C. Morrish, R. Tosti, E. van Oers, J. Cohen, P. MacCarthy, T. Roa, S. Scharff, M. D. Edelmann, W. Chahwan, R. 2021-10-05 doi:10.1101/2021.10.05.463200 Cold Spring Harbor Laboratory Press 2021-10-05 <![CDATA[ Retrograde adenosine/A2A receptor signaling mediates presynaptic hippocampal LTP and facilitates epileptic seizures ]]> https://biorxiv.org/cgi/content/short/2021.10.07.463512v1?rss=1" Nasrallah, K. Berthoux, C. Hashimotodani, Y. Chavez, A. E. Gulfo, M. Lujan, R. Castillo, P. E. 2021-10-09 doi:10.1101/2021.10.07.463512 Cold Spring Harbor Laboratory Press 2021-10-09 <![CDATA[ Impact of stimulation location relative to grey and white matter on single pulse electrical stimulation responses in the human brain ]]> https://biorxiv.org/cgi/content/short/2021.10.07.463524v1?rss=1" 15 mm), white matter stimulation consistently produced larger responses than stimulation in or near grey matter. These relationships were different between cingulate, lateral prefrontal, and lateral temporal cortical stimulation. ConclusionThese results demonstrate the importance of location and stimulation parameters in inducing a specific output and indicate that a stronger local response may require stimulation in the grey-white boundary while stimulation in the white matter may be needed for network activation, suggesting that stimulation location can be tailored for a specific outcome, key to informed neuromodulatory therapy. HighlightsO_LIIntracranial single pulse electrical stimulation (SPES) response increases with increased pulse duration mostly near the stimulation site C_LIO_LISPES response varies nonlinearly with injected current with an effect of distance from the stimulation site. C_LIO_LISPES near the grey-white boundary and 90{degrees} to the nearest cortical axis induces larger local responses, but white matter stimulation produces larger distant responses. C_LIO_LIThe relationship between SPES location and responses depends on brain region stimulated C_LI ]]> Paulk, A. C. Zelmann, R. Crocker, B. Widge, A. S. Dougherty, D. D. Eskandar, E. N. Weisholtz, D. S. Richardson, M. Cosgrove, R. Cash, S. S. 2021-10-09 doi:10.1101/2021.10.07.463524 Cold Spring Harbor Laboratory Press 2021-10-09 <![CDATA[ Whole genome sequence analysis of blood lipid levels in >66,000 individuals ]]> https://biorxiv.org/cgi/content/short/2021.10.11.463514v1?rss=1" Selvaraj, M. S. Li, X. Li, Z. Pampana, A. Zhang, D. Y. Park, J. Aslibekyan, S. Bis, J. C. Brody, J. A. Cade, B. E. Chuang, L.-M. Chung, R.-H. Curran, J. E. de las Fuentes, L. de Vries, P. S. Duggirala, R. Freedman, B. I. Graff, M. Guo, X. Heard-Costa, N. Hidalgo, B. Hwu, C.-M. Irvin, M. R. Kelly, T. N. Kral, B. G. Lange, L. Li, X. Lisa, M. Lubitz, S. A. Manichaikul, A. W. Michael, P. Montasser, M. E. Morrison, A. C. Naseri, T. O'Connell, J. R. Palmer, N. D. Peyser, P. A. Reupena, M. S. Smith, J. A. Sun, X. Taylor, K. D. Tracy, R. P. Tsai, M. Y. Wang, 2021-10-12 doi:10.1101/2021.10.11.463514 66,000 individuals]]> Cold Spring Harbor Laboratory Press 2021-10-12 <![CDATA[ Specific N-glycans regulate an extracellular adhesion complex during somatosensory dendrite patterning ]]> https://biorxiv.org/cgi/content/short/2021.10.11.464022v1?rss=1" Bülow, H. E. Rahman, M. Ramirez-Suarez, N. J. Diaz-Balzac, C. A. 2021-10-13 doi:10.1101/2021.10.11.464022 Cold Spring Harbor Laboratory Press 2021-10-13 <![CDATA[ Characterization of Cell-cell Communication in Autistic Brains with Single Cell Transcriptomes ]]> https://biorxiv.org/cgi/content/short/2021.10.15.464577v1?rss=1" Astorkia, M. Lachman, H. Zheng, D. 2021-10-15 doi:10.1101/2021.10.15.464577 Cold Spring Harbor Laboratory Press 2021-10-15 <![CDATA[ Kernel-based genetic association analysis for microbiome phenotypes identifies host genetic drivers of beta-diversity ]]> https://biorxiv.org/cgi/content/short/2021.10.15.464608v1?rss=1" Liu, H. Ling, W. Hua, X. Moon, J.-Y. Williams-Nguyen, J. S. Zhan, X. Plantinga, A. M. Zhao, N. Zhang, A. Knight, R. Qi, Q. Burk, R. D. Kaplan, R. C. Wu, M. C. 2021-10-16 doi:10.1101/2021.10.15.464608 Cold Spring Harbor Laboratory Press 2021-10-16 <![CDATA[ T cell receptor and IL-2 signaling strength control memory CD8+ T cell functional fitness via chromatin remodeling ]]> https://biorxiv.org/cgi/content/short/2021.10.19.464978v1?rss=1" Chin, S. S. Guillen, E. Chorro, L. Achar, S. Oberle, S. Ng, K. Alfei, F. Zehn, D. Altan-Bonnet, G. DELAHAYE, F. Lauvau, G. 2021-10-20 doi:10.1101/2021.10.19.464978 Cold Spring Harbor Laboratory Press 2021-10-20 <![CDATA[ Feature representation under crowding in V1 and V4 neuronal populations ]]> https://biorxiv.org/cgi/content/short/2021.10.21.465350v1?rss=1" Henry, C. A. Kohn, A. 2021-10-23 doi:10.1101/2021.10.21.465350 Cold Spring Harbor Laboratory Press 2021-10-23 <![CDATA[ Excessive fetal growth affects HSC quiescence maintenance through epigenetic programming of EGR1 transcriptional network ]]> https://biorxiv.org/cgi/content/short/2021.10.22.465419v1?rss=1" Pelletier, A. Carrier, A. Zhao, Y. Canouil, M. Derhourhi, M. Durand, E. Berberian-Ferrato, L. Greally, J. Hughes, F. Froguel, P. Bonnefond, A. Delahaye, F. 2021-10-24 doi:10.1101/2021.10.22.465419 Cold Spring Harbor Laboratory Press 2021-10-24 <![CDATA[ Chronic stroke sensorimotor impairment is related to smaller hippocampal volumes: An ENIGMA analysis ]]> https://biorxiv.org/cgi/content/short/2021.10.26.465924v1?rss=1" 180 days post-stroke) compiled from 18 research cohorts worldwide in the ENIGMA Stroke Recovery Working Group (age: median = 61 years, interquartile range = 18, range = 23-93; 135 women and 222 men). Sensorimotor impairment was estimated from the Fugl-Meyer Assessment of Upper Extremity scores. Robust mixed-effects linear models were used to test associations between post-stroke sensorimotor impairment and hippocampal volumes (ipsilesional and contralesional separately; Bonferroni-corrected, p-value < 0.025), controlling for age, sex, lesion volume, and lesioned hemisphere. We also performed an exploratory analysis to test whether sex differences influence the relationship between sensorimotor impairment and hippocampal volume. Upper limb sensorimotor impairment was positively associated with ipsilesional (p = 0.005; d = 0.33) but not contralesional (p = 0.96; d = 0.01) hippocampal volume, such that impairment was worse for participants with smaller ipsilesional hippocampal volume. This association remained significant independent of lesion volume or other covariates (p = 0.001; d = 0.36). Evidence indicates an interaction between sensorimotor impairment and sex for both ipsilesional (p = 0.008; d = -0.29) and contralesional (p = 0.006; d = -0.30) hippocampal volumes, whereby women showed progressively worsening sensorimotor impairment with smaller hippocampal volumes compared to men. The present study has identified a novel association between chronic post-stroke sensorimotor impairment and ipsilesional, but not contralesional, hippocampal volume. This finding was not due to lesion size and may be stronger in women. We also provide supporting evidence that smaller hippocampal volume post-stroke is likely a consequence of ipsilesional damage, which could provide a link between vascular disease and other disorders, such as dementia. ]]> Zavaliangos-Petropulu, A. Lo, B. Donnelly, M. R. Schweighofer, N. Lohse, K. Jahanshad, N. Barisano, G. Banaj, N. Borich, M. R. Boyd, L. A. Buetefisch, C. M. Byblow, W. D. Cassidy, J. M. Charalambous, C. C. Conforto, A. B. DiCarlo, J. A. Dula, A. N. Egorova-Brumley, N. Etherton, M. R. Feng, W. Fercho, K. A. Geranmayeh, F. Hanlon, C. A. Hayward, K. S. Hordacre, B. Kautz, S. A. Khlif, M. S. Kim, H. Kuceyeski, A. Lin, D. J. Lotze, M. Liu, J. MacIntosh, B. J. Margetis, J. L. Piras, F. Ramos-Murguialday, A. Revill, K. P. Roberts, P. S. Robertson, A. D. Schambra 2021-10-28 doi:10.1101/2021.10.26.465924 Cold Spring Harbor Laboratory Press 2021-10-28 <![CDATA[ Cycles of transcription and local translation consolidate Arc protein at dendritic sites ]]> https://biorxiv.org/cgi/content/short/2021.10.29.466479v1?rss=1" Das, S. Lituma, P. J. Castillo, P. E. Singer, R. H. 2021-11-01 doi:10.1101/2021.10.29.466479 Cold Spring Harbor Laboratory Press 2021-11-01 <![CDATA[ Transcriptional burst kinetics are linked to short term transcriptional memory ]]> https://biorxiv.org/cgi/content/short/2021.10.31.466715v1?rss=1" Senecal, A. Singer, R. H. Coleman, R. A. 2021-11-02 doi:10.1101/2021.10.31.466715 Cold Spring Harbor Laboratory Press 2021-11-02 <![CDATA[ Dense granule protein, GRA64 interacts with host cell ESCRT proteins during Toxoplasma gondii infection ]]> https://biorxiv.org/cgi/content/short/2021.11.02.467042v1?rss=1" Mayoral, J. Guevara, R. B. Rivera-Cuevas, Y. Tu, V. Tomita, T. Romano, J. D. Gunther-Cummins, L. Sidoli, S. Coppens, I. Carruthers, V. B. Weiss, L. M. 2021-11-03 doi:10.1101/2021.11.02.467042 Cold Spring Harbor Laboratory Press 2021-11-03 <![CDATA[ Maf1, a repressor of RNA polymerase III-dependent transcription, regulates bone mass ]]> https://biorxiv.org/cgi/content/short/2021.11.09.467887v1?rss=1" Busschers, E. Ahmad, N. Sun, L. Iben, J. R. Walkey, C. J. Rusin, A. Yuen, T. J. Rosen, C. Willis, I. M. Zaidi, M. Johnson, D. L. 2021-11-11 doi:10.1101/2021.11.09.467887 Cold Spring Harbor Laboratory Press 2021-11-11 <![CDATA[ Transcriptional regulation of neonatal neural stem cells is a determinant of social behavior ]]> https://biorxiv.org/cgi/content/short/2021.11.12.468452v1?rss=1" Hiramoto, T. Boku, S. Kang, G. Abe, S. Barbachan e Silva, M. Tanigaki, K. Nagashima, M. Ye, K. Yamauchi, T. Michurina, T. V. O Broin, P. Enikolopov, G. Hiroi, N. 2021-11-13 doi:10.1101/2021.11.12.468452 Cold Spring Harbor Laboratory Press 2021-11-13 <![CDATA[ Learning a new class of multisensory associations: High-density electrophysiological mapping of the temporal course of audio-visual object processing. ]]> https://biorxiv.org/cgi/content/short/2021.11.15.468657v1?rss=1" 250 ms) that appears to be involved in both object recognition and possibly memory consolidation. Results from this study provide support for multiple stages of multisensory object learning and recognition that are subserved by an extended network of cortical areas. ]]> Vercillo, T. Freedman, E. G. Ewen, J. B. Molholm, S. Foxe, J. J. 2021-11-15 doi:10.1101/2021.11.15.468657 Cold Spring Harbor Laboratory Press 2021-11-15 <![CDATA[ SARS-CoV-2 papain-like protease PLpro in complex with natural compounds reveal allosteric sites for antiviral drug design ]]> https://biorxiv.org/cgi/content/short/2021.11.17.468943v1?rss=1" Srinivasan, V. Brognaro, H. Prabhu, P. R. de Souza, E. E. Guenther, S. Reinke, P. Y. A. J. Lane, T. Ginn, H. Han, H. Ewert, W. Sprenger, J. Koua, F. H. M. Falke, S. Werner, N. Andaleeb, H. Ullah, N. Alves Franca, B. Wang, M. Luana C Barra, A. Perbandt, M. Schwinzer, M. Schmidt, C. Brings, L. Lorenzen, K. Schubert, R. Rahal Guaragna Machado, R. Donizette Candido, E. Bruna Leal Oliveira, D. Luiz Durigon, E. Yefanov, O. Lieske, J. Gelisio, L. Domaracky, M. Middendorf, P. Groessler, M. Trost, F. Galchenkova, M. Saouane, S. Hakanpaeae, J. Wolf, M. Turk, D. P 2021-11-22 doi:10.1101/2021.11.17.468943 Cold Spring Harbor Laboratory Press 2021-11-22 <![CDATA[ A dual voltage clamp technique to study gap junction hemichannels in astrocytes cultured from neonatal rodent spinal cords ]]> https://biorxiv.org/cgi/content/short/2021.11.20.469295v1?rss=1" Garre, J. M. Bukauskas, F. F. Bennett, M. V. 2021-11-22 doi:10.1101/2021.11.20.469295 Cold Spring Harbor Laboratory Press 2021-11-22 <![CDATA[ Meisosomes, folded membrane platforms, link the epidermis to the cuticle in C. elegans ]]> https://biorxiv.org/cgi/content/short/2021.11.26.470028v1?rss=1" Aggad, D. Omi, S. Essmann, C. L. Brouilly, N. Richard, F. Cazevieille, C. Politi, K. A. Hall, D. D. Ewbank, J. Pujol, R. Pujol, N. 2021-11-26 doi:10.1101/2021.11.26.470028 Cold Spring Harbor Laboratory Press 2021-11-26 <![CDATA[ Global analysis of human-to-mouse intercellular RNA transfer in cell culture ]]> https://biorxiv.org/cgi/content/short/2021.11.28.470233v1?rss=1" View larger version (44K): org.highwire.dtl.DTLVardef@13a7176org.highwire.dtl.DTLVardef@1ef1c75org.highwire.dtl.DTLVardef@1355eeforg.highwire.dtl.DTLVardef@ebc275_HPS_FORMAT_FIGEXP M_FIG C_FIG ]]> Dasgupta, S. Dyagi, D. Y. Haimovich, G. Wyler, E. Olender, T. Singer, R. H. Landthaler, M. Gerst, J. E. 2021-11-28 doi:10.1101/2021.11.28.470233 Cold Spring Harbor Laboratory Press 2021-11-28 <![CDATA[ Bet-hedging antimicrobial strategies in macrophage phagosome acidification drive the dynamics of Cryptococcus neoformans intracellular escape mechanisms ]]> https://biorxiv.org/cgi/content/short/2021.11.29.470444v1?rss=1" Dragotakes, Q. Jacobs, E. Ramirez, L. S. Yoon, O. I. Perez-Stable, C. Eden, H. Pagnotta, J. Vij, R. Bergman, A. D'Alessio, F. Casadevall, A. 2021-11-29 doi:10.1101/2021.11.29.470444 Cold Spring Harbor Laboratory Press 2021-11-29 <![CDATA[ Using coexpression to explore cell-type diversity with the fcoex package ]]> https://biorxiv.org/cgi/content/short/2021.12.07.471603v1?rss=1" Lubiana, T. Nakaya, H. 2021-12-09 doi:10.1101/2021.12.07.471603 Cold Spring Harbor Laboratory Press 2021-12-09 <![CDATA[ MacroH2A impedes metastatic growth by enforcing a discrete dormancy program in disseminated cancer cells ]]> https://biorxiv.org/cgi/content/short/2021.12.07.471619v1?rss=1" Sun, D. Filipescu, D. Hasson, D. Singh, D. K. Carcamo, S. Khalil, B. Miles, B. Westra, W. Sproll, K. C. Bernstein, E. Aguirre-Ghiso, J. A. 2021-12-07 doi:10.1101/2021.12.07.471619 Cold Spring Harbor Laboratory Press 2021-12-07 <![CDATA[ Modeling diverse genetic subtypes of lung adenocarcinoma with a next-generation alveolar type 2 organoid platform ]]> https://biorxiv.org/cgi/content/short/2021.12.07.471632v1?rss=1" Naranjo, S. Cabana, C. M. LaFave, L. M. Westcott, P. M. Romero, R. Ghosh, A. Liao, L. Z. Schenkel, J. M. Del Priore, I. Bhutkar, A. Yang, D. Jacks, T. 2021-12-07 doi:10.1101/2021.12.07.471632 Cold Spring Harbor Laboratory Press 2021-12-07 <![CDATA[ Antagonism of D1, but not D2, dopamine receptors inhibits cued sucrose seeking by decreasing arousal ]]> https://biorxiv.org/cgi/content/short/2021.12.08.471650v1?rss=1" Kazmierczak, M. Nicola, S. M. 2021-12-09 doi:10.1101/2021.12.08.471650 Cold Spring Harbor Laboratory Press 2021-12-09 <![CDATA[ A genetic disorder reveals a hematopoietic stem cell regulatory network co-opted in leukemia ]]> https://biorxiv.org/cgi/content/short/2021.12.09.471942v1?rss=1" Voit, R. A. Tao, L. Yu, F. Cato, L. D. Cohen, B. Liao, X. Fiorini, C. Nandakumar, S. K. Wahlster, L. Teichert, K. Regev, A. Sankaran, V. G. 2021-12-09 doi:10.1101/2021.12.09.471942 Cold Spring Harbor Laboratory Press 2021-12-09 <![CDATA[ Clonal hematopoiesis is driven by aberrant activation of TCL1A ]]> https://biorxiv.org/cgi/content/short/2021.12.10.471810v1?rss=1" Weinstock, J. S. Gopakumar, J. Burugula, B. B. Uddin, M. M. Jahn, N. Belk, J. A. Daniel, B. Ly, N. Mack, T. M. Laurie, C. A. Broome, J. G. Taylor, K. D. Guo, X. Sinner, M. F. von Falkenhausen, A. S. Kaab, S. Shuldiner, A. R. O'Connell, J. R. Lewis, J. P. Boerwinkle, E. Barnes, K. C. Chami, N. Kenny, E. E. Loos, R. J. F. Fornage, M. Hou, L. Lloyd-Jones, D. M. Redline, S. Cade, B. E. Psaty, B. M. Bis, J. C. Brody, J. A. Silverman, E. K. Yun, J. H. Qiao, D. Palmer, N. D. Freedman, B. I. Bowden, D. W. Cho, M. H. DeMeo, D. L. Vasan, R. S. Johnson, A. D. Mat 2021-12-13 doi:10.1101/2021.12.10.471810 Cold Spring Harbor Laboratory Press 2021-12-13 <![CDATA[ Evolution of plasmid mobility: origin and fate of non-conjugative plasmids ]]> https://biorxiv.org/cgi/content/short/2021.12.10.472114v1?rss=1" Coluzzi, C. Garcillan-Barcia, M. d. P. de la Cruz, F. Rocha, E. P. C. 2021-12-11 doi:10.1101/2021.12.10.472114 Cold Spring Harbor Laboratory Press 2021-12-11 <![CDATA[ A rare human centenarian variant of SIRT6 enhances genome stability and interaction with Lamin A ]]> https://biorxiv.org/cgi/content/short/2021.12.13.472381v1?rss=1" Gorbunova, V. Simon, M. Trombline, G. Yang, J. Earley, E. J. Zhang, L. Gigas, J. Zagorulya, M. Gilbert, M. Robbins, P. D. Vijg, J. Seluanov, A. Suh, Y. Garcia, B. Thomas, D. D. Yuen, S. L. Pope, A. Van Meter, M. Emmrich, S. Moody, K. Barzilai, N. Wolfe, A. Atzmon, G. Schaff, T. M. 2021-12-13 doi:10.1101/2021.12.13.472381 Cold Spring Harbor Laboratory Press 2021-12-13 <![CDATA[ Neural signature of everyday function in older adults at-risk of cognitive impairment ]]> https://biorxiv.org/cgi/content/short/2021.12.16.472826v1?rss=1" De Sanctis, P. Wagner, J. Molholm, S. Foxe, J. J. Blumen, H. Horsthuis, D. 2021-12-17 doi:10.1101/2021.12.16.472826 Cold Spring Harbor Laboratory Press 2021-12-17 <![CDATA[ Real-time imaging of Arc/Arg3.1 transcription ex vivo reveals input-specific immediate early gene dynamics ]]> https://biorxiv.org/cgi/content/short/2021.12.16.472958v1?rss=1" Lituma, P. J. Singer, R. H. Das, S. Castillo, P. E. 2021-12-17 doi:10.1101/2021.12.16.472958 Cold Spring Harbor Laboratory Press 2021-12-17 <![CDATA[ Interleukin 4 controls the role of macrophages in pulmonary metastatic tumor cell seeding and growth ]]> https://biorxiv.org/cgi/content/short/2021.12.28.474388v1?rss=1" Rodriguez-Tirado, C. A. Entenberg, D. Li, J. Qian, B.-Z. Condeelis, J. S. Pollard, J. W. 2021-12-29 doi:10.1101/2021.12.28.474388 Cold Spring Harbor Laboratory Press 2021-12-29 <![CDATA[ A transient apical extracellular matrix relays cytoskeletal patterns to shape permanent acellular ridges on the surface of adult C. elegans ]]> https://biorxiv.org/cgi/content/short/2021.12.28.474392v1?rss=1" Katz, S. S. Barker, T. J. Maul-Newby, H. M. Sparacio, A. P. Nguyen, K. C. Q. Maybrun, C. L. Belfi, A. Cohen, J. D. Hall, D. H. Sundaram, M. V. Frand, A. R. 2021-12-29 doi:10.1101/2021.12.28.474392 Cold Spring Harbor Laboratory Press 2021-12-29 <![CDATA[ BDNF-induced BDNF release mediates presynaptic LTP and is regulated by cannabinoids ]]> https://biorxiv.org/cgi/content/short/2021.12.30.474558v1?rss=1" Berthoux, C. Nasrallah, K. Castillo, P. E. 2021-12-30 doi:10.1101/2021.12.30.474558 Cold Spring Harbor Laboratory Press 2021-12-30 <![CDATA[ The synaptic organization in the C. elegans neural network suggests significant local compartmentalized computations ]]> https://biorxiv.org/cgi/content/short/2021.12.30.474568v1?rss=1" Ruach, R. Ratner, N. Emmons, S. W. Zaslaver, A. 2022-01-01 doi:10.1101/2021.12.30.474568 Cold Spring Harbor Laboratory Press 2022-01-01 <![CDATA[ Glutamine is required for M1-like polarization in response to Mycobacterium tuberculosis infection ]]> https://biorxiv.org/cgi/content/short/2022.01.11.475775v1?rss=1" Shi, L. Jiang, Q. Qiu, Y. Kurland, I. J. Drlica, K. Subbian, S. Tyagi, S. 2022-01-11 doi:10.1101/2022.01.11.475775 Cold Spring Harbor Laboratory Press 2022-01-11 <![CDATA[ Epigenetic dysregulation from chromosomal transit in micronuclei ]]> https://biorxiv.org/cgi/content/short/2022.01.12.475944v1?rss=1" Agustinus, A. Raviram, R. Dameracharla, B. Luebeck, J. Stransky, S. Scipioni, L. Myers, R. DiBona, M. Duran, M. Weigelt, B. Yomtoubian, S. Toufektchan, E. Mischel, P. Mittal, V. Shah, S. Maciejowski, J. Gratton, E. Ly, P. Bakhoum, M. Landau, D. Bafna, V. Sidoli, S. David, Y. Bakhoum, S. F. 2022-01-12 doi:10.1101/2022.01.12.475944 Cold Spring Harbor Laboratory Press 2022-01-12 <![CDATA[ Heterosynaptic NMDA Receptor Plasticity in Hippocampal Dentate Granule Cells ]]> https://biorxiv.org/cgi/content/short/2022.01.12.476040v1?rss=1" Rodenas-Ruano, A. Nasrallah, K. Lutzu, S. Castillo, M. Castillo, P. E. 2022-01-12 doi:10.1101/2022.01.12.476040 Cold Spring Harbor Laboratory Press 2022-01-12 <![CDATA[ Phenotypic Pliancy and the Breakdown of Epigenetic Polycomb Mechanisms ]]> https://biorxiv.org/cgi/content/short/2022.01.18.476783v1?rss=1" Lambros, L. Sella, Y. Bergman, A. 2022-01-20 doi:10.1101/2022.01.18.476783 Cold Spring Harbor Laboratory Press 2022-01-20 <![CDATA[ Replicative Aging Remodels Cell Wall and is Associated with Increased Intracellular Trafficking in Human Pathogenic Yeasts ]]> https://biorxiv.org/cgi/content/short/2022.01.25.477803v1?rss=1" Silva, V. K. A. Bhattacharya, S. Oliveira, N. K. Savitt, A. G. Zamith-Miranda, D. Nosanchuk, J. D. Fries, B. C. 2022-01-26 doi:10.1101/2022.01.25.477803 Cold Spring Harbor Laboratory Press 2022-01-26 <![CDATA[ Blood flow modeling under LVAD physiology. From global circulation to local hemodynamics ]]> https://biorxiv.org/cgi/content/short/2022.01.28.478161v1?rss=1" Blanco, P. J. Grinstein, J. Bulant, C. A. Torii, R. Bourantas, C. Lemos, P. Garcia-Garcia, H. 2022-01-28 doi:10.1101/2022.01.28.478161 Cold Spring Harbor Laboratory Press 2022-01-28 <![CDATA[ Making sense of disorder: Investigating intrinsically disordered proteins in the tardigrade proteome via a computational approach ]]> https://biorxiv.org/cgi/content/short/2022.01.29.478329v1?rss=1" Lowe, N. E. Chang, R. L. 2022-01-31 doi:10.1101/2022.01.29.478329 Cold Spring Harbor Laboratory Press 2022-01-31 <![CDATA[ An improved MS2-MCP imaging system with minimal perturbation of mRNA stability ]]> https://biorxiv.org/cgi/content/short/2022.02.05.479257v1?rss=1" Li, W. Maekiniemi, A. Sato, H. Osman, C. Singer, R. H. 2022-02-06 doi:10.1101/2022.02.05.479257 Cold Spring Harbor Laboratory Press 2022-02-06 <![CDATA[ Functional geometry of auditory cortical resting state networks derived from intracranial electrophysiology ]]> https://biorxiv.org/cgi/content/short/2022.02.06.479292v1?rss=1" Banks, M. I. Krause, B. M. Berger, D. G. Campbell, D. I. Boes, A. D. Bruss, J. E. Kovach, C. K. Kawasaki, H. Steinschneider, M. Nourski, K. V. 2022-02-09 doi:10.1101/2022.02.06.479292 Cold Spring Harbor Laboratory Press 2022-02-09 <![CDATA[ Neurobeachin controls the asymmetric subcellular distribution of electrical synapse proteins ]]> https://biorxiv.org/cgi/content/short/2022.02.07.479472v1?rss=1" Martin, E. A. Michel, J. C. Kissinger, J. S. Echeverry, F. A. Lin, Y.-P. O'Brien, J. Pereda, A. E. Miller, A. C. 2022-02-10 doi:10.1101/2022.02.07.479472 Cold Spring Harbor Laboratory Press 2022-02-10 <![CDATA[ Neurophysiological Measures Of Auditory Sensory Processing Are Associated With Adaptive Behavior In Children With Autism Spectrum Disorder ]]> https://biorxiv.org/cgi/content/short/2022.02.11.480113v1?rss=1" Cotter, M. Tikir, S. Francisco, A. A. Oakes, L. Crosse, M. J. Foxe, J. J. Molholm, S. 2022-02-14 doi:10.1101/2022.02.11.480113 Cold Spring Harbor Laboratory Press 2022-02-14 <![CDATA[ scShapes: A statistical framework for identifying distribution shapes in single-cell RNA-sequencing data ]]> https://biorxiv.org/cgi/content/short/2022.02.13.480299v1?rss=1" Dharmaratne, M. Kulkarni, A. S. Taherian Fard, A. Mar, J. C. 2022-02-15 doi:10.1101/2022.02.13.480299 Cold Spring Harbor Laboratory Press 2022-02-15 <![CDATA[ Neural correlates of multisensory enhancement in audiovisual narrative speech perception: a fMRI investigation ]]> https://biorxiv.org/cgi/content/short/2022.02.14.480408v1?rss=1" Ross, L. A. Molholm, S. Butler, J. S. Del Bene, V. A. Foxe, J. J. 2022-02-15 doi:10.1101/2022.02.14.480408 Cold Spring Harbor Laboratory Press 2022-02-15 <![CDATA[ Highly efficient generation of isogenic pluripotent stem cell models using prime editing ]]> https://biorxiv.org/cgi/content/short/2022.02.15.480601v1?rss=1" Li, H. Busquets, O. Verma, Y. Syed, K. M. Kutnowski, N. Pangilinan, G. R. Gilbert, L. Bateup, H. Rio, D. C. Hockemeyer, D. Soldner, F. 2022-02-15 doi:10.1101/2022.02.15.480601 Cold Spring Harbor Laboratory Press 2022-02-15 <![CDATA[ Increased Relative Biological Effectiveness of Orthovoltage X-rays Compared to γ-rays in Preclinical Irradiation ]]> https://biorxiv.org/cgi/content/short/2022.02.18.480594v1?rss=1" Bell, B. I. Vercellino, J. Brodin, N. P. Velten, C. Nanduri, L. S. Y. Tanaka, K. E. Fang, Y. Wang, Y. Macedo, R. English, J. Schumacher, M. M. Duddempudi, P. K. Asp, P. Koba, W. Shajahan, S. Liu, L. Tome, W. Yang, W.-L. Kolesnick, R. Guha, C. 2022-02-20 doi:10.1101/2022.02.18.480594 Cold Spring Harbor Laboratory Press 2022-02-20 <![CDATA[ Urocortin-3 neurons in the perifornical area mediate the impact of chronic stress on female infant-directed behavior ]]> https://biorxiv.org/cgi/content/short/2022.02.19.481074v1?rss=1" Autry, A. E. Abdelmesih, B. Carta, I. Anderson, R. 2022-02-20 doi:10.1101/2022.02.19.481074 Cold Spring Harbor Laboratory Press 2022-02-20 <![CDATA[ Granulocyte Colony Stimulating Factor causes cerebellar deficits and anxiety in a mouse model of CSF-1 receptor-related leukoencephalopathy ]]> https://biorxiv.org/cgi/content/short/2022.02.21.481325v1?rss=1" Stanley, E. R. Biundo, F. Chitu, V. Tindi, J. Burghardt, N. S. Shlager, G. G. L. Ketchum, H. C. DeTure, M. A. Dickson, D. W. Wszolek, Z. K. Khodakhah, K. 2022-02-22 doi:10.1101/2022.02.21.481325 Cold Spring Harbor Laboratory Press 2022-02-22 <![CDATA[ Activity of the manganese efflux transporter SLC30A10 in dopaminergic but not GABAergic neurons protects against neurotoxicity ]]> https://biorxiv.org/cgi/content/short/2022.02.21.481385v1?rss=1" Taylor, C. A. Grant, S. Jursa, T. Aschner, M. Smith, D. R. Gonzales, R. Mukhopadhyay, S. 2022-02-22 doi:10.1101/2022.02.21.481385 Cold Spring Harbor Laboratory Press 2022-02-22 <![CDATA[ Kinesin-8-specific loop-2 controls the dual activities of the motor domain according to tubulin protofilament shape ]]> https://biorxiv.org/cgi/content/short/2022.02.28.480783v1?rss=1" Hunter, B. Benoit, M. P. M. H. Asenjo, A. B. Doubleday, C. Daria, T. Sosa, H. S. Allingham, J. S. 2022-02-28 doi:10.1101/2022.02.28.480783 Cold Spring Harbor Laboratory Press 2022-02-28 <![CDATA[ Cyclin CLB2 mRNA localization determines efficient protein synthesis to orchestrate bud growth and cell cycle progression ]]> https://biorxiv.org/cgi/content/short/2022.03.01.481833v1?rss=1" Tutucci, E. Maekiniemi, A. Snoep, J. L. Seiler, M. van Rossum, K. van Niekerk, D. D. Savakis, P. Zarnack, K. Singer, R. H. 2022-03-02 doi:10.1101/2022.03.01.481833 Cold Spring Harbor Laboratory Press 2022-03-02 <![CDATA[ Activation of targetable inflammatory immune signaling is seen in Myelodysplastic Syndromes with SF3B1 mutations ]]> https://biorxiv.org/cgi/content/short/2022.03.09.483595v1?rss=1" Choudhary, G. Pellagatti, A. Agianian, B. Smith, M. Bhagat, T. D. Gordon-Mitchell, S. Pandey, S. Shah, N. Aluri, S. Schwartz, L. Steeples, V. Booher, R. Ramachandra, M. Samson, M. Carbajal, M. Pradhan, K. Bowman, T. Pillai, M. M. Will, B. Wickrema, A. Shastri, A. Bradley, R. K. Martell, R. E. Steidl, U. Gavathiotis, E. Boultwood, J. Starczynowski, D. T. Verma, A. 2022-03-09 doi:10.1101/2022.03.09.483595 Cold Spring Harbor Laboratory Press 2022-03-09 <![CDATA[ Characterization of Morreton Virus (MORV) as a Novel Oncolytic Virotherapy Platform for Liver Cancers ]]> https://biorxiv.org/cgi/content/short/2022.03.10.483848v1?rss=1" Nagalo, B. M. Zhou, Y. Loeuillard, E. L. Dumbauld, C. Barro, O. Elliott, N. Baker, A. T. Arora, M. Bogenberger, J. M. Meurice, N. Petit, J. Uson Junior, P. L. S. Aslam, F. Chamcheu, J. C. Simoes, C. C. Cannon, M. Basnakian, A. G. Post, S. R. Barrett, M. T. Duda, D. G. Jacobs, B. Vile, R. Barry, M. A. Roberts, L. Lyas, S. I. Borad, M. 2022-03-11 doi:10.1101/2022.03.10.483848 Cold Spring Harbor Laboratory Press 2022-03-11 <![CDATA[ Enhanced Astrocyte Responses are Driven by a Genetic Risk Allele Associated with Multiple Sclerosis ]]> https://biorxiv.org/cgi/content/short/206110v1?rss=1" Ponath, G. Lincoln, M. R. Dahlawi, S. Mubarak, M. Sumida, T. Arias, L. Zhang, S. Isitan, C. Nguyen, T. D. Raine, C. S. Hafler, D. A. Pitt, D. 2017-10-19 doi:10.1101/206110 Cold Spring Harbor Laboratory Press 2017-10-19 <![CDATA[ Cryo-EM Reveals the Structural Basis of Microtubule Depolymerization by Kinesin-13s ]]> https://biorxiv.org/cgi/content/short/206268v1?rss=1" Benoit, M. P. M. H. Asenjo, A. B. Sosa, H. 2017-10-19 doi:10.1101/206268 Cold Spring Harbor Laboratory Press 2017-10-19 <![CDATA[ Integrin alpha 4/beta 1 (CD49d/CD29) is a component of the murine IgG3 receptor ]]> https://biorxiv.org/cgi/content/short/207274v1?rss=1" Hawk, C. S. Coelho, C. de Oliveira, D. S. L. Paredes, V. Albuquerque, P. Bocca, A. L. dos Santos, A. C. Rusakova, V. Holemon, H. Felipe, M. S. S. Yagita, H. Nicola, A. M. Casadevall, A. 2017-10-21 doi:10.1101/207274 Cold Spring Harbor Laboratory Press 2017-10-21 <![CDATA[ Listeria monocytogenes virulence factors are secreted in biologically active Extracellular Vesicles ]]> https://biorxiv.org/cgi/content/short/210906v1?rss=1" Coelho, C. Brown, L. Maryam, M. Burnet, M. C. Kyle, J. E. Heyman, H. M. Prados-Rosales, R. Lauvau, G. Nakayasu, E. S. Brady, N. R. Brady, A. Coppens, I. Casadevall, A. 2017-10-29 doi:10.1101/210906 Cold Spring Harbor Laboratory Press 2017-10-29 <![CDATA[ Intestinal crypts recover rapidly from focal damage with coordinated motion of stem cells that is impaired by aging ]]> https://biorxiv.org/cgi/content/short/218685v1?rss=1" Choi, J. Rakhilin, N. Gadamsetty, P. Joe, D. J. Tabrizian, T. Lipkin, S. M. Huffman, D. Shen, X. Nishimura, N. 2017-11-13 doi:10.1101/218685 Cold Spring Harbor Laboratory Press 2017-11-13 <![CDATA[ Generalizing Genetic Risk Scores from Europeans to Hispanics/Latinos ]]> https://biorxiv.org/cgi/content/short/242404v1?rss=1" Grinde, K. E. Qi, Q. Thornton, T. A. Liu, S. Shadyab, A. H. Chan, K. H. K. Reiner, A. P. Sofer, T. 2018-01-04 doi:10.1101/242404 Cold Spring Harbor Laboratory Press 2018-01-04 <![CDATA[ Insights from deconvolution of cell subtype proportions enhance the interpretation of functional genomic data. ]]> https://biorxiv.org/cgi/content/short/254441v1?rss=1" Kong, Y. Rastogi, D. Seoighe, C. Greally, J. M. Suzuki, M. 2018-01-26 doi:10.1101/254441 Cold Spring Harbor Laboratory Press 2018-01-26 <![CDATA[ Aberrant mast cell activation promotes chronic recurrent multifocal osteomyelitis ]]> https://biorxiv.org/cgi/content/short/259275v1?rss=1" Lee, J. H. P. Sharma, N. Young, S. Chitu, V. Henkelman, M. Neumeister, V. Sohr, E. Stanley, E. R. Hedrich, C. M. Craig, A. 2018-02-16 doi:10.1101/259275 Cold Spring Harbor Laboratory Press 2018-02-16 <![CDATA[ HLA-B*39:06 Efficiently Mediates Type 1 Diabetes in a Mouse Model Incorporating Reduced Thymic Insulin Expression ]]> https://biorxiv.org/cgi/content/short/264531v1?rss=1" Schloss, J. Ali, R. Racine, J. J. Chapman, H. Serreze, D. DiLorenzo, T. 2018-02-13 doi:10.1101/264531 Cold Spring Harbor Laboratory Press 2018-02-13 <![CDATA[ Serum-mediated cleavage of Bacillus anthracis Protective Antigen is a two-step process that involves a serum carboxypeptidase ]]> https://biorxiv.org/cgi/content/short/267369v1?rss=1" Goldman, D. L. Nieves, E. Nakouzi, A. Rivera, J. Phyu, E. E. Win, T. H. Achkar, J. Casadevall, A. 2018-02-18 doi:10.1101/267369 Cold Spring Harbor Laboratory Press 2018-02-18 <![CDATA[ SMARTcleaner: identify and clean off-target signals in SMART ChIP-seq analysis ]]> https://biorxiv.org/cgi/content/short/269365v1?rss=1" Zhao, D. Zheng, D. 2018-02-21 doi:10.1101/269365 Cold Spring Harbor Laboratory Press 2018-02-21 <![CDATA[ Intermediate filaments EXC-2 and IFA-4 Maintain Luminal Structure of the Tubular Excretory Canals in Caenorhabditis elegans ]]> https://biorxiv.org/cgi/content/short/277111v1?rss=1" Al-Hashimi, H. I. Hall, D. H. Ackley, B. D. Lundquist, E. A. Buechner, M. 2018-03-06 doi:10.1101/277111 Cold Spring Harbor Laboratory Press 2018-03-06 <![CDATA[ Heparan sulfate molecules mediate synapse formation and function of male mating neural circuits in C. elegans ]]> https://biorxiv.org/cgi/content/short/277137v1?rss=1" Lazaro-Pena, M. I. Diaz-Balzac, C. A. Buelow, H. E. Emmons, S. 2018-03-06 doi:10.1101/277137 Cold Spring Harbor Laboratory Press 2018-03-06 <![CDATA[ Single-step Enzymatic Glycoengineering for the Construction of Antibody-cell Conjugates ]]> https://biorxiv.org/cgi/content/short/279240v1?rss=1" Li, J. Chen, M. Liu, Z. Zhang, L. Felding, B. H. Lauvau, G. Abadier, M. Ley, K. Wu, P. 2018-03-10 doi:10.1101/279240 Cold Spring Harbor Laboratory Press 2018-03-10 <![CDATA[ A direct glia-to-neuron natural transdifferentiation ensures nimble sensory-motor coordination of male mating behaviour ]]> https://biorxiv.org/cgi/content/short/285320v1?rss=1" Molina-Garcia, L. Cook, S. J. Kim, B. Bonnington, R. Sammut, M. O'Shea, J. Elliott, D. Hall, D. H. Emmons, S. Barrios, A. Poole, R. J. 2018-03-21 doi:10.1101/285320 Cold Spring Harbor Laboratory Press 2018-03-21 <![CDATA[ Processing of Auditory Novelty Across the Cortical Hierarchy: An Intracranial Electrophysiology Study ]]> https://biorxiv.org/cgi/content/short/290106v1?rss=1" Nourski, K. V. Steinschneider, M. Rhone, A. E. Kawasaki, H. Howard, M. A. Banks, M. I. 2018-03-27 doi:10.1101/290106 Cold Spring Harbor Laboratory Press 2018-03-27 <![CDATA[ The histone demethylase KDM5 is essential for larval growth in Drosophila ]]> https://biorxiv.org/cgi/content/short/297804v1?rss=1" Secombe, J. Drelon, C. Belalcazar, H. M. 2018-04-09 doi:10.1101/297804 Cold Spring Harbor Laboratory Press 2018-04-09 <![CDATA[ Direct Small Molecule Activation of Mitofusins ]]> https://biorxiv.org/cgi/content/short/301713v1?rss=1" Zacharioudakis, E. Biris, N. Garner, T. Chen, Y. Pekson, R. Dhingra, R. Santulli, G. Kirshenbaum, L. Kitsis, R. Gavathiotis, E. 2018-04-17 doi:10.1101/301713 Cold Spring Harbor Laboratory Press 2018-04-17 <![CDATA[ A novel sialylation site on Neisseria gonorrhoeae lipooligosaccharide links heptose II lactose expression with pathogenicity ]]> https://biorxiv.org/cgi/content/short/302968v1?rss=1" Ram, S. Gulati, S. Lewis, L. A. Chakraborti, S. Zheng, B. DeOliveira, R. B. Reed, G. W. Cox, A. D. Li, J. St. Michael, F. Stupak, J. Su, X.-H. Saha, S. Landig, C. S. Varki, A. RICE, P. A. 2018-04-17 doi:10.1101/302968 Cold Spring Harbor Laboratory Press 2018-04-17 <![CDATA[ A novel approach to modeling transcriptional heterogeneity identifies the oncogene candidate CBX2 in invasive breast carcinoma ]]> https://biorxiv.org/cgi/content/short/303396v1?rss=1" Pique, D. Montagna, C. Greally, J. Mar, J. 2018-04-20 doi:10.1101/303396 Cold Spring Harbor Laboratory Press 2018-04-20 <![CDATA[ Synthesis and degradation of FtsZ determines the first cell division in starved bacteria ]]> https://biorxiv.org/cgi/content/short/314922v1?rss=1" Sekar, K. Rusconi, R. Fuhrer, T. Noor, E. Nguyen, J. Fernandez, V. I. Buffing, M. F. Berney, M. Stocker, R. Sauer, U. 2018-05-04 doi:10.1101/314922 Cold Spring Harbor Laboratory Press 2018-05-04 <![CDATA[ Clustering of Type 2 Diabetes Genetic Loci by Multi-Trait Associations Identifies Disease Mechanisms and Subtypes ]]> https://biorxiv.org/cgi/content/short/319509v1?rss=1" Udler, M. S. Kim, J. von Grotthuss, M. Bonas-Guarch, S. Mercader, J. M. Cole, J. B. Chiou, J. Anderson, C. D. Boehnke, M. Laakso, M. Atzmon, G. Glaser, B. Gaulton, K. Flannick, J. Getz, G. Florez, J. C. 2018-05-10 doi:10.1101/319509 Cold Spring Harbor Laboratory Press 2018-05-10 <![CDATA[ Discovery of a novel stereospecific β-hydroxyacyl-CoA lyase/thioesterase shared by three metabolic pathways in Mycobacterium tuberculosis ]]> https://biorxiv.org/cgi/content/short/322404v1?rss=1" Wang, H. Fedorov, A. A. Fedorov, E. V. Hunt, D. M. Rodgers, A. Garza-Garcia, A. Bonanno, J. B. Almo, S. C. Carvalho, L. P. 2018-05-15 doi:10.1101/322404 Cold Spring Harbor Laboratory Press 2018-05-15 <![CDATA[ Regulated nuclear accumulation of a histone methyltransferase times the onset of heterochromatin formation in C. elegans embryos ]]> https://biorxiv.org/cgi/content/short/326231v1?rss=1" Mutlu, B. Chen, H.-M. Moresco, J. J. Orelo, B. D. Yang, B. Gaspar, J. M. Keppler-Ross, S. Yates, J. R. Hall, D. H. Maine, E. M. Mango, S. E. 2018-05-18 doi:10.1101/326231 Cold Spring Harbor Laboratory Press 2018-05-18 <![CDATA[ A novel approach of human geroprotector discovery by targeting the converging subnetworks of aging and age-related diseases ]]> https://biorxiv.org/cgi/content/short/326264v1?rss=1" Yang, J. Zhang, B. Houten, S. Schadt, E. Zhu, J. Suh, Y. Tu, Z. 2018-05-19 doi:10.1101/326264 Cold Spring Harbor Laboratory Press 2018-05-19 <![CDATA[ Susceptibility to Neutralization by Broadly Neutralizing Antibodies Correlates with Infected Cell Binding for a Panel of Clade B HIV Reactivated from Latent Reservoirs ]]> https://biorxiv.org/cgi/content/short/330894v1?rss=1" Ren, Y. Korom, M. Truong, R. Chan, D. Huang, S.-h. Kovacs, C. Benko, E. Safrit, J. T. Lee, J. Garban, H. Apps, R. Goldstein, H. Lynch, R. M. Jones, R. B. 2018-05-25 doi:10.1101/330894 Cold Spring Harbor Laboratory Press 2018-05-25 <![CDATA[ Re-targeting of macroH2A following mitosis to cytogenetic-scale heterochromatic domains ]]> https://biorxiv.org/cgi/content/short/333468v1?rss=1" Sato, H. Wu, B. Delahaye, F. Singer, R. H. Greally, J. 2018-05-29 doi:10.1101/333468 Cold Spring Harbor Laboratory Press 2018-05-29 <![CDATA[ TIAM-1/GEF can shape somatosensory dendrites independently of its GEF activity by regulating F-actin localization ]]> https://biorxiv.org/cgi/content/short/347567v1?rss=1" Tang, L. T. H. Diaz-Balzac, C. A. Rahman, M. Ramirez-Suarez, N. J. Salzberg, Y. Lazaro-Pena, M. I. Bülow, H. E. 2018-06-14 doi:10.1101/347567 Cold Spring Harbor Laboratory Press 2018-06-14 <![CDATA[ Spatiotemporal Gene Coexpression and Regulation in Mouse Cardiomyocytes of Early Cardiac Morphogenesis ]]> https://biorxiv.org/cgi/content/short/349993v1?rss=1" Liu, Y. Lu, P. Wang, Y. Morrow, B. E. Zhou, B. Zheng, D. 2018-06-19 doi:10.1101/349993 Cold Spring Harbor Laboratory Press 2018-06-19 <![CDATA[ Two point mutations in the Hantaan virus glycoproteins afford the generation of a highly infectious recombinant vesicular stomatitis virus vector ]]> https://biorxiv.org/cgi/content/short/356055v1?rss=1" Slough, M. M. Chandran, K. Jangra, R. K. 2018-06-26 doi:10.1101/356055 Cold Spring Harbor Laboratory Press 2018-06-26 <![CDATA[ The immune cell landscape in kidneys of lupus nephritis patients ]]> https://biorxiv.org/cgi/content/short/363051v1?rss=1" Arazi, A. Rao, D. A. Berthier, C. C. Davidson, A. Liu, Y. Hoover, P. J. Chicoine, A. Eisenhaure, T. M. Jonsson, A. H. Li, S. Lieb, D. J. Browne, E. P. Noma, A. Sutherby, D. Steelman, S. Smilek, D. E. Tosta, P. Apruzzese, W. Massarotti, E. Dall'Era, M. Park, M. Kamen, D. L. Furie, R. A. Payan-Schober, F. Buyon, J. P. Petri, M. A. Putterman, C. Kalunian, K. C. Woodle, E. S. Lederer, J. A. Hildeman, D. A. Nusbaum, C. Wofsy, D. Kretzler, M. Anolik, J. H. Brenner, M. B. The Accelerating Medicines Partnership in RA/SLE network, Hacohen, N. Diamond, B. 2018-07-07 doi:10.1101/363051 Cold Spring Harbor Laboratory Press 2018-07-07 <![CDATA[ Repeated Measures Regression In Laboratory, Clincal And Enviromental Research - Different Between/Within Subject Slopes And Common Misconceptions ]]> https://biorxiv.org/cgi/content/short/374124v1?rss=1" Hoover, D. R. Shi, Q. Anastos, K. 2018-07-25 doi:10.1101/374124 Cold Spring Harbor Laboratory Press 2018-07-25 <![CDATA[ Extracellular matrix regulates morphogenesis and function of ciliated sensory organs in Caenorhabditis elegans ]]> https://biorxiv.org/cgi/content/short/376152v1?rss=1" Barr, M. M. De Vore, D. M. Knobel, K. M. Nguyen, K. C. Q. Hall, D. H. 2018-07-24 doi:10.1101/376152 Cold Spring Harbor Laboratory Press 2018-07-24 <![CDATA[ COMPASS: An Open-Source, General-Purpose Software Toolkit for Computational Psychiatry ]]> https://biorxiv.org/cgi/content/short/377556v1?rss=1" Yousefi, A. Paulk, A. C. Basu, I. Dougherty, D. D. Eskandar, E. N. Eden, U. T. Widge, A. S. 2018-07-27 doi:10.1101/377556 Cold Spring Harbor Laboratory Press 2018-07-27 <![CDATA[ Tbx1 and Foxi3 genetically interact in the third pharyngeal pouch endoderm required for thymus and parathyroid development ]]> https://biorxiv.org/cgi/content/short/378182v1?rss=1" Hasten, E. MORROW, B. E. 2018-07-26 doi:10.1101/378182 Cold Spring Harbor Laboratory Press 2018-07-26 <![CDATA[ High efficiency genomic editing in Epstein-Barr virus-transformed lymphoblastoid B cells. ]]> https://biorxiv.org/cgi/content/short/379461v1?rss=1" Johnston, A. D. Simoes-Pires, C. Suzuki, M. Greally, J. 2018-07-29 doi:10.1101/379461 Cold Spring Harbor Laboratory Press 2018-07-29 <![CDATA[ Cell type-specific structural plasticity of the ciliary transition zone in C. elegans ]]> https://biorxiv.org/cgi/content/short/382689v1?rss=1" Akella, J. S. Silva, M. S. Morsci, N. S. Nguyen, K. C. Q. Rice, W. Hall, D. H. Barr, M. M. 2018-08-01 doi:10.1101/382689 Cold Spring Harbor Laboratory Press 2018-08-01 <![CDATA[ The allergic response mediated by fire ant venom proteins ]]> https://biorxiv.org/cgi/content/short/382697v1?rss=1" Zamith-Miranda, D. Fox, E. G. P. Monteiro, A. P. Gama, D. Poublan, L. E. Araujo, A. F. d. Araujo, M. F. C. Atella, G. C. Machado, E. A. Diaz, B. L. 2018-08-01 doi:10.1101/382697 Cold Spring Harbor Laboratory Press 2018-08-01 <![CDATA[ Transposable Element Expression In Tumors Is Associated With Immune Infiltration And Increased Antigenicity ]]> https://biorxiv.org/cgi/content/short/388215v1?rss=1" Kong, Y. Rose, C. Cass, A. A. Darwish, M. Lianoglou, S. Haverty, P. M. Tong, A.-J. Blanchette, C. Mellman, I. Bourgon, R. John, G. Jhunjhunwala, S. Albert, M. L. Chen-Harris, H. 2018-08-09 doi:10.1101/388215 Cold Spring Harbor Laboratory Press 2018-08-09 <![CDATA[ Structural Basis of Broad Ebolavirus Neutralization by a Human Survivor Antibody ]]> https://biorxiv.org/cgi/content/short/394502v1?rss=1" West, B. R. Wec, A. Z. Moyer, C. L. Fusco, M. L. Illinykh, P. A. Huang, K. James, R. Herbert, A. Hui, S. Wirchnianski, A. S. Goodwin, E. Aman, M. J. Walker, L. M. Dye, J. M. Bukreyev, A. Chandran, K. Saphire, E. O. 2018-08-19 doi:10.1101/394502 Cold Spring Harbor Laboratory Press 2018-08-19 <![CDATA[ Human antibody cocktail deploys multiple functions to confer pan-ebolavirus protection ]]> https://biorxiv.org/cgi/content/short/395525v1?rss=1" Wec, A. Z. Bornholdt, Z. A. He, S. Herbert, A. S. Goodwin, E. Wirchnianski, A. S. Gunn, B. M. Zhang, Z. Zhu, W. Liu, G. Abelson, D. M. Moyer, C. L. Jangra, R. K. James, R. M. Bakken, R. R. Bohorova, N. Bohorov, O. Kim, D. H. Pauly, M. H. Velasco, J. Bortz, R. H. Whaley, K. J. Goldstein, T. Anthony, S. J. Alter, G. Walker, L. M. Dye, J. M. Zeitlin, L. Qiu, X. Chandran, K. 2018-08-20 doi:10.1101/395525 Cold Spring Harbor Laboratory Press 2018-08-20 <![CDATA[ Two-antibody pan-ebolavirus cocktail confers broad therapeutic protection in ferrets and nonhuman primates ]]> https://biorxiv.org/cgi/content/short/395533v1?rss=1" Bornholdt, Z. A. Herbert, A. S. Mire, C. E. He, S. Cross, R. W. Wec, A. Z. Abelson, D. M. Geisbert, J. B. James, R. M. Rahim, M. N. Zhu, W. Borisevich, V. Banadyga, L. Gunn, B. M. Agans, K. N. Goodwin, E. Tierney, K. Shestowsky, W. S. Bohorov, O. Bohorova, N. Velasco, J. Ailor, E. Kim, D. H. Pauly, M. H. Whaley, K. J. Alter, G. Walker, L. M. Chandran, K. Zeitlin, L. Qiu, X. Geisbert, T. W. Dye, J. M. 2018-08-19 doi:10.1101/395533 Cold Spring Harbor Laboratory Press 2018-08-19 <![CDATA[ Pericentromeric hypomethylation elicits an interferon response in an animal model of ICF syndrome ]]> https://biorxiv.org/cgi/content/short/396671v1?rss=1" Rajshekar, S. Yao, J. Arnold, P. K. Payne, S. G. Zhang, Y. Bowman, T. V. Schmitz, R. J. Edwards, J. R. Goll, M. G. 2018-08-23 doi:10.1101/396671 Cold Spring Harbor Laboratory Press 2018-08-23 <![CDATA[ The 22q11 low copy repeats are characterized by unprecedented size and structure variability ]]> https://biorxiv.org/cgi/content/short/403873v1?rss=1" Demaerel, W. Mostovoy, Y. Yilmaz, F. Vervoort, L. Pastor, S. Hestand, M. S. Swillen, A. Vergaelen, E. Geiger, E. A. Coughlin, C. R. Chow, S. K. McDonald-McGinn, D. Morrow, B. Kwok, P.-Y. Xiao, M. Emanuel, B. S. Shaikh, T. H. Vermeesch, J. R. 2018-09-12 doi:10.1101/403873 Cold Spring Harbor Laboratory Press 2018-09-12 <![CDATA[ β-actin mRNA interactome mapping by proximity biotinylation ]]> https://biorxiv.org/cgi/content/short/405589v1?rss=1" Mukherjee, J. Hermesh, O. Nalpas, N. Franz-Wachtel, M. Macek, B. Jansen, R.-P. 2018-08-31 doi:10.1101/405589 Cold Spring Harbor Laboratory Press 2018-08-31 <![CDATA[ AptCompare: optimized de novo motif discovery of RNA aptamers via HTS-SELEX ]]> https://biorxiv.org/cgi/content/short/413757v1?rss=1" Shieh, K. R. Kratschmer, C. Maier, K. E. Greally, J. M. Levy, M. Golden, A. 2018-09-12 doi:10.1101/413757 Cold Spring Harbor Laboratory Press 2018-09-12 <![CDATA[ Tau Secretion and Propagation Is Regulated by p300/CBP via Autophagy-Lysosomal Pathway in Tauopathy ]]> https://biorxiv.org/cgi/content/short/418640v1?rss=1" Chen, X. Li, Y. Wang, C. Tang, Y. Mok, S.-A. Tsai, R. M. Rojas, J. C. Karydas, A. Miller, B. L. Boxer, A. L. Gestwicki, J. E. Cuervo, A. M. Arkin, M. Gan, L. 2018-09-14 doi:10.1101/418640 Cold Spring Harbor Laboratory Press 2018-09-14 <![CDATA[ Individual response to mTOR inhibition in delaying replicative senescence of mesenchymal stromal cells ]]> https://biorxiv.org/cgi/content/short/420026v1?rss=1" Antonioli, E. Torres, N. Ferretti, M. Piccinato, C. d. A. Sertie, A. L. 2018-09-17 doi:10.1101/420026 Cold Spring Harbor Laboratory Press 2018-09-17 <![CDATA[ Genetic variability and potential effects on clinical trial outcomes: perspectives in Parkinson’s disease ]]> https://biorxiv.org/cgi/content/short/427385v1?rss=1" Leonard, H. Blauwendraat, C. Krohn, L. Faghri, F. Iwaki, H. Furgeson, G. Day-Williams, A. G. Stone, D. J. International Parkinson's Disease Genomics Consortium (IPDGC), Singleton, A. B. Nalls, M. A. Gan-Or, Z. 2018-10-05 doi:10.1101/427385 Cold Spring Harbor Laboratory Press 2018-10-05 <![CDATA[ MET-2, a SETDB1 family methyltransferase, coordinates embryo events through distinct histone H3 methylation states ]]> https://biorxiv.org/cgi/content/short/429902v1?rss=1" Mutlu, B. Chen, H.-M. M. Hall, D. H. Mango, S. E. 2018-09-28 doi:10.1101/429902 Cold Spring Harbor Laboratory Press 2018-09-28 <![CDATA[ Single-cell microRNA/mRNA co-sequencing reveals non-genetic heterogeneity and novel regulatory mechanisms ]]> https://biorxiv.org/cgi/content/short/431213v1?rss=1" Wang, N. Zheng, J. Chen, Z. Liu, Y. Dura, B. Kwak, M. Xavier-Ferrucio, J. Lu, Y.-C. Zhang, M. Roden, C. Cheng, J. Krauss, D. Ding, Y. Fan, R. Lu, J. 2018-09-30 doi:10.1101/431213 Cold Spring Harbor Laboratory Press 2018-09-30 <![CDATA[ Genetic variants influence on the placenta regulatory landscape ]]> https://biorxiv.org/cgi/content/short/432211v1?rss=1" Delahaye, F. Do, C. Kong, Y. Ashkar, R. Salas, M. Tycko, B. Wapner, R. Hughes, F. 2018-10-03 doi:10.1101/432211 Cold Spring Harbor Laboratory Press 2018-10-03 <![CDATA[ GREB1 amplifies androgen receptor output in prostate cancer and contributes to antiandrogen resistance ]]> https://biorxiv.org/cgi/content/short/433755v1?rss=1" Sawyers, C. L. Lee, E. Wongvipat, J. Choi, D. Wang, P. Zheng, D. Watson, P. A. Gopalan, A. 2018-10-02 doi:10.1101/433755 Cold Spring Harbor Laboratory Press 2018-10-02 <![CDATA[ The ULK1-FBXW5-SEC23B nexus controls autophagy ]]> https://biorxiv.org/cgi/content/short/441923v1?rss=1" Pagano, M. Jeong, Y.-T. Simoneschi, D. Keegan, S. Melville, D. Adler, N. Saraf, A. Florens, L. Washburn, M. P. Cavasotto, C. Fenyö, D. Cuervo, A. M. Rossi, M. 2018-10-12 doi:10.1101/441923 Cold Spring Harbor Laboratory Press 2018-10-12 <![CDATA[ The mRNA export adaptor Yra1 contributes to DNA double-strand break repair through its C-box domain ]]> https://biorxiv.org/cgi/content/short/441980v1?rss=1" Stutz, F. Infantino, V. Tutucci, E. Yeh Martin, N. Zihlmann, A. Garcia-Molinero, V. Silvano, G. Palancade, B. 2018-10-12 doi:10.1101/441980 Cold Spring Harbor Laboratory Press 2018-10-12 <![CDATA[ Aneuvis: Web-based exploration of numerical chromosomal variation in single cells ]]> https://biorxiv.org/cgi/content/short/459735v1?rss=1" Pique, D. G. Andriani, G. A. Maggi, E. Zimmerman, S. E. Greally, J. M. Montagna, C. Mar, J. C. 2018-11-01 doi:10.1101/459735 Cold Spring Harbor Laboratory Press 2018-11-01 <![CDATA[ Evidence of a noncoding transcript of the RIPK2 gene overexpressed in head and neck tumor ]]> https://biorxiv.org/cgi/content/short/466011v1?rss=1" Tajara, E. H. Villagra, U. M. da Cunha, B. R. Polachini, G. M. Henrique, T. da Silva, C. H. T. P. Feitosa, O. A. Erica E. Fukuyama, E. E. Lopez, R. V. M. Dias-Neto, E. Nunes, F. D. Severino, P. 2018-11-08 doi:10.1101/466011 Cold Spring Harbor Laboratory Press 2018-11-08 <![CDATA[ Tobacco exposure associated with oral microbiota oxygen utilization in the New York City Health and Nutrition Examination Study ]]> https://biorxiv.org/cgi/content/short/470286v1?rss=1" Beghini, F. Renson, A. Zolnik, C. Geistlinger, L. Usyk, M. Moody, T. U. Thorpe, L. Dowd, J. B. Burk, R. Segata, N. Jones, H. E. Waldron, L. D. 2018-11-14 doi:10.1101/470286 Cold Spring Harbor Laboratory Press 2018-11-14 <![CDATA[ Chance is an important element in phagolysosomal acidification that favors the macrophage ]]> https://biorxiv.org/cgi/content/short/470617v1?rss=1" Dragotakes, Q. Stouffer, K. Fu, M. S. Leon-Rodriguez, C. M. Freij, J. B. Bergman, A. Casadevall, A. 2018-11-15 doi:10.1101/470617 Cold Spring Harbor Laboratory Press 2018-11-15 <![CDATA[ C. elegans granulins promote an age-associated decline in protein homeostasis via lysosomal protease inhibition ]]> https://biorxiv.org/cgi/content/short/472258v1?rss=1" Butler, V. J. Cortopassi, W. A. Argouarch, A. R. Pierce, O. M. Vohra, M. Oses-Prieto, J. A. Gao, F. Caballero, B. Chand, S. Seeley, W. W. Miller, B. L. Coppola, G. Burlingame, A. L. Ashrafi, K. Cuervo, A. M. Jacobson, M. Kao, A. W. 2018-11-17 doi:10.1101/472258 Cold Spring Harbor Laboratory Press 2018-11-17 <![CDATA[ Neural circuit robustness to acute, global physiological perturbations ]]> https://biorxiv.org/cgi/content/short/480830v1?rss=1" Ratliff, J. Marder, E. O'Leary, T. 2018-11-29 doi:10.1101/480830 Cold Spring Harbor Laboratory Press 2018-11-29 <![CDATA[ RISC: robust integration of single-cell RNA-seq datasets with different extents of cell cluster overlap ]]> https://biorxiv.org/cgi/content/short/483297v1?rss=1" Liu, Y. Wang, T. Zheng, D. 2018-11-29 doi:10.1101/483297 Cold Spring Harbor Laboratory Press 2018-11-29 <![CDATA[ Volumetric reconstruction of main Caenorhabditis elegans neuropil at two different time points ]]> https://biorxiv.org/cgi/content/short/485771v1?rss=1" Brittin, C. A. Cook, S. J. Hall, D. H. Emmons, S. W. Cohen, N. 2018-12-04 doi:10.1101/485771 Cold Spring Harbor Laboratory Press 2018-12-04 <![CDATA[ Farnesyl Transferase Inhibition for the Treatment of Tauopathies ]]> https://biorxiv.org/cgi/content/short/500801v1?rss=1" Hernandez, I. Luna, G. Rauch, J. N. Giroux, M. Karch, C. M. Boctor, D. Storm, N. J. Diaz, A. Zekanowski, C. Kang, A. A. Hinman, C. Cerovac, V. Guzman, E. Zhou, H. Goate, A. Fisher, S. K. Cuervo, A. M. Kosik, K. S. 2018-12-18 doi:10.1101/500801 Cold Spring Harbor Laboratory Press 2018-12-18 <![CDATA[ Human, Nonhuman Primate, and Bat Cells Are Broadly Susceptible to Tibrovirus Particle Cell Entry ]]> https://biorxiv.org/cgi/content/short/507350v1?rss=1" Cai, Y. Yu, S. Jangra, R. Postnikova, E. Wada, J. Tesh, R. Whelan, S. Lauck, M. Wiley, M. Finch, C. Radoshitzky, S. O'Connor, D. Palacios, G. Chandran, K. Chiu, C. Kuhn, J. 2018-12-27 doi:10.1101/507350 Cold Spring Harbor Laboratory Press 2018-12-27 <![CDATA[ Neural response variability and divisive normalization ]]> https://biorxiv.org/cgi/content/short/508838v1?rss=1" Coen-Cagli, R. Solomon, S. S. 2018-12-31 doi:10.1101/508838 Cold Spring Harbor Laboratory Press 2018-12-31 <![CDATA[ Kinesin-5 promotes microtubule nucleation and assembly by stabilizing a lattice-competent conformation of tubulin ]]> https://biorxiv.org/cgi/content/short/520072v1?rss=1" Chen, G.-Y. Asenjo, A. B. Chen, Y. Mascaro, J. Arginteanu, D. F. J. Sosa, H. J. Hancock, W. O. 2019-01-14 doi:10.1101/520072 Cold Spring Harbor Laboratory Press 2019-01-14 <![CDATA[ Candida auris: multi-omics signature of an emerging and multidrug-resistant pathogen ]]> https://biorxiv.org/cgi/content/short/528232v1?rss=1" Zamith-Miranda, D. Heyman, H. M. Cleare, L. G. Couvillion, S. P. Clair, G. C. Bredeweg, E. L. Gacser, A. Nimrichter, L. Nakayasu, E. S. Nosanchuk, J. D. 2019-01-23 doi:10.1101/528232 Cold Spring Harbor Laboratory Press 2019-01-23 <![CDATA[ Mitochondrial volume fraction controls translation of nuclear-encoded mitochondrial proteins ]]> https://biorxiv.org/cgi/content/short/529289v1?rss=1" Tsuboi, T. Viana, M. P. Xu, F. Yu, J. Chanchani, R. Arceo, X. G. Tutucci, E. Choi, J. Chen, Y. S. Singer, R. H. Rafelski, S. M. Zid, B. M. 2019-01-25 doi:10.1101/529289 Cold Spring Harbor Laboratory Press 2019-01-25 <![CDATA[ SCCNV: a software tool for identifying copy number variation from single-cell whole-genome sequencing ]]> https://biorxiv.org/cgi/content/short/535807v1?rss=1" Dong, X. Zhang, L. Hao, X. Wang, T. Vijg, J. 2019-01-31 doi:10.1101/535807 Cold Spring Harbor Laboratory Press 2019-01-31 <![CDATA[ Single-cell whole-genome sequencing reveals the functional landscape of somatic mutations in B lymphocytes across the human lifespan ]]> https://biorxiv.org/cgi/content/short/535906v1?rss=1" 3,000 per cell in centenarians. We discovered mutational hotspot regions, some of which, as expected, located at immunoglobulin genes associated with somatic hypermutation. B cell-specific mutation signatures were observed associated with development, ageing or somatic hypermutation (SHM). The SHM signature strongly correlated with the signature found in human chronic lymphocytic leukemia and malignant B-cell lymphomas4, indicating that even in B cells of healthy individuals the potential cancer-causing events are already present. We also identified multiple mutations in sequence features relevant to cellular function, i.e., transcribed genes and gene regulatory regions. Such mutations increased significantly during ageing, but only at approximately half the rate of the genome average, indicating selection against mutations that impact B cell function. This first full characterization of the landscape of somatic mutations in human B lymphocytes indicates that spontaneous somatic mutations accumulating with age can be deleterious and may contribute to both the increased risk for leukemia and the functional decline of B lymphocytes in the elderly. ]]> Zhang, L. Dong, X. Lee, M. Maslov, A. Y. Wang, T. Vijg, J. 2019-01-31 doi:10.1101/535906 Cold Spring Harbor Laboratory Press 2019-01-31 <![CDATA[ Spontaneous retrotranspositions in normal tissues are rare and associated with cell-type-specific differentiation ]]> https://biorxiv.org/cgi/content/short/536896v1?rss=1" Dong, X. Zhang, L. Brazhnik, K. Lee, M. Hao, X. Maslov, A. Y. Zhang, Z. Wang, T. Vijg, J. 2019-01-31 doi:10.1101/536896 Cold Spring Harbor Laboratory Press 2019-01-31 <![CDATA[ Mutation of the ATPase domain of MutS homolog-5 (MSH5) reveals a requirement for a functional MutSγ complex for all crossovers in mammalian meiosis ]]> https://biorxiv.org/cgi/content/short/546010v1?rss=1" 90% of the COs that arise in mammalian meiosis. We generated a point mutation in the ATP binding motif of Msh5, and found that mutant spermatocytes lose all COs, not just those arising from the class I pathway. ]]> Milano, C. R. Holloway, J. K. Zhang, Y. Jin, B. Bergman, A. Edelmann, W. Cohen, P. E. 2019-02-10 doi:10.1101/546010 Cold Spring Harbor Laboratory Press 2019-02-10 <![CDATA[ Single-cell analysis reveals different age-related somatic mutation profiles between stem and differentiated cells in human liver ]]> https://biorxiv.org/cgi/content/short/547893v1?rss=1" Brazhnik, K. Sun, S. Alani, O. Kinkhabwala, M. Wolkoff, A. W. Maslov, A. Y. Dong, X. Vijg, J. 2019-02-14 doi:10.1101/547893 Cold Spring Harbor Laboratory Press 2019-02-14 <![CDATA[ The Process Pathway Model of bacterial growth ]]> https://biorxiv.org/cgi/content/short/553982v1?rss=1" Biro, D. Pechuan, X. Bergman, A. Lambros, M. 2019-02-19 doi:10.1101/553982 Cold Spring Harbor Laboratory Press 2019-02-19 <![CDATA[ Cryptococcus neoformans secretes small molecules that inhibit IL-1β inflammasome-dependent secretion ]]> https://biorxiv.org/cgi/content/short/554048v1?rss=1" Bürgel, P. H. Marina, C. L. Saavedra, P. H. V. Albuquerque, P. Holanda, P. H. Castro, R. d. A. Heyman, H. Coelho, C. Cordero, R. J. B. Casadevall, A. Nosanchuk, J. Nakayasu, E. May, R. C. Tavares, A. H. Bocca, A. 2019-02-19 doi:10.1101/554048 Cold Spring Harbor Laboratory Press 2019-02-19 <![CDATA[ Chromosomal rearrangements at hypomethylated Satellite 2 sequences are associated with impaired replication efficiency and increased fork stalling ]]> https://biorxiv.org/cgi/content/short/554410v1?rss=1" Delpu, Y. McNamara, T. F. Griffin, P. Kaleem, S. Narayan, S. Schildkraut, C. Miga, K. H. Tahiliani, M. 2019-02-19 doi:10.1101/554410 Cold Spring Harbor Laboratory Press 2019-02-19 <![CDATA[ Cancer-type specific aneuploidies hard-wire chromosome-wide gene expression patterns of their tissue of origin ]]> https://biorxiv.org/cgi/content/short/563858v1?rss=1" Auslander, N. Heselmeyer-Haddad, K. Patkar, S. Hirsch, D. Camps, J. Brown, M. Bronder, D. Chen, W.-D. Lokanga, R. Wangsa, D. Wangsa, D. Hu, Y. Lischka, A. Braun, R. Emons, G. Ghadimi, B. M. Gaedcke, J. Grade, M. Montagna, C. Lazebnik, Y. Difilippantonio, M. J. Habermann, J. K. Auer, G. Ruppin, E. ried, t. 2019-03-01 doi:10.1101/563858 Cold Spring Harbor Laboratory Press 2019-03-01 <![CDATA[ Developmental Recovery of Impaired Multisensory Processing in Autism and the Cost of Switching Sensory Modality ]]> https://biorxiv.org/cgi/content/short/565333v1?rss=1" Crosse, M. J. Foxe, J. J. Molholm, S. 2019-03-01 doi:10.1101/565333 Cold Spring Harbor Laboratory Press 2019-03-01 <![CDATA[ The Marginal Cells of the Caenorhabditis elegans Pharynx Scavenge Cholesterol and Other Hydrophobic Small Molecules ]]> https://biorxiv.org/cgi/content/short/565473v1?rss=1" Kamal, M. Moshiri, H. Magomedova, L. Han, D. Nguyen, K. C. Yeo, M. Knox, J. Bagg, R. Won, A. M. Szlapa, K. Yip, C. Cummins, C. L. Hall, D. H. Roy, P. J. 2019-03-03 doi:10.1101/565473 Cold Spring Harbor Laboratory Press 2019-03-03 <![CDATA[ Temporal Metrics of Multisensory Processing Change in the Elderly ]]> https://biorxiv.org/cgi/content/short/565507v1?rss=1" Basharat, A. Barnett-Cowan, M. Mahoney, J. R. 2019-03-01 doi:10.1101/565507 Cold Spring Harbor Laboratory Press 2019-03-01 <![CDATA[ Proteomic profiling of the oncogenic septin 9 reveals isoform-specific interactions in breast cancer cells ]]> https://biorxiv.org/cgi/content/short/566513v1?rss=1" Devlin, L. Perkins, G. Bowen, J. R. Montagna, C. Spiliotis, E. T. 2019-03-05 doi:10.1101/566513 Cold Spring Harbor Laboratory Press 2019-03-05 <![CDATA[ HILPDA uncouples lipid storage in adipose tissue macrophages from inflammation and metabolic dysregulation ]]> https://biorxiv.org/cgi/content/short/566802v1?rss=1" van Dierendonck, X. A. M. H. de la Rosa Rodriguez, M. A. Georgiadi, A. Mattijssen, F. Dijk, W. van Weeghel, M. Singh, R. Borst, J. W. Stienstra, R. Kersten, S. 2019-03-05 doi:10.1101/566802 Cold Spring Harbor Laboratory Press 2019-03-05 <![CDATA[ Auditory sensory memory span for duration is severely curtailed in females with Rett Syndrome. ]]> https://biorxiv.org/cgi/content/short/568832v1?rss=1" Brima, T. J. Molholm, S. Molloy, C. J. Sysoeva, O. V. Nicholas, E. Djukic, A. Freedman, E. Foxe, J. J. 2019-03-05 doi:10.1101/568832 Cold Spring Harbor Laboratory Press 2019-03-05 <![CDATA[ Extracellular vesicle-mediated RNA release in Histoplasma capsulatum ]]> https://biorxiv.org/cgi/content/short/570291v1?rss=1" Alves, L. R. Peres da Silva, R. Sanchez, D. A. Zamith-Miranda, D. Rodrigues, M. L. Goldenberg, S. Puccia, R. Nosanchuk, J. D. 2019-03-07 doi:10.1101/570291 Cold Spring Harbor Laboratory Press 2019-03-07 <![CDATA[ Mortality among adults living with HIV treated for tuberculosis based on positive, negative, or no bacteriologic test results for tuberculosis: the IeDEA consortium ]]> https://biorxiv.org/cgi/content/short/571000v1?rss=1" Humphrey, J. M. Mpofu, P. Pettit, A. C. Musick, B. Carter, E. J. Messou, E. Marcy, O. Crabtree-Ramirez, B. Yotebieng, M. Anastos, K. Sterling, T. R. Yiannoutsos, C. Diero, L. Wools-Kaloustian, K. See S8 Table, 2019-03-08 doi:10.1101/571000 Cold Spring Harbor Laboratory Press 2019-03-08 <![CDATA[ The shape of gene expression distributions matter: how incorporating distribution shape improves the interpretation of cancer transcriptomic data ]]> https://biorxiv.org/cgi/content/short/572693v1?rss=1" de Torrente, L. Zimmerman, S. Suzuki, M. Christopeit, M. Greally, J. M. Mar, J. 2019-03-09 doi:10.1101/572693 Cold Spring Harbor Laboratory Press 2019-03-09 <![CDATA[ Dissociable neural circuits underlie the resolution of three discrete sources of competition during task-switching. ]]> https://biorxiv.org/cgi/content/short/581777v1?rss=1" Burke, K. M. Molholm, S. Butler, J. S. Ross, L. A. Foxe, J. J. 2019-03-18 doi:10.1101/581777 Cold Spring Harbor Laboratory Press 2019-03-18 <![CDATA[ Dietary intake regulates the circulating inflammatory monocyte pool ]]> https://biorxiv.org/cgi/content/short/582346v1?rss=1" Jordan, S. Tung, N. Casanova-Acebes, M. Chang, C. Cantoni, C. Zhang, D. Wirtz, T. H. Naik, S. Rose, S. A. Brocker, C. N. Gainullina, A. Maier, B. B. LeRoith, D. Gonzalez, F. J. Meissner, F. Ochando, J. Rahman, A. Chipuk, J. E. Artyomov, M. N. Frenette, P. S. Piccio, L. Berres, M.-L. Gallagher, E. J. Merad, M. 2019-03-21 doi:10.1101/582346 Cold Spring Harbor Laboratory Press 2019-03-21 <![CDATA[ Inferring the quasipotential landscape of microbial ecosystems with topological data analysis ]]> https://biorxiv.org/cgi/content/short/584201v1?rss=1" Chang, W. K. Kelly, L. 2019-03-21 doi:10.1101/584201 Cold Spring Harbor Laboratory Press 2019-03-21 <![CDATA[ Leveraging non-human primate multisensory neurons and circuits in assessing consciousness theory ]]> https://biorxiv.org/cgi/content/short/584516v1?rss=1" Noel, J.-P. Ishizawa, Y. Patel, S. Eskandar, E. Wallace, M. 2019-03-21 doi:10.1101/584516 Cold Spring Harbor Laboratory Press 2019-03-21 <![CDATA[ Transcriptional maintenance of cortical somatostatin interneuron subtype identity during migration ]]> https://biorxiv.org/cgi/content/short/593285v1?rss=1" Munguba, H. Nikouei, K. Hochgerner, H. Oberst, P. Kouznetsova, A. Ryge, J. Bastista-Brito, R. Munoz-Manchado, A. B. Close, J. Linnarsson, S. Hjerling Leffler, J. 2019-03-31 doi:10.1101/593285 Cold Spring Harbor Laboratory Press 2019-03-31 <![CDATA[ Evolutionary contingency’s impact on laboratory evolution of Escherichia coli under fluctuating environments ]]> https://biorxiv.org/cgi/content/short/598995v1?rss=1" Pechuan, X. Biro, D. Lambros, M. Bergman, A. 2019-04-05 doi:10.1101/598995 Cold Spring Harbor Laboratory Press 2019-04-05 <![CDATA[ A new immunotherapeutic concept for pancreatic cancer using childhood vaccine recall antigens and Listeria ]]> https://biorxiv.org/cgi/content/short/600106v1?rss=1" Selvanesan, B. C. Chandra, D. Quispe-Tintaya, W. Jahangir, A. Patel, A. Meena, K. Alberto Alves Da Silva, R. Libutti, S. K. Yuan, Z. Beck, A. Tesfa, L. Koba, W. Chuy, J. McAuliffe, J. C. Jafari, R. Entenberg, D. Wang, Y. Condeelis, J. Gravekamp, C. 2019-04-05 doi:10.1101/600106 Cold Spring Harbor Laboratory Press 2019-04-05 <![CDATA[ Oleocanthal and oleocanthal-rich olive oils induce lysosomal membrane permeabilization in cancer cells ]]> https://biorxiv.org/cgi/content/short/610097v1?rss=1" Goren, L. Zhang, G. Kaushik, S. Breslin, P. A. Du, Y.-C. N. Foster, D. A. 2019-04-15 doi:10.1101/610097 Cold Spring Harbor Laboratory Press 2019-04-15 <![CDATA[ PSC-RED, an Albumin-Free Robust Erythroid Differentiation Method to Produce Enucleated Red Blood Cells from Human Pluripotent Stem Cells ]]> https://biorxiv.org/cgi/content/short/616748v1?rss=1" Olivier, E. E. Zhang, S. Yan, Z. Suzuka, S. Roberts, K. E. Wang, K. E. Bouhassira, E. E. 2019-04-23 doi:10.1101/616748 Cold Spring Harbor Laboratory Press 2019-04-23 <![CDATA[ MNC-RED a Chemically Defined Method to Produce Enucleated Red Blood Cells from Adult Peripheral Blood Mononuclear Cells ]]> https://biorxiv.org/cgi/content/short/616755v1?rss=1" Zhang, S. E. Olivier, E. E. Yan, Z. E. Suzuka, S. E. Roberts, K. E. Wang, K. E. Bouhassira, E. E. 2019-04-25 doi:10.1101/616755 Cold Spring Harbor Laboratory Press 2019-04-25 <![CDATA[ The histone demethylase KDM5 controls developmental timing in Drosophila by promoting prothoracic gland endocycles. ]]> https://biorxiv.org/cgi/content/short/617985v1?rss=1" Drelon, C. Belalcazar, H. M. Secombe, J. 2019-04-24 doi:10.1101/617985 Cold Spring Harbor Laboratory Press 2019-04-24 <![CDATA[ The structural basis for RNA selectivity by the IMP family of RNA binding proteins ]]> https://biorxiv.org/cgi/content/short/618587v1?rss=1" Biswas, J. Patel, V. L. Bhaskar, V. Chao, J. A. Singer, R. H. Eliscovich, C. 2019-04-25 doi:10.1101/618587 Cold Spring Harbor Laboratory Press 2019-04-25 <![CDATA[ Screening human embryos for polygenic traits has limited utility ]]> https://biorxiv.org/cgi/content/short/626846v1?rss=1" Karavani, E. Zuk, O. Zeevi, D. Atzmon, G. Barzilai, N. Stefanis, N. C. Hatzimanolis, A. Smyrnis, N. Avramopoulos, D. Kruglyak, L. Lam, M. Lencz, T. Carmi, S. 2019-05-05 doi:10.1101/626846 Cold Spring Harbor Laboratory Press 2019-05-05 <![CDATA[ Insertional oncogenesis by HPV70 revealed by multiple genomic analyses in a clinically HPV-negative cervical cancer ]]> https://biorxiv.org/cgi/content/short/634857v1?rss=1" Van Arsdale, A. Patterson, N. E. Maggi, E. C. Agoni, L. Van Doorslaer, K. Harmon, B. Nevadunsky, N. Kuo, D. Y. S. Einstein, M. H. Lenz, J. Montagna, C. 2019-05-10 doi:10.1101/634857 Cold Spring Harbor Laboratory Press 2019-05-10 <![CDATA[ Disruption of the CSF-1-CSF-1R axis alters cerebellar microglia and is associated with motor and social interaction defects ]]> https://biorxiv.org/cgi/content/short/639526v1?rss=1" Kana, V. Desland, F. A. Casanova-Acebes, M. Ayata, P. Badimon, A. Nabel, E. Yamamuro, K. Sneeboer, M. Tan, I.-L. Flanigan, M. Rose, S. A. Chang, C. Leader, A. LeBourhis, H. Sweet, E. Tung, N. Wroblewska, A. Lavin, Y. See, P. Baccarini, A. Ginhoux, F. Chitu, V. Stanley, E. R. Russo, S. Yue, Z. Brown, B. Joyner, A. L. De Witte, L. Morishita, H. Schaefer, A. Merad, M. 2019-05-17 doi:10.1101/639526 Cold Spring Harbor Laboratory Press 2019-05-17 <![CDATA[ Relationship between footshock intensity, post-training corticosterone release and contextual fear memory specificity over time ]]> https://biorxiv.org/cgi/content/short/643098v1?rss=1" dos Santos Correa, M. dos Santos Vaz, B. Grisanti, G. D. V. de Paiva, J. P. Q. Tiba, P. A. Fornari, R. V. 2019-05-24 doi:10.1101/643098 Cold Spring Harbor Laboratory Press 2019-05-24 <![CDATA[ Single-cell analysis of Non-CpG methylation dynamics and gene expression in human oocyte maturation ]]> https://biorxiv.org/cgi/content/short/651141v1?rss=1" Yu, B. Doni Jayavelu, N. Battle, S. Smith, T. Zimmerman, S. E. Mar, J. C. Schimmel, T. Cohen, J. Hawkins, R. D. 2019-05-27 doi:10.1101/651141 Cold Spring Harbor Laboratory Press 2019-05-27 <![CDATA[ Whole-Genome Association Analyses of Sleep-disordered Breathing Phenotypes in the NHLBI TOPMed Program ]]> https://biorxiv.org/cgi/content/short/652966v1?rss=1" Cade, B. E. Lee, J. Sofer, T. Wang, H. Zhang, M. Chen, H. Gharib, S. A. Gottlieb, D. J. Guo, X. Lane, J. M. Liang, J. Lin, X. Mei, H. Patel, S. R. Purcell, S. M. Saxena, R. Shah, N. A. Evans, D. S. Hanis, C. L. Hillman, D. R. Mukherjee, S. Palmer, L. J. Stone, K. L. Tranah, G. J. NHLBI Trans-Omics for Precision Medicine (TOPMed), Abecasis, G. Boerwinkle, E. Correa, A. Cupples, L. A. Kaplan, R. C. Nickerson, D. A. North, K. E. Psaty, B. M. Rotter, J. I. Rich, S. S. Tracy, R. P. Vasan, R. S. Wilson, J. G. Zhu, X. Redline, S. TOPMed Sleep Working Group, 2019-06-03 doi:10.1101/652966 Cold Spring Harbor Laboratory Press 2019-06-03 <![CDATA[ Auditory processing atypicalities for pure tones and complex speech sounds in Rett Syndrome: towards neuromarkers of disease progression. ]]> https://biorxiv.org/cgi/content/short/653246v1?rss=1" Sysoeva, O. V. Molholm, S. Djukic, A. Frey, H.-P. Foxe, J. J. 2019-05-30 doi:10.1101/653246 Cold Spring Harbor Laboratory Press 2019-05-30 <![CDATA[ Multi-ethnic genome-wide association study of decomposed cardioelectric phenotypes illustrates strategies to identify and characterize evidence of shared genetic effects for complex traits ]]> https://biorxiv.org/cgi/content/short/654012v1?rss=1" Baldassari, A. R. Avery, C. L. Highland, H. M. Arking, D. R. Buyske, S. Darbar, D. Gondalia, R. Graff, M. R. Guo, X. R. Heckbert, S. R. Hindorff, L. A. Hodonsky, C. J. Ida Chen, Y.-D. Kaplan, R. C. Peters, U. Post, W. Reiner, A. P. Shohet, R. V. Sotoodehnia, N. Tao, R. Taylor, K. D. Yao, J. D. Kenny, E. D. Lin, H. J. Soliman, E. Z. Whitsel, E. A. North, K. E. Kooperberg, C. Rotters, j. Seyerle, A. A. 2019-05-31 doi:10.1101/654012 Cold Spring Harbor Laboratory Press 2019-05-31 <![CDATA[ Modeling missing cases and transmission links in networks of extensively drug-resistant tuberculosis in KwaZulu-Natal, South Africa ]]> https://biorxiv.org/cgi/content/short/655969v1?rss=1" Nelson, K. N. Gandhi, N. R. Mathema, B. Lopman, B. Brust, J. C. Auld, S. C. Ismail, N. Omar, S. V. Brown, T. S. Allana, S. Campbell, A. Moodley, P. Mlisana, K. Shah, N. S. Jenness, S. M. 2019-06-07 doi:10.1101/655969 Cold Spring Harbor Laboratory Press 2019-06-07 <![CDATA[ Distinct neural mechanisms for the prosocial and rewarding properties of MDMA ]]> https://biorxiv.org/cgi/content/short/659466v1?rss=1" Heifets, B. D. Salgado, J. S. Taylor, M. D. Hoerbelt, P. Cardozo Pinto, D. F. Walsh, J. J. Steinberg, E. E. Sze, J. Y. Malenka, R. C. 2019-06-03 doi:10.1101/659466 Cold Spring Harbor Laboratory Press 2019-06-03 <![CDATA[ Single-cell whole-genome sequencing reveals mutational landscapes of DNA mismatch repair deficiency in mouse primary fibroblasts ]]> https://biorxiv.org/cgi/content/short/668467v1?rss=1" T and T>C transitions. By comparing it to human cancer signatures, we not only confirmed the inferred MMR-deficiency-related etiology of several cancer signatures but also suggested that MMR deficiency is likely the cause of a cancer signature with its etiology previously unknown. We also observed a 7-fold increase of somatic small insertions and deletions (INDELs) in the Msh2-/- mice. An elevated INDEL frequency has also been found in human MMR-related cancers. INDELs and SNVs distributed differently across genomic features in the Msh2-/- and control cells, with evidence of selection pressure and repair preference. These results provide insights into the landscape of somatic mutations in normal somatic cells caused by MMR deficiency.nnSignificanceOur results show that MMR deficiency in the mouse is associated with a much lower elevation of somatic mutation rates than previously reported and provides the first MMR whole-genome mutational landscapes in normal somatic cells in vivo. ]]> Zhang, L. Dong, X. Hao, X. Lee, M. Chi, Z. Jin, B. Maslov, A. Y. Edelmann, W. Vijg, J. 2019-06-12 doi:10.1101/668467 Cold Spring Harbor Laboratory Press 2019-06-12 <![CDATA[ Cyclophilin A Prevents HIV-1 Restriction in Lymphocytes by Blocking Human TRIM5α Binding to the viral Core ]]> https://biorxiv.org/cgi/content/short/678037v1?rss=1" Selyutina, A. Persaud, M. Bulnes-Ramos, A. Buffone, C. Scoca, V. Di Nunzio, F. Hiatt, J. Krogan, N. J. Hultquist, J. F. Diaz-Griffero, F. 2019-06-21 doi:10.1101/678037 Cold Spring Harbor Laboratory Press 2019-06-21 <![CDATA[ Synergistic interplay between PHF8 and HER2 signaling contributes to breast cancer development and drug resistance ]]> https://biorxiv.org/cgi/content/short/682476v1?rss=1" Qi, H. H. Liu, Q. Borcherding, N. Shao, P. Maina, P. K. Zhang, W. 2019-06-25 doi:10.1101/682476 Cold Spring Harbor Laboratory Press 2019-06-25 <![CDATA[ Regulation of Numb during planar cell polarity establishment in the Drosophila eye ]]> https://biorxiv.org/cgi/content/short/686840v1?rss=1" Domingos, P. M. Jenny, A. del Alamo, D. Mlodzik, M. Steller, H. Mollereau, B. 2019-06-28 doi:10.1101/686840 Cold Spring Harbor Laboratory Press 2019-06-28 <![CDATA[ High-throughput phenotyping reveals expansive genetic and structural underpinnings of immune variation ]]> https://biorxiv.org/cgi/content/short/688010v1?rss=1" 25%), most of which had never hitherto been implicated in immunology. Furthermore, they were conspicuously enriched in genes for which humans show poor tolerance to loss-of-function. The immunophenotyping platform also exposed dense correlation networks linking immune parameters with one another and with specific physiologic traits. By limiting the freedom of individual immune parameters, such linkages impose genetically regulated "immunological structures", whose integrity was found to be associated with immunocompetence. Hence, our findings provide an expanded genetic resource and structural perspective for understanding and monitoring immune variation in health and disease. ]]> Abeler-Dörner, L. Laing, A. Lorenc, A. Ushakov, D. S. Clare, S. Speak, A. Duque, M. White, J. K. Ramirez-Solis, R. Saran, N. Bull, K. R. Moron, B. Iwasaki, J. Barton, P. R. Caetano, S. Hng, K. I. Cambridge, E. Forman, S. Crockford, T. L. Griffiths, M. Kane, L. Harcourt, K. Brandt, C. Notley, G. Babalola, K. O. Warren, J. Mason, J. C. Meeniga, A. Karp, N. A. Melvin, D. Cawthorne, E. Weinrick, B. Rahim, A. Drissler, S. Meskas, J. Yue, A. Lux, M. Song-Zhao, G. Chan, A. Ballesteros Reviriego, C. Abeler, J. Wilson, H. Przemska-Kosicka, A. Edmans, M. Stre 2019-07-02 doi:10.1101/688010 Cold Spring Harbor Laboratory Press 2019-07-02 <![CDATA[ Assessing auditory processing endophenotypes associated with Schizophrenia in individuals with 22q11.2 Deletion Syndrome ]]> https://biorxiv.org/cgi/content/short/696021v1?rss=1" A Francisco, A. J Foxe, J. J Horsthuis, D. DeMaio, D. Molholm, S. 2019-07-09 doi:10.1101/696021 Cold Spring Harbor Laboratory Press 2019-07-09 <![CDATA[ Within-host dynamics of virulent viruses in bat reservoirs for emerging zoonotic disease ]]> https://biorxiv.org/cgi/content/short/696195v1?rss=1" Brook, C. E. Boots, M. Chandran, K. Dobson, A. P. Drosten, C. Graham, A. L. Grenfell, B. Müller, M. A. Ng, M. Wang, L.-F. van Leeuwen, A. 2019-07-08 doi:10.1101/696195 Cold Spring Harbor Laboratory Press 2019-07-08 <![CDATA[ Perifornical Area Urocortin-3 Neurons Promote Infant-directed Neglect and Aggression ]]> https://biorxiv.org/cgi/content/short/697334v1?rss=1" Autry, A. E. Wu, Z. Kohl, J. Bambah-Mukku, D. Rubinstein, N. D. Marin-Rodriguez, B. Carta, I. Sedwick, V. Dulac, C. 2019-07-09 doi:10.1101/697334 Cold Spring Harbor Laboratory Press 2019-07-09 <![CDATA[ A ciliary BBSome-ARL-6-PDE6D pathway trafficks RAB-28, a negative regulator of extracellular vesicle biogenesis ]]> https://biorxiv.org/cgi/content/short/715730v1?rss=1" Akella, J. S. Carter, S. P. Rizvi, F. Nguyen, K. C. Q. Tsiropoulou, S. Moran, A. L. Silva, M. Kennedy, B. N. Hall, D. H. Barr, M. M. Blacque, O. E. 2019-07-25 doi:10.1101/715730 Cold Spring Harbor Laboratory Press 2019-07-25 <![CDATA[ The generation of plasma cells and CD27-IgD- B cells during Hantavirus infection are associated with distinct pathological findings ]]> https://biorxiv.org/cgi/content/short/723585v1?rss=1" Kerkman, P. F. Dernstedt, A. Tadala, L. Mittler, E. Dannborg, M. Sundling, C. Maleki, K. T. Tauriainen, J. Tuiskunen-Back, A. Wigren Bystrom, J. Ocaya, P. Thunberg, T. Jangra, R. Roman-Sosa, G. Guardado-Calvo, P. Rey, F. A. Klingstrom, J. Chandran, K. Puhar, A. Ahlm, C. Forsell, M. 2019-08-02 doi:10.1101/723585 Cold Spring Harbor Laboratory Press 2019-08-02 <![CDATA[ In situ Fucosylation for Modulating Wnt Signaling in Live Cells ]]> https://biorxiv.org/cgi/content/short/726612v1?rss=1" Hong, S. Feng, L. Jiang, H. Hou, X. Guo, P. Marlow, F. Stanley, P. Wu, P. 2019-08-09 doi:10.1101/726612 Cold Spring Harbor Laboratory Press 2019-08-09 <![CDATA[ Multiclass Disease Classification from Microbial Whole-Community Metagenomes using Graph Convolutional Neural Networks. ]]> https://biorxiv.org/cgi/content/short/726901v1?rss=1" Khan, S. Kelly, L. 2019-08-09 doi:10.1101/726901 Cold Spring Harbor Laboratory Press 2019-08-09 <![CDATA[ Post-EMT: Cadherin-11 mediates cancer hijacking fibroblasts ]]> https://biorxiv.org/cgi/content/short/729491v1?rss=1" View larger version (40K): org.highwire.dtl.DTLVardef@11317f1org.highwire.dtl.DTLVardef@88fffaorg.highwire.dtl.DTLVardef@5da692org.highwire.dtl.DTLVardef@62f6ed_HPS_FORMAT_FIGEXP M_FIG C_FIG ]]> Kang, W. Fan, Y. Du, Y. Tonkova, E. A. Hsu, Y.-H. Tan, K. V. Alexander, S. Wong, B. S. Yang, H. Luo, J. Yao, K. Yang, J. Hu, X. Liu, T. Gan, Y. Zhang, J. Zhao, J. J. Konstantopoulos, K. Friedl, P. Khong, P. L. Lu, A. Hung, M.-C. Brenner, M. B. Segall, J. E. Gu, Z. 2019-08-09 doi:10.1101/729491 Cold Spring Harbor Laboratory Press 2019-08-09 <![CDATA[ Targeting EZH2 Increases Therapeutic Efficacy of Check-Point Blockade in Models of Prostate Cancer ]]> https://biorxiv.org/cgi/content/short/730135v1?rss=1" Sheahan, A. V. Morel, K. L. Burkhart, D. L. Baca, S. C. Labbe, D. P. Roehle, K. Heckler, M. Calagua, C. Ye, H. Galbo, P. Panja, S. Mitrofanova, A. Hamid, A. A. Kibel, A. S. Choudhury, A. D. Pomerantz, M. M. Freedman, M. L. Sweeney, C. J. Dougan, S. K. Sowalsky, A. Loda, M. Olson, B. M. Ellis, L. 2019-08-08 doi:10.1101/730135 Cold Spring Harbor Laboratory Press 2019-08-08 <![CDATA[ Deconstructing glucose-mediated catabolite repression of the lac operon of Escherichia coli: I. Inducer exclusion, by itself, cannot account for the repression. ]]> https://biorxiv.org/cgi/content/short/739458v1?rss=1" Aggarwal, R. K. Narang, A. 2019-08-20 doi:10.1101/739458 Cold Spring Harbor Laboratory Press 2019-08-20 <![CDATA[ Tri-4C: efficient identification of cis-regulatory loops at hundred base pair resolution ]]> https://biorxiv.org/cgi/content/short/743005v1?rss=1" 20-fold more enhancer:promoter (E:P) loops than in situ HiC. In addition to vasly improved identification of subkilobase-sized E:P loops, Tri-HiC also uncovered interaction stripes and contact domain insulation from promoters and enhancers, revealing their loop extrusion behaviors resembling the topologically-associated domain (TAD) boundaries. Tri-4C and Tri-HiC provide robust approaches to achieve the high resolution interactome maps required for characterizing fine-gage regulatory chromatin interactions in analysis of development, homeostasis and disease. ]]> Zhu, Y. Suh, Y. 2019-08-22 doi:10.1101/743005 Cold Spring Harbor Laboratory Press 2019-08-22 <![CDATA[ Mobile Brain/Body Imaging of cognitive-motor impairment in multiple sclerosis: deriving EEG-based neuro-markers during a dual-task walking study ]]> https://biorxiv.org/cgi/content/short/743328v1?rss=1" De Sanctis, P. Malcolm, B. R. Mabie, P. C. Francisco, A. A. Mowrey, W. B. Joshi, S. Molholm, S. Foxe, J. J. 2019-08-31 doi:10.1101/743328 Cold Spring Harbor Laboratory Press 2019-08-31 <![CDATA[ Arfgef1 haploinsufficiency in mice alters neuronal endosome composition and decreases membrane surface postsynaptic GABAA receptors ]]> https://biorxiv.org/cgi/content/short/743625v1?rss=1" Teoh, J. J. Subramanian, N. Pero, M. E. Bartolini, F. Amador, A. Kanber, A. Williams, D. Petri, S. Yang, M. Allen, A. S. Beal, J. Haut, S. R. Frankel, W. 2019-09-08 doi:10.1101/743625 Cold Spring Harbor Laboratory Press 2019-09-08 <![CDATA[ Inhibition of Microbial Beta-Glucuronidase Does Not Prevent Breast Carcinogenesis in the Polyoma Middle T Mouse ]]> https://biorxiv.org/cgi/content/short/746602v1?rss=1" Mani, A. Li, H. Evrin, S. Redinbo, M. R. Mani, S. 2019-08-24 doi:10.1101/746602 Cold Spring Harbor Laboratory Press 2019-08-24 <![CDATA[ Electrophysiological evidence for impaired auditory sensory memory in Cystinosis despite typical sensory processing: An MMN investigation ]]> https://biorxiv.org/cgi/content/short/747642v1?rss=1" Alves Francisco, A. Foxe, J. J. Horsthuis, D. J. Molholm, S. 2019-08-28 doi:10.1101/747642 Cold Spring Harbor Laboratory Press 2019-08-28 <![CDATA[ Transcriptome analysis reveals the difference between \"healthy\" and \"common\" aging and their connection with age-related diseases ]]> https://biorxiv.org/cgi/content/short/747956v1?rss=1" Zeng, L. Yang, J. Peng, S. Zhu, J. Zhang, B. Suh, Y. Tu, Z. 2019-08-28 doi:10.1101/747956 Cold Spring Harbor Laboratory Press 2019-08-28 <![CDATA[ Novel genetic determinants of telomere length from a multi-ethnic analysis of 75,000 whole genome sequences in TOPMed ]]> https://biorxiv.org/cgi/content/short/749010v1?rss=1" 1 independent signal. Fine-mapping at OBFC1 indicated the independent signals colocalized with cell-type specific eQTLs for OBFC1 (STN1). We further identified two novel genes, DCLRE1B (SNM1B) and PARN, using a multi-variant gene-based approach. ]]> Taub, M. A. Weinstock, J. S. Iyer, K. R. Yanek, L. R. Conomos, M. P. NHLBI Trans-Omics for Precision Medicine (TOPMed) Consortium, Reiner, A. P. Mathias, R. A. 2019-09-04 doi:10.1101/749010 Cold Spring Harbor Laboratory Press 2019-09-04 <![CDATA[ Undulating changes in human plasma proteome across lifespan are linked to disease ]]> https://biorxiv.org/cgi/content/short/751115v1?rss=1" Lehallier, B. Gate, D. Schaum, N. Nanasi, T. Lee, S. E. Yousef, H. Moran Losada, P. Berdnik, D. Keller, A. Verghese, J. Sathyan, S. Franceschi, C. Milman, S. Barzilai, N. Wyss-Coray, T. 2019-09-01 doi:10.1101/751115 Cold Spring Harbor Laboratory Press 2019-09-01 <![CDATA[ A metabolic pathway for bile acid dehydroxylation by the gut microbiome ]]> https://biorxiv.org/cgi/content/short/758557v1?rss=1" Funabashi, M. Grove, T. Pascal, V. Varma, Y. McFadden, M. Brown, L. Guo, C. Medema, M. H. Almo, S. Fischbach, M. A. 2019-09-05 doi:10.1101/758557 Cold Spring Harbor Laboratory Press 2019-09-05 <![CDATA[ Bacterial Hyperswarming as a Protective Response to Intestinal Stress ]]> https://biorxiv.org/cgi/content/short/759886v1?rss=1" Chen, W. De, A. Li, H. Lukin, D. J. Szymczak, W. Sun, K. Kelly, L. Wright, J. R. Lamendella, R. Ghosh, S. Kearns, D. B. He, Z. Jobin, C. Luo, X. Byju, A. Chatterjee, S. Yeoh, B. S. Vijay-Kumar, M. Tang, J. X. Mani, S. 2019-09-08 doi:10.1101/759886 Cold Spring Harbor Laboratory Press 2019-09-08 <![CDATA[ Linker Histone H1 subtypes specifically regulate neutrophil differentiation ]]> https://biorxiv.org/cgi/content/short/763482v1?rss=1" Sollberger, G. Streeck, R. Caffrey, B. E. Zychlinsky, A. 2019-09-09 doi:10.1101/763482 Cold Spring Harbor Laboratory Press 2019-09-09 <![CDATA[ Microscale physiological events on the human cortical surface detected with PEDOT:PSS Electrodes ]]> https://biorxiv.org/cgi/content/short/770743v1?rss=1" Paulk, A. C. Yang, J. C. Cleary, D. R. Soper, D. J. Lee, S. H. Ganji, M. Ro, Y. G. Oh, H. Hossain, L. Rogers, N. Kilic, K. Ryu, S. B. Lee, S. W. Hermiz, J. Gilja, V. Lee, J. W. Maus, D. Devor, A. Fried, S. I. Jones, P. S. Nahed, B. V. Ben-Haim, S. Raslan, A. M. T. Siler, D. A. Cahill, D. P. Williams, Z. M. Cosgrove, G. R. Dayeh, S. A. Cash, S. S. 2019-09-18 doi:10.1101/770743 Cold Spring Harbor Laboratory Press 2019-09-18 <![CDATA[ Chronic repression by MAF1 supports futile RNA cycling as a mechanism for obesity resistance ]]> https://biorxiv.org/cgi/content/short/775353v1?rss=1" Bonhoure, N. Praz, V. Moir, R. D. Willemin, G. Mange, F. Moret, C. Willis, I. M. Hernandez, N. 2019-09-19 doi:10.1101/775353 Cold Spring Harbor Laboratory Press 2019-09-19 <![CDATA[ Towards a Fine-scale Population Health Monitoring System ]]> https://biorxiv.org/cgi/content/short/780668v1?rss=1" Belbin, G. M. Wenric, S. Cullina, S. Glicksberg, B. S. Moscati, A. Wojcik, G. L. Shemirani, R. Beckmann, N. D. Cohain, A. Sorokin, E. P. Park, D. S. Ambite, J.-L. Ellis, S. Auton, A. CBIPM Genomics Team, Regeneron Genetics Center, Bottinger, E. P. Cho, J. H. Loos, R. J. Abul-Husn, N. S. Zaitlen, N. A. Gignoux, C. R. Kenny, E. E. 2019-09-24 doi:10.1101/780668 Cold Spring Harbor Laboratory Press 2019-09-24 <![CDATA[ Acute cerebellar knockdown of Sgce reproduces salient features of Myoclonus-dystonia (DYT11) in mice ]]> https://biorxiv.org/cgi/content/short/781005v1?rss=1" Khodakhah, K. Washburn, S. Freemont, R. Moreno-Escobar, M. C. Angueyra, C. 2019-09-25 doi:10.1101/781005 Cold Spring Harbor Laboratory Press 2019-09-25 <![CDATA[ Inherited Causes of Clonal Hematopoiesis of Indeterminate Potential in TOPMed Whole Genomes ]]> https://biorxiv.org/cgi/content/short/782748v1?rss=1" Bick, A. G. Weinstock, J. Nandakumar, S. K. Fulco, C. P. Leventhal, M. J. Bao, E. L. Nasser, J. Zekavat, S. M. Szeto, M. D. Laurie, C. Taub, M. Mitchell, B. Barnes, K. Moscati, A. Fornage, M. Redline, S. Psaty, B. M. Silverman, E. Weiss, S. Palmer, N. Ramachandran, V. Burchard, E. Kardia, S. He, J. Kaplan, R. Smith, N. L. Arnett, D. Schwartz, D. Correa, A. de Andrade, M. Guo, X. Konkle, B. A. Custer, B. Peralta, J. Gui, H. Meyers, D. McGarvey, S. T. Chen, I. Shoemaker, M. B. Peyser, P. A. Broome, J. Gogarten, S. Wang, F. F. Wong, Q. Montasser, M. Da 2019-09-27 doi:10.1101/782748 Cold Spring Harbor Laboratory Press 2019-09-27 <![CDATA[ Age-dependent neuroprotective effect of an SK3. channel agonist on excitotoxityto dopaminergic neurons in organotypic culture ]]> https://biorxiv.org/cgi/content/short/784009v1?rss=1" Maldonado, O. Jenkins, A. Belalcazar, H. M. Hernandez-Cuervo, H. Ladaga, G. Padilla, L. de Erausquin, G. A. 2019-09-26 doi:10.1101/784009 Cold Spring Harbor Laboratory Press 2019-09-26 <![CDATA[ Comparative single-cell transcriptomics of complete insect nervous systems ]]> https://biorxiv.org/cgi/content/short/785931v1?rss=1" Cocanougher, B. T. Wittenbach, J. D. Long, X. Kohn, A. B. Norekian, T. P. Yan, J. Colonell, J. Masson, J.-B. Truman, J. W. Cardona, A. Turaga, S. Singer, R. H. Moroz, L. L. Zlatic, M. 2019-09-30 doi:10.1101/785931 Cold Spring Harbor Laboratory Press 2019-09-30 <![CDATA[ Targeting the Pregnane X Receptor Using Microbial Metabolite Mimicry ]]> https://biorxiv.org/cgi/content/short/792671v1?rss=1" Dvorak, Z. Felix Kopp, F. Costello, C. M. Kemp, J. S. Li, H. Vrzalova, A. Stepankova, M. Iveta Bartonkov, I. Poulikova, K. Vyhlidalova, B. Nordstroem, L. U. Karunaratne, C. Ranhotra, H. Mun, K. S. Naren, A. P. Murray, I. Perdew, G. H. Brtko, J. Toporova, L. Schon, A. Wallace, B. Walton, W. G. Redinbo, M. R. Sun, K. Beck, A. Kortagere, S. Neary, M. C. Chandran, A. Vishveshwara, S. Cavalluzzi, M. M. Lentini, G. Cui, J. Y. Gu, H. March, J. C. Chaterjee, S. Matson, A. Wright, D. Flannigan, K. L. Hirota, S. A. Mani, S. 2019-10-04 doi:10.1101/792671 Cold Spring Harbor Laboratory Press 2019-10-04 <![CDATA[ Human hepatic tryptophan 2,3-dioxygenase ubiquitin-dependent protein degradation: The critical role of its exosite as the molecular lynchpin of its substrate-mediated protein stabilization ]]> https://biorxiv.org/cgi/content/short/793380v1?rss=1" Kim, S.-M. Liu, Y. Wang, Y. Karkashon, S. Lewis-Ballester, A. Yeh, S.-R. Correia, M. A. 2019-10-04 doi:10.1101/793380 Cold Spring Harbor Laboratory Press 2019-10-04 <![CDATA[ Optimizing a human fecal assay that elicits bacterial swarming ]]> https://biorxiv.org/cgi/content/short/794487v1?rss=1" Byju, A. Patel, D. Chen, W. Mani, S. 2019-10-07 doi:10.1101/794487 Cold Spring Harbor Laboratory Press 2019-10-07 <![CDATA[ Distinct spatiotemporal mechanisms underlie extra-classical receptive field modulation in macaque V1 microcircuits ]]> https://biorxiv.org/cgi/content/short/802710v1?rss=1" Henry, C. A. Jazayeri, M. Shapley, R. M. Hawken, M. J. 2019-10-13 doi:10.1101/802710 Cold Spring Harbor Laboratory Press 2019-10-13 <![CDATA[ Viral manipulation of functionally distinct neurons from mice to humans ]]> https://biorxiv.org/cgi/content/short/808170v1?rss=1" Vormstein-Schneider, D. C. Lin, J. D. Pelkey, K. A. Chittajallu, R. Guo, B. Arias Garcia, M. Sakopoulos, S. Stevenson, O. Schneider, G. Zhang, Q. Sharma, J. Franken, T. P. Smith, J. Vogel, I. Sanchez, V. Ibrahim, L. A. Burbridge, T. Favuzzi, E. Saldi, G. A. Xu, Q. Guo, L. Yuan, X. Zaghloul, K. A. Sabri, E. Goldberg, E. M. Devinsky, O. Batista-Brito, R. Reynolds, J. Feng, G. Fu, Z. McBain, C. J. Fishell, G. J. Dimidschstein, J. 2019-10-18 doi:10.1101/808170 Cold Spring Harbor Laboratory Press 2019-10-18 <![CDATA[ Expressional artifact caused by a co-injection marker rol-6 in C. elegans ]]> https://biorxiv.org/cgi/content/short/809145v1?rss=1" Jin, H. Emmons, S. W. Kim, B. 2019-10-17 doi:10.1101/809145 Cold Spring Harbor Laboratory Press 2019-10-17 <![CDATA[ Impact of intensive care unit admission during handover on mortality: a propensity matched cohort study ]]> https://biorxiv.org/cgi/content/short/813279v1?rss=1" Midega, T. D. Filho, N. C. V. L. Nassar, A. P. Alencar, R. M. Neto, A. C. Ferraz, L. R. Correa, T. D. 2019-10-21 doi:10.1101/813279 Cold Spring Harbor Laboratory Press 2019-10-21 <![CDATA[ The Golgi Glycoprotein MGAT4D Protects Testicular Germ Cells From Mild Heat Stress ]]> https://biorxiv.org/cgi/content/short/818195v1?rss=1" Akintayo, A. Liang, M. Bartholdy, B. Batista, F. Aguilan, J. Prendergast, J. Sundaram, S. Stanley, P. 2019-10-28 doi:10.1101/818195 Cold Spring Harbor Laboratory Press 2019-10-28 <![CDATA[ 4-state model for simulating kinetic and steady-state voltage-dependent gating of gap junctions ]]> https://biorxiv.org/cgi/content/short/822007v1?rss=1" Snipas, M. Kraujalis, T. Maciunas, K. Kraujaliene, L. Gudaitis, L. Verselis, V. K. 2019-10-29 doi:10.1101/822007 Cold Spring Harbor Laboratory Press 2019-10-29 <![CDATA[ MS2-TRIBE evaluates protein-RNA interactions and nuclear organization of transcription by RNA editing ]]> https://biorxiv.org/cgi/content/short/829606v1?rss=1" Biswas, J. Rahman, R. Gupta, V. Rosbash, M. Singer, R. 2019-11-04 doi:10.1101/829606 Cold Spring Harbor Laboratory Press 2019-11-04 <![CDATA[ Varstation: a complete and efficient tool to support NGS data analysis ]]> https://biorxiv.org/cgi/content/short/833582v1?rss=1" Faria, A. C. O. Caraciolo, M. Minillo, R. M. Almeida, T. F. Pereira, S. M. Cervato, M. C. Oliveira, J. B. 2019-11-07 doi:10.1101/833582 Cold Spring Harbor Laboratory Press 2019-11-07 <![CDATA[ Paradoxical role of AT-rich interactive domain 1A in restraining pancreatic carcinogenesis ]]> https://biorxiv.org/cgi/content/short/835793v1?rss=1" Ferri-Borgogno, S. Barui, S. McGee, A. M. Griffiths, T. Singh, P. K. Piett, C. G. Ghosh, B. Bhattacharyya, S. Singhi, A. Pradhan, K. Verma, A. Nagel, Z. Maitra, A. Gupta, S. 2019-11-08 doi:10.1101/835793 Cold Spring Harbor Laboratory Press 2019-11-08 <![CDATA[ Inhibiting the prostaglandin transporter PGT induces non-canonical thermogenesis at thermoneutrality ]]> https://biorxiv.org/cgi/content/short/836288v1?rss=1" Pai, V. J. Lu, R. Wu, L. Garcia-Macia, M. Koba, W. R. Chi, Y. Singh, R. Schwartz, G. J. Schuster, V. L. 2019-11-09 doi:10.1101/836288 Cold Spring Harbor Laboratory Press 2019-11-09 <![CDATA[ Strong information-limiting correlations in early visual areas ]]> https://biorxiv.org/cgi/content/short/842724v1?rss=1" Montijn, J. S. Liu, R. G. Aschner, A. Kohn, A. Latham, P. E. Pouget, A. 2019-11-15 doi:10.1101/842724 Cold Spring Harbor Laboratory Press 2019-11-15 <![CDATA[ Phenotypic size heterogeneity is a viral mechanism of persistence ]]> https://biorxiv.org/cgi/content/short/843177v1?rss=1" 95% of associated fusion proteins still permits enough active-protein cooperation to induce membrane merger. Experiments with Ebola virus-like particles show that resistance to antibody pressure is a conserved feature of filamentous particles. Our results offer a strategy for averting drug resistance or immune evasion by targeting filamentous virus particles. ]]> Li, T. Li, Z. Liu, M. Deans, E. E. Ivanovic, T. 2019-11-15 doi:10.1101/843177 Cold Spring Harbor Laboratory Press 2019-11-15 <![CDATA[ Structural basis of RNA Polymerase III transcription repression by Maf1 ]]> https://biorxiv.org/cgi/content/short/859132v1?rss=1" Vorländer, M. K. Baudin, F. Moir, R. D. Wetzel, R. Hagen, W. J. H. Willis, I. M. Müller, C. W. 2019-11-29 doi:10.1101/859132 Cold Spring Harbor Laboratory Press 2019-11-29 <![CDATA[ The connectome of the Caenorhabditis elegans pharynx ]]> https://biorxiv.org/cgi/content/short/868513v1?rss=1" Cook, S. J. Crouse, C. M. Yemini, E. Hall, D. H. Emmons, S. W. Hobert, O. 2019-12-08 doi:10.1101/868513 Cold Spring Harbor Laboratory Press 2019-12-08 <![CDATA[ Dietary Induced Dynamic Plasticity of Intestinal Stem Cells and the Mucosa in Elevating Risk for Tumor Development ]]> https://biorxiv.org/cgi/content/short/2022.03.17.484800v1?rss=1" Choi, J. Zhang, X. Li, W. Houston, M. Peregrina, K. Dubin, R. Ye, K. Augenlicht, L. 2022-03-19 doi:10.1101/2022.03.17.484800 Cold Spring Harbor Laboratory Press 2022-03-19 <![CDATA[ Synergistic Regulation of Notch Signaling by Different O-Glycans Promotes Hematopoiesis ]]> https://biorxiv.org/cgi/content/short/2022.03.21.485194v1?rss=1" Tanwar, A. Stanley, P. 2022-03-21 doi:10.1101/2022.03.21.485194 Cold Spring Harbor Laboratory Press 2022-03-21 <![CDATA[ Cyb5r3-based mechanism and reversal of secondary failure to sulfonylurea ]]> https://biorxiv.org/cgi/content/short/2022.03.23.485508v1?rss=1" Watanabe, H. Du, W. Son, J. Sui, L. Asahara, S.-i. Kurland, I. J. Kuo, T. Kitamoto, T. Miyachi, Y. de Cabo, R. Accili, D. 2022-03-26 doi:10.1101/2022.03.23.485508 Cold Spring Harbor Laboratory Press 2022-03-26 <![CDATA[ Hippocampal CA1 represents action and reward events instantly compared to the superficial and deep layers of the lateral entorhinal cortex ]]> https://biorxiv.org/cgi/content/short/2022.03.31.485431v1?rss=1" Soma, S. Ohara, S. Nonomura, S. Yoshida, J. Suematsu, N. Pastalkova, E. Sakai, Y. Tsutsui, K.-I. Isomura, Y. 2022-04-01 doi:10.1101/2022.03.31.485431 Cold Spring Harbor Laboratory Press 2022-04-01 <![CDATA[ CD169+ macrophages orchestrate plasmacytoid dendritic cell arrest and retention for optimal priming in the bone marrow of malaria-infected mice ]]> https://biorxiv.org/cgi/content/short/2022.04.03.486895v1?rss=1" Fried, J. Paul, M. Jing, Z. Fooksman, D. Lauvau, G. 2022-04-03 doi:10.1101/2022.04.03.486895 Cold Spring Harbor Laboratory Press 2022-04-03 <![CDATA[ An open-source, ready-to-use and validated ripple detector plugin for the Open Ephys GUI ]]> https://biorxiv.org/cgi/content/short/2022.04.01.486754v1?rss=1" Sousa, B. M. d. de Oliveira, E. F. Beraldo, I. J. d. S. Polanczyk, R. S. Leite, J. P. Lopes Aguiar, C. 2022-04-05 doi:10.1101/2022.04.01.486754 Cold Spring Harbor Laboratory Press 2022-04-05 <![CDATA[ The strength of feedback processing is associated with resistance to visual backward masking during illusory contour processing in adult humans. ]]> https://biorxiv.org/cgi/content/short/2022.04.04.487043v1?rss=1" Foxe, J. J. Knight, E. J. Myers, E. J. Cao, C. Z. Molholm, S. Freedman, E. G. 2022-04-07 doi:10.1101/2022.04.04.487043 Cold Spring Harbor Laboratory Press 2022-04-07 <![CDATA[ Propofol disrupts alpha dynamics in distinct thalamocortical networks underlying sensory and cognitive function during loss of consciousness ]]> https://biorxiv.org/cgi/content/short/2022.04.05.487190v1?rss=1" Weiner, V. S. Zhou, D. W. Kahali, P. Stephen, E. P. Peterfreund, R. A. Aglio, L. S. Szabo, M. D. Eskandar, E. N. Salazar-Gomez, A. F. Sampson, A. L. Cash, S. S. Brown, E. N. Purdon, P. L. 2022-04-08 doi:10.1101/2022.04.05.487190 Cold Spring Harbor Laboratory Press 2022-04-08 <![CDATA[ A novel Pyk2-derived peptide inhibits invadopodia-mediated breast cancer metastasis ]]> https://biorxiv.org/cgi/content/short/2022.04.06.487297v1?rss=1" Twafra, S. Sokolik, C. Sneh, T. Srikanth, K. Meirson, T. Genna, A. Chill, J. Gil-Henn, H. 2022-04-08 doi:10.1101/2022.04.06.487297 Cold Spring Harbor Laboratory Press 2022-04-08 <![CDATA[ Functional Contribution of Cancer-Associated Fibroblasts in Glioblastoma ]]> https://biorxiv.org/cgi/content/short/2022.04.07.487495v1?rss=1" Galbo, P. M. Liu, Y. Peng, M. Wei, Y. Madsen, A. T. Graff, S. Montagna, C. Segall, J. E. Sidoli, S. Zang, X. Zheng, D. 2022-04-08 doi:10.1101/2022.04.07.487495 Cold Spring Harbor Laboratory Press 2022-04-08 <![CDATA[ Autophagic state prospectively identifies facultative stem cells in the intestinal epithelium ]]> https://biorxiv.org/cgi/content/short/2022.04.08.487404v1?rss=1" Johnson, N. M. Parham, L. R. Na, J. Monaghan, K. E. Kolev, H. M. Klochkova, A. Kim, M. S. Danan, C. H. Cramer, Z. Simon, L. A. Naughton, K. E. Adams-Tzivelekidis, S. Tian, Y. Williams, P. A. Leu, N. A. Sidoli, S. Whelan, K. A. Li, N. Lengner, C. J. Hamilton, K. E. 2022-04-10 doi:10.1101/2022.04.08.487404 Cold Spring Harbor Laboratory Press 2022-04-10 <![CDATA[ Toxoplasma scavenges mammalian host organelles through usurpation of host ESCRT-III and Vps4 ]]> https://biorxiv.org/cgi/content/short/2022.04.11.487923v1?rss=1" Coppens, I. Romano, J. D. Mayoral, J. A. Guevara, R. Rivera-Cuevas, Y. Carruthers, V. B. Weiss, L. M. 2022-04-11 doi:10.1101/2022.04.11.487923 Cold Spring Harbor Laboratory Press 2022-04-11 <![CDATA[ Pharmacological Interrogation of the C. elegans Pharyngeal Cuticle Reveals Small Molecule Amyloid Disruptors ]]> https://biorxiv.org/cgi/content/short/2022.04.11.487937v1?rss=1" Kamal, M. Knox, J. Han, D. Burns, A. Nguyen, K. C. Hall, D. H. Roy, P. J. 2022-04-12 doi:10.1101/2022.04.11.487937 Cold Spring Harbor Laboratory Press 2022-04-12 <![CDATA[ Human and murine Cryptococcus neoformans infection selects for common genomic changes in an environmental isolate. ]]> https://biorxiv.org/cgi/content/short/2022.04.12.487930v1?rss=1" Sephton-Clark, P. McConnell, S. A. Grossman, N. Baker, R. Dragotakes, Q. Fan, Y. Fu, M. S. Gerbig, G. Greengo, S. Hardwick, J. M. Kulkarni, M. Levitz, S. M. Nosanchuk, J. D. Shoham, S. Smith, D. Stempinski, P. Wear, M. Cuomo, C. A. Casadevall, A. 2022-04-12 doi:10.1101/2022.04.12.487930 Cold Spring Harbor Laboratory Press 2022-04-12 <![CDATA[ Epigenetic Control of Hundreds of Chromosome-Associated lncRNA Genes Essential for Replication and Stability ]]> https://biorxiv.org/cgi/content/short/2022.04.25.489405v1?rss=1" Heskett, M. B. Vouzas, A. E. Smith, L. G. Yates, P. A. Boniface, C. Bouhassira, E. E. Spellman, P. T. Gilbert, D. M. Thayer, M. J. 2022-04-25 doi:10.1101/2022.04.25.489405 Cold Spring Harbor Laboratory Press 2022-04-25 <![CDATA[ Histone H2A serine-1 phosphorylation is a chaperone-dependent signal for dimerization with H2B and for enhanced deposition ]]> https://biorxiv.org/cgi/content/short/2022.04.20.488954v1?rss=1" Onikubo, T. Wang, W.-l. Shechter, D. M. 2022-04-26 doi:10.1101/2022.04.20.488954 Cold Spring Harbor Laboratory Press 2022-04-26 <![CDATA[ Isthmal stem cells sustain intestinal homeostasis and regeneration ]]> https://biorxiv.org/cgi/content/short/2022.04.26.489611v1?rss=1" Malagola, E. Vasciaveo, A. Ochiai, Y. Kim, W. Middelhoff, M. Nienhuser, H. Belin, B. LaBella, J. Zamechek, L. Wong, M. Li, L. Guha, C. Yan, K. Califano, A. Wang, T. 2022-04-28 doi:10.1101/2022.04.26.489611 Cold Spring Harbor Laboratory Press 2022-04-28 <![CDATA[ EGR2 promoter antisense RNA coordinates chromatin remodeling and spatial genome organization in Schwann cells. ]]> https://biorxiv.org/cgi/content/short/2022.05.02.490330v1?rss=1" Moreno, M.-M. Karambizi, D. Hwang, H. Fregoso, K. Chen, J.-S. Fajardo, J. E. Fiser, A. Tapinos, N. 2022-05-02 doi:10.1101/2022.05.02.490330 Cold Spring Harbor Laboratory Press 2022-05-02 <![CDATA[ Characterizing ketamine-induced dissociation using human intracranial neurophysiology: brain dynamics, network activity, and interactions with propofol ]]> https://biorxiv.org/cgi/content/short/2022.05.02.490333v1?rss=1" Tian, F. Lewis, L. D. Zhou, D. W. Villegas, G. B. Paulk, A. C. Zelmann, R. Peled, N. Soper, D. Mercado, L. A. S. C. Peterfreund, R. A. Aglio, L. S. Eskandar, E. N. Cosgrove, G. R. Williams, Z. M. Richardson, R. M. Brown, E. N. Akeju, O. Cash, S. S. Purdon, P. L. 2022-05-04 doi:10.1101/2022.05.02.490333 Cold Spring Harbor Laboratory Press 2022-05-04 <![CDATA[ Hybrid offspring of C57BL/6J mice exhibit improved properties for neurobehavioral research ]]> https://biorxiv.org/cgi/content/short/2022.05.03.490527v1?rss=1" Sloin, H. E. Bikovski, L. Levi, A. Amber-Vitos, O. Katz, T. Spivak, L. Someck, S. Gattegno, R. Sivroni, S. Sjulson, L. Stark, E. 2022-05-04 doi:10.1101/2022.05.03.490527 Cold Spring Harbor Laboratory Press 2022-05-04 <![CDATA[ TMEM106B is increased in Multiple Sclerosis plaques, and deletion causes accumulation of lipid after demyelination ]]> https://biorxiv.org/cgi/content/short/2022.05.05.490697v1?rss=1" Shafit-Zagardo, B. Sidoli, S. Goldman, J. E. DuBois, J. C. Corboy, J. R. Strittmatter, S. M. Guzik, H. Graff, S. Nagra, R. M. 2022-05-05 doi:10.1101/2022.05.05.490697 Cold Spring Harbor Laboratory Press 2022-05-05 <![CDATA[ Bacterial strain-dependent dissociation of cell recruitment and cell-to-cell spread in early M. tuberculosis infection ]]> https://biorxiv.org/cgi/content/short/2022.05.10.491435v1?rss=1" Zha, B. S. Desvignes, L. Fergus, T. Cornelius, A. Cheng, T.-Y. Moody, D. B. Ernst, J. 2022-05-11 doi:10.1101/2022.05.10.491435 Cold Spring Harbor Laboratory Press 2022-05-11 <![CDATA[ Genome-wide data from medieval German Jews show that the Ashkenazi founder event pre-dated the 14th century ]]> https://biorxiv.org/cgi/content/short/2022.05.13.491805v1?rss=1" Waldman, S. Backenroth, D. Harney, E. Flohr, S. Neff, N. C. Buckley, G. M. Fridman, H. Akbari, A. Rohland, N. Mallick, S. Nistal, J. C. Yu, J. Barzilai, N. Peter, I. Atzmon, G. Ostrer, H. Lencz, T. Maruvka, Y. E. Lämmerhirt, M. Rutgers, L. V. Renson, V. Prufer, K. M. Schiffels, S. Ringbauer, H. Sczech, K. Carmi, S. Reich, D. 2022-05-16 doi:10.1101/2022.05.13.491805 Cold Spring Harbor Laboratory Press 2022-05-16 <![CDATA[ Intermittent systemic exposure to lipopolysaccharide-induced inflammation disrupts hippocampal long-term potentiation and impairs cognition in aging male mice ]]> https://biorxiv.org/cgi/content/short/2022.05.18.491827v1?rss=1" Engler-Chiurazzi, E. B. Russell, A. E. Povroznik, J. M. McDonald, K. O. Porter, K. Wang, D. Billig, B. Felton, C. Hammock, J. Schreurs, B. G. O'Callghan, J. Zwezdaryk, K. Simpkins, J. W. 2022-05-18 doi:10.1101/2022.05.18.491827 Cold Spring Harbor Laboratory Press 2022-05-18 <![CDATA[ Cerebellum Directly Modulates the Substantia Nigra Dopaminergic Activity ]]> https://biorxiv.org/cgi/content/short/2022.05.20.492532v1?rss=1" Washborn, S. Nadim, F. Onate, M. Vera, J. Yoshida, J. K.B., R. Khatami, L. Khodakhah, K. 2022-05-21 doi:10.1101/2022.05.20.492532 Cold Spring Harbor Laboratory Press 2022-05-21 <![CDATA[ Tumor-intrinsic PRC2 inactivation drives a context-dependent immune-desert tumor microenvironment and confers resistance to immunotherapy ]]> https://biorxiv.org/cgi/content/short/2022.05.27.493507v1?rss=1" Yan, J. Chen, Y. Patel, A. J. Warda, S. Nixon, B. G. Wong, E. W. P. Miranda-Roman, M. A. Lee, C. J. Yang, N. Wang, Y. Sher, J. Giff, E. Tang, F. Khurana, E. Singer, S. Liu, Y. Galbo, P. M. Maag, J. L. Koche, R. P. Zheng, D. Deng, L. Antonescu, C. R. Li, M. Chen, Y. Chi, P. 2022-05-27 doi:10.1101/2022.05.27.493507 Cold Spring Harbor Laboratory Press 2022-05-27 <![CDATA[ PRC2 Inactivating Mutations in Cancer are Synthetic Lethal with DNMT1 Targeted Therapy via Enhanced Viral Mimicry ]]> https://biorxiv.org/cgi/content/short/2022.05.28.493429v1?rss=1" Patel, A. J. Warda, S. Maag, J. L. V. Misra, R. Miranda-Roman, M. A. Pachai, M. R. Lee, C. J. Li, D. Wang, N. Bayshtok, G. Meng, Y. Wong, E. W. P. Yan, J. Giff, E. Pappalardi, M. B. McCabe, M. T. Fletcher, J. A. Scandura, J. M. Koche, R. P. Glass, J. L. Antonescu, C. R. Zheng, D. Chen, Y. Chi, P. 2022-05-29 doi:10.1101/2022.05.28.493429 Cold Spring Harbor Laboratory Press 2022-05-29 <![CDATA[ Prefrontal cortex melanocortin 4 receptors (MC4R) mediate food intake behavior in mice ]]> https://biorxiv.org/cgi/content/short/2022.06.01.494383v1?rss=1" Ross, R. A. Kim, A. Das, P. Li, Y. Choi, Y. K. Thompson, A. T. Douglas, E. Subramanian, S. Ramos, K. Callahan, K. Bolshakov, V. Y. Ressler, K. J. 2022-06-02 doi:10.1101/2022.06.01.494383 Cold Spring Harbor Laboratory Press 2022-06-02 <![CDATA[ The DNA Damage response and cell competition are p53- and Xrp1-dependent processes that suppress hyperplastic aneuploidy ]]> https://biorxiv.org/cgi/content/short/2022.06.06.494998v1?rss=1" Baker, N. Khan, C. 2022-06-08 doi:10.1101/2022.06.06.494998 Cold Spring Harbor Laboratory Press 2022-06-08 <![CDATA[ Modeling the Diverse Effects of Divisive Normalization on Noise Correlations ]]> https://biorxiv.org/cgi/content/short/2022.06.08.495145v1?rss=1" Weiss, O. Bounds, H. A. Adesnik, H. Coen-Cagli, R. 2022-06-10 doi:10.1101/2022.06.08.495145 Cold Spring Harbor Laboratory Press 2022-06-10 <![CDATA[ Off-manifold coding in visual cortex revealed by sleep ]]> https://biorxiv.org/cgi/content/short/2022.06.10.495710v1?rss=1" de Oliveira, E. F. Kim, S. Qiu, T. S. Peyrache, A. Batista-Brito, R. Sjulson, L. 2022-06-13 doi:10.1101/2022.06.10.495710 Cold Spring Harbor Laboratory Press 2022-06-13 <![CDATA[ Laminar Distribution of stimulus- and task-related variables related to auditory streaming in core and belt auditory cortex ]]> https://biorxiv.org/cgi/content/short/2022.06.14.496098v1?rss=1" Banno, T. Shirley, H. W. Fishman, Y. I. Cohen, Y. E. 2022-06-16 doi:10.1101/2022.06.14.496098 Cold Spring Harbor Laboratory Press 2022-06-16 <![CDATA[ POSTRE: a tool to predict the pathological effects of human structural variants ]]> https://biorxiv.org/cgi/content/short/2022.06.20.496902v1?rss=1" Sanchez-Gaya, V. Rada-Iglesias, A. 2022-06-22 doi:10.1101/2022.06.20.496902 Cold Spring Harbor Laboratory Press 2022-06-22 <![CDATA[ Cell-Type-Specific Epigenetic Priming of Gene Expression in Nucleus Accumbens by Cocaine ]]> https://biorxiv.org/cgi/content/short/2022.06.24.497533v1?rss=1" Mews, P. Van der Zee, Y. Kronman, H. Gurung, A. Ramakrishnan, A. Browne, C. Futamura, R. Ryan, M. Reyes, A. A. Garcia, B. Sidoli, S. Shen, L. Nestler, E. J. 2022-06-26 doi:10.1101/2022.06.24.497533 Cold Spring Harbor Laboratory Press 2022-06-26 <![CDATA[ Molecular genomic studies of the obesogenic effects of tributyltin during adipogenic differentiation implicate a primary role for cytoskeletal damage. ]]> https://biorxiv.org/cgi/content/short/2022.06.28.497908v1?rss=1" Thompson, T. V. Greally, J. M. 2022-06-28 doi:10.1101/2022.06.28.497908 Cold Spring Harbor Laboratory Press 2022-06-28 <![CDATA[ NFATc1 negatively determines chondrocyte differentiation in articular cartilage progenitors ]]> https://biorxiv.org/cgi/content/short/2022.06.28.497777v1?rss=1" Zhang, F. Zhao, Y. Wang, M. Zhou, B. Zhou, B. Ge, X. 2022-06-29 doi:10.1101/2022.06.28.497777 Cold Spring Harbor Laboratory Press 2022-06-29 <![CDATA[ Targeting C5aR1 signaling reduced neutrophil extracellular traps and ameliorates COVID-19 pathology ]]> https://biorxiv.org/cgi/content/short/2022.07.03.498624v1?rss=1" Silva, B. M. Veras, F. P. Gomes, G. Cambier, S. Silva, G. Quadros, A. Caetite, D. Nascimento, D. Silva, C. Silva, J. Damasceno, S. Schneider, A. Beretta, F. Batah, S. Castro, I. Paiva, I. Rodrigues, T. Salina, A. C. G. Martins, R. Cebinelli, G. Bibo, N. Jorge, D. Nakaya, H. I. Zamboni, D. S. Leiria, L. Fabro, A. Alves-Filho, J. C. Arruda, E. Louzada-Junior, P. Oliveira, R. Cunha, L. D. Van-Mol, P. Vanderbeke, L. Feys, S. Wauters, E. Brandolini, L. Cunha, F. Kohl, J. Allegretti, M. Lambrechts, D. Wauters, J. Proost, P. Cunha, T. M. 2022-07-05 doi:10.1101/2022.07.03.498624 Cold Spring Harbor Laboratory Press 2022-07-05 <![CDATA[ Pseudouridine-dependent ribosome biogenesis regulates translation of polyglutamine proteins during Drosophila oogenesis ]]> https://biorxiv.org/cgi/content/short/2022.07.07.499147v1?rss=1" Breznak, S. Peng, Y. Deng, L. Kotb, N. M. Flamholz, Z. Rapisarda, I. T. Martin, E. T. LaBarge, K. A. Fabris, D. Gavis, E. R. Rangan, P. 2022-07-08 doi:10.1101/2022.07.07.499147 Cold Spring Harbor Laboratory Press 2022-07-08 <![CDATA[ Melanization of Candida auris is Associated with Alteration of Extracellular pH ]]> https://biorxiv.org/cgi/content/short/2022.07.14.500134v1?rss=1" Smith, D. F. Q. Mudrak, N. J. Zamith-Miranda, D. Honorato, L. Nimrichter, L. Smith, B. Gerfen, G. J. Nosanchuk, J. D. Casadevall, A. 2022-07-15 doi:10.1101/2022.07.14.500134 Cold Spring Harbor Laboratory Press 2022-07-15 <![CDATA[ mTORC2 couples fasting to mitochondrial fission ]]> https://biorxiv.org/cgi/content/short/2022.07.19.500669v1?rss=1" Martinez-Lopez, N. Mattar, P. Toledo, M. Bains, H. Kalyani, M. Aoun, M. L. Sharma, M. McIntyre, L. B. J. Gunther-Cummins, L. Macaluso, F. P. Aguilan, J. T. Sidoli, S. Bourdenx, M. Singh, R. 2022-07-20 doi:10.1101/2022.07.19.500669 Cold Spring Harbor Laboratory Press 2022-07-20 <![CDATA[ Two point mutations in protocadherin-1 disrupt Andes hantavirus recognition and afford protection against lethal infection ]]> https://biorxiv.org/cgi/content/short/2022.07.19.500682v1?rss=1" Slough, M. M. Li, R. Herbert, A. S. Lasso, G. Kuehne, A. I. Bakken, R. R. Monticelli, S. R. Liu, Y. Ghosh, A. Moreau, A. M. Zeng, X. Almo, S. C. Dye, J. M. Jangra, R. K. Wang, Z. Chandran, K. 2022-07-20 doi:10.1101/2022.07.19.500682 Cold Spring Harbor Laboratory Press 2022-07-20 <![CDATA[ Multi-ancestry GWAS of major depression aids locus discovery, fine-mapping, gene prioritisation, and causal inference ]]> https://biorxiv.org/cgi/content/short/2022.07.20.500802v1?rss=1" Meng, X. Navoly, G. Giannakopoulou, O. DL, D. Koller, D. Pathak, G. Koen, N. Lin, K. Renteria, M. Feng, Y. Gaziano, J. M. Stein, D. Zar, H. Campbell, M. van Heel, D. Trivedi, B. Finer, S. McQuillin, A. Bass, N. Chundru, V. K. Martin, H. Huang, Q. Q. Valkovskaya, M. Kuo, P.-H. Chen, H.-C. Tsai, S.-J. Liu, Y.-L. Kendler, K. Peterson, R. Cai, N. Fang, Y. Sen, S. Scott, L. Burmeister, M. Loos, R. Preuss, M. Actkins, K. Davis, L. Uddin, M. Wani, A. Wildman, D. Ursano, R. Kessler, R. Kanai, M. Okada, Y. Sakaue, S. Rabinowitz, J. Maher, B. Uhl, G. Eato 2022-07-21 doi:10.1101/2022.07.20.500802 Cold Spring Harbor Laboratory Press 2022-07-21 <![CDATA[ ATM and MSH2 control blunt DNA end joining in immunoglobulin class switch recombination ]]> https://biorxiv.org/cgi/content/short/2022.07.28.501875v1?rss=1" Sible, E. Attaway, M. Fiorica, G. Michel, G. Chaudhuri, J. Vuong, B. Q. 2022-07-30 doi:10.1101/2022.07.28.501875 Cold Spring Harbor Laboratory Press 2022-07-30 <![CDATA[ Collective invasion of the basement membrane in breast cancer driven by forces from cell volume expansion and local contractility ]]> https://biorxiv.org/cgi/content/short/2022.07.28.501930v1?rss=1" Chang, J. Saraswathibhatla, A. Song, Z. Varma, S. Sanchez, C. Srivastava, S. Liu, K. Bassik, M. C. Marinkovich, M. P. Hodgson, L. Shenoy, V. West, R. B. Chaudhuri, O. 2022-07-31 doi:10.1101/2022.07.28.501930 Cold Spring Harbor Laboratory Press 2022-07-31 <![CDATA[ Large vesicle extrusion from C. elegans neurons requires phagocytic interaction via the ARF-6 and CED-1/DRAPER pathways ]]> https://biorxiv.org/cgi/content/short/2022.07.31.502194v1?rss=1" Wang, Y. Arnold, M. L. Smart, A. J. Wang, G. Morera, A. Nguyen, K. C. Schweinsberg, P. J. Bai, G. Cooper, J. Hall, D. H. Driscoll, M. Grant, B. 2022-08-01 doi:10.1101/2022.07.31.502194 Cold Spring Harbor Laboratory Press 2022-08-01 <![CDATA[ Cold-induced expression of a truncated Adenylyl Cyclase 3 acts as rheostat to brown fat function. ]]> https://biorxiv.org/cgi/content/short/2022.08.01.502156v1?rss=1" Khani, S. Topel, H. Josephrajan, A. Larsen, B. D. M. Tavanez, A. R. A. d. A. Gaudry, M. J. Leyendecker, P. Stanic, N. Gaziano, I. Hansmeier, N. R. Schmidt, E. Klemm, P. Vagliano, L.-M. Engelhard, C. A. Nielsen, S. Jespersen, N. Z. Rehimi, R. Gohlke, S. Frommolt, P. Gnad, T. Rada-Iglesias, A. Pradas-Juni, M. Schulz, T. J. Wunderlich, F. T. Pfeifer, A. Jastroch, M. Wachten, D. Kornfeld, J.-W. 2022-08-01 doi:10.1101/2022.08.01.502156 Cold Spring Harbor Laboratory Press 2022-08-01 <![CDATA[ Single cell transcriptomics uncovers a non-autonomous Tbx1-dependent genetic program controlling cardiac neural crest cell deployment and progression ]]> https://biorxiv.org/cgi/content/short/2022.08.01.502391v1?rss=1" De Bono, C. Liu, Y. Ferrena, A. Valentine, A. Zheng, D. Morrow, B. 2022-08-02 doi:10.1101/2022.08.01.502391 Cold Spring Harbor Laboratory Press 2022-08-02 <![CDATA[ Intermediate Filaments Associate with Aggresome-like Structures and Influence Rate of Cellular Expulsion of Neuronal Disease Aggregates ]]> https://biorxiv.org/cgi/content/short/2022.08.03.501714v1?rss=1" Arnold, M. L. Cooper, J. F. Androwski, R. Ardeshna, S. Melentijevic, I. Smart, A. J. Guasp, R. J. Nguyen, K. C. Bai, G. Hall, D. H. Grant, B. D. Driscoll, M. 2022-08-05 doi:10.1101/2022.08.03.501714 Cold Spring Harbor Laboratory Press 2022-08-05 <![CDATA[ Neuronal SNAP-23 scales hippocampal synaptic plasticity and memory ]]> https://biorxiv.org/cgi/content/short/2022.08.04.502541v1?rss=1" Huang, M. Bin, N.-R. Rai, J. Ma, K. Chow, C. H. Eide, S. Harada, H. Xiao, J. Feng, D. Sun, H.-S. Feng, Z.-P. Gaisano, H. Y. Pessin, J. Monnier, P. P. Okamoto, K. Zhang, L. Sugita, S. 2022-08-06 doi:10.1101/2022.08.04.502541 Cold Spring Harbor Laboratory Press 2022-08-06 <![CDATA[ Doublecortin and JIP3 are neural-specific counteracting regulators of dynein-mediated retrograde trafficking ]]> https://biorxiv.org/cgi/content/short/2022.08.10.503449v1?rss=1" Rao, L. Li, P. Liu, X. Wang, Q. Son, A. I. Gennerich, A. Shih-Hwa Liu, J. Fu, X. 2022-08-11 doi:10.1101/2022.08.10.503449 Cold Spring Harbor Laboratory Press 2022-08-11 <![CDATA[ Destabilized 3UTR ARE therapeutically degrades ERBB2 in drug-resistant ERBB2+ cancer models ]]> https://biorxiv.org/cgi/content/short/2022.08.14.503914v1?rss=1" View larger version (34K): org.highwire.dtl.DTLVardef@139d8dborg.highwire.dtl.DTLVardef@cc1fd3org.highwire.dtl.DTLVardef@13d9086org.highwire.dtl.DTLVardef@db69bf_HPS_FORMAT_FIGEXP M_FIG A. Depiction represents multiple ERBB2 expressing cancer cells with stable 3UTR ARE and the signaling cascade known to cause chemo resistance. B. Depiction of the engineered destabilized 3UTR ARE of ERBB2 and the destabilization and degradation of the ERBB2 transcript, protein and kinases involved in mediation of drug resistance C_FIG ]]> Awah, C. Glemaud, Y. Levine, F. Yang, K. Ansary, A. Dong, F. Ash, L. Zhang, J. Weiser, D. Ogunwobi, O. O. 2022-08-15 doi:10.1101/2022.08.14.503914 Cold Spring Harbor Laboratory Press 2022-08-15 <![CDATA[ Addressing Structural Mentoring Barriers in Postdoctoral Training: A Qualitative Study ]]> https://biorxiv.org/cgi/content/short/2022.08.20.504665v1?rss=1" Lambert, W. M. Nana, N. Afonja, S. Saeed, A. Amado, A. C. Golightly, L. M. 2022-08-23 doi:10.1101/2022.08.20.504665 Cold Spring Harbor Laboratory Press 2022-08-23 <![CDATA[ Frataxin deficiency disrupts mitochondrial respiration and pulmonary endothelial cell function ]]> https://biorxiv.org/cgi/content/short/2022.08.22.504849v1?rss=1" View larger version (58K): org.highwire.dtl.DTLVardef@12c5568org.highwire.dtl.DTLVardef@19b5f0borg.highwire.dtl.DTLVardef@17d0157org.highwire.dtl.DTLVardef@1e323a0_HPS_FORMAT_FIGEXP M_FIG C_FIG ]]> Culley, M. K. Mehta, M. Zhao, J. Perk, D. Tai, Y. Y. Tang, Y. Shiva, S. Rabinovitch, M. Gu, M. Bertero, T. Chan, S. Y. 2022-08-23 doi:10.1101/2022.08.22.504849 Cold Spring Harbor Laboratory Press 2022-08-23 <![CDATA[ MicroRNA-218 instructs proper assembly of hippocampal networks ]]> https://biorxiv.org/cgi/content/short/2022.08.24.505085v1?rss=1" Taylor, S. Kobayashi, M. Vilella, A. Tiwari, D. Zolboot, N. Hartzell, A. Girgiss, C. Abaci, Y. De Sanctis, C. Bellenchi, G. C. Darnell, R. B. Gross, C. Zoli, M. Berg, D. K. Lippi, G. 2022-08-25 doi:10.1101/2022.08.24.505085 Cold Spring Harbor Laboratory Press 2022-08-25 <![CDATA[ Redox signaling regulates breast cancer metastasis via HIF1alpha-stimulated EMT dynamics and metabolic reprogramming ]]> https://biorxiv.org/cgi/content/short/2022.08.29.503508v1?rss=1" Ren, Z. Dharmaratne, M. Liang, H. Benard, O. Morales-Gallego, M. Suyama, K. Fard, A. T. Mar, J. C. Prystowsky, M. Norton, L. Hazan, R. B. 2022-08-30 doi:10.1101/2022.08.29.503508 Cold Spring Harbor Laboratory Press 2022-08-30 <![CDATA[ Intestinal stem cell aging at single-cell resolution: functional perturbations alter cell developmental trajectory reversed by gerotherapeutics ]]> https://biorxiv.org/cgi/content/short/2022.08.31.505869v1?rss=1" Choi, J. Houston, M. Wang, R. Ye, K. Li, W. Zhang, X. Huffman, D. M. Augenlicht, L. H. 2022-09-01 doi:10.1101/2022.08.31.505869 Cold Spring Harbor Laboratory Press 2022-09-01 <![CDATA[ Spatial analysis of the metastatic brain tumor immune and extracellular matrix microenvironment ]]> https://biorxiv.org/cgi/content/short/2022.08.30.505945v1?rss=1" Widodo, S. S. Dinevska, M. Cuzcano, L. R. Papanicolaou, M. Cox, T. R. Stylli, S. S. Mantamadiotis, T. 2022-09-02 doi:10.1101/2022.08.30.505945 Cold Spring Harbor Laboratory Press 2022-09-02 <![CDATA[ Chemoenzymatic Measurement of Cell-surface Glycan in Single-cell Multiomics: LacNAc as an Example ]]> https://biorxiv.org/cgi/content/short/2022.09.01.506123v1?rss=1" Yu, W. Zhao, X. Jalloh, A. S. Zhao, Y. Dinner, B. Yang, Y. Ouyang, S. Li, Y. Tian, T. Zhao, Z. Yang, R. Chen, M. Lauvau, G. Guo, Z. Wu, P. Li, J. P. 2022-09-04 doi:10.1101/2022.09.01.506123 Cold Spring Harbor Laboratory Press 2022-09-04 <![CDATA[ Locus-specific proteomics identifies new aspects of the chromatin context involved in V region somatic hypermutation ]]> https://biorxiv.org/cgi/content/short/2022.09.08.507190v1?rss=1" Yu, G. Duan, Z. Zhang, Y. Aguilan, J. Sidoli, S. Scharff, M. D. 2022-09-12 doi:10.1101/2022.09.08.507190 Cold Spring Harbor Laboratory Press 2022-09-12 <![CDATA[ Function of cell adhesion molecules in differentiation of ray sensory neurons in C. elegans. ]]> https://biorxiv.org/cgi/content/short/2022.09.12.507584v1?rss=1" Sakai, N. Sun, P. Kim, B. Emmons, S. W. 2022-09-14 doi:10.1101/2022.09.12.507584 Cold Spring Harbor Laboratory Press 2022-09-14 <![CDATA[ WikiGOA: Gene set enrichment analysis based on Wikipedia and the Gene Ontology ]]> https://biorxiv.org/cgi/content/short/2022.09.15.508149v1?rss=1" Lubiana, T. Dias, T. L. Peixe, D. G. Nakaya, H. T. I. 2022-09-17 doi:10.1101/2022.09.15.508149 Cold Spring Harbor Laboratory Press 2022-09-17 <![CDATA[ Photocycle characterization of a blue-orange cyanobacteriochrome from Synechococcus sp. PCC 7002 ]]> https://biorxiv.org/cgi/content/short/2022.09.18.508392v1?rss=1" Mihnev, A. Amtmann, A. Cogdell, R. McKenzie, D. 2022-09-18 doi:10.1101/2022.09.18.508392 Cold Spring Harbor Laboratory Press 2022-09-18 <![CDATA[ Analysis of somatic mutations in senescent cells using single-cell whole-genome sequencing ]]> https://biorxiv.org/cgi/content/short/2022.09.16.508266v1?rss=1" Zhang, L. De Cecco, M. Lee, M. Hao, X. Maslov, A. Y. Montagna, C. Campisi, J. Dong, X. Sedivy, J. M. Vijg, J. 2022-09-19 doi:10.1101/2022.09.16.508266 Cold Spring Harbor Laboratory Press 2022-09-19 <![CDATA[ CDKL5 regulates p62-mediated selective autophagy and host antiviral defense ]]> https://biorxiv.org/cgi/content/short/2022.09.20.508746v1?rss=1" Thinwa, J. W. Zou, Z. Parks, E. Sebti, S. Hui, K. Singh, V. Wei, Y. Urquhart, G. Jewell, J. L. Pfeiffer, J. K. Levine, B. Reese, T. A. Shiloh, M. U. 2022-09-20 doi:10.1101/2022.09.20.508746 Cold Spring Harbor Laboratory Press 2022-09-20 <![CDATA[ Combined DiI and antibody labeling reveals complex dysgenesis of hippocampal spine synapses in a mouse model of Fragile X Syndrome. ]]> https://biorxiv.org/cgi/content/short/2022.09.20.508741v1?rss=1" Speranza, L. Filiz, K. D. Goebel, S. Perrone-Capano, C. Pulcrano, S. Volpicelli, F. Francesconi, A. 2022-09-22 doi:10.1101/2022.09.20.508741 Cold Spring Harbor Laboratory Press 2022-09-22 <![CDATA[ In-silico analysis of cyanobacteriochrome architectures and spectral diversity ]]> https://biorxiv.org/cgi/content/short/2022.09.22.509050v1?rss=1" Mihnev, A. Amtmann, A. 2022-09-23 doi:10.1101/2022.09.22.509050 Cold Spring Harbor Laboratory Press 2022-09-23 <![CDATA[ Investigation of reversible histone acetylation and dynamics in gene expression regulation using 3D liver spheroid model ]]> https://biorxiv.org/cgi/content/short/2022.09.22.509080v1?rss=1" 40 days) of cells in 3D spheroids, our model enables to monitor the recovery of approximately the same cells that underwent treatment, demonstrating that NaBut does not have long-lasting effects on histone acetylation and gene expression. These results suggest that histone acetylation has minimal epigenetics memory in our spheroids culture. ConclusionTogether, we established an innovative cell culture system that can be used to model anomalously decondensing chromatin in physiological cell growth and rule out epigenetics inheritance if cells recover the original phenotype after treatment. The transient epigenetics effects demonstrated here highlights the relevance of using a 3D culture model system that could be very useful in studies requiring long term drug treatment conditions that would not be possible using a 2D cell monolayer system. ]]> Stransky, S. Cutler, R. Aguilan, J. Nieves, E. Sidoli, S. 2022-09-23 doi:10.1101/2022.09.22.509080 Cold Spring Harbor Laboratory Press 2022-09-23 <![CDATA[ In vivo proximity ligation reveals endogenous candidate interactors of Neurexin's intracellular domain ]]> https://biorxiv.org/cgi/content/short/2022.09.27.509791v1?rss=1" Schaan Profes, M. Tiroumalechetty, A. Patel, N. Lauar, S. S. Sidoli, S. Kurshan, P. 2022-09-28 doi:10.1101/2022.09.27.509791 Cold Spring Harbor Laboratory Press 2022-09-28 <![CDATA[ Development shaped by cue reliability in the barn owl's auditory midbrain ]]> https://biorxiv.org/cgi/content/short/2022.09.29.510116v1?rss=1" Shadron, K. K. Pena, J. L. 2022-09-29 doi:10.1101/2022.09.29.510116 Cold Spring Harbor Laboratory Press 2022-09-29 <![CDATA[ Chromatin regulators in the TBX1 network confer risk for conotruncal heart defects in 22q11.2DS and sporadic congenital heart disease ]]> https://biorxiv.org/cgi/content/short/2022.09.30.507111v1?rss=1" Zhao, Y. Wang, Y. Shi, L. McDonald-McGinn, D. M. Crowley, T. B. McGinn, D. E. Tran, O. T. Miller, D. Zackai, E. Johnston, H. R. Chow, E. Vorstman, J. A. S. Vingerhoets, C. van Amelsvoort, T. Gothelf, D. Swillen, A. Breckpot, J. Vermeesch, J. R. Eliez, S. Schneider, M. van den Bree, M. B. Owen, M. J. Kates, W. Repetto, G. M. Shashi, V. Schoch, K. Bearden, C. E. Digilio, M. C. E. Unolt, M. Putotto, C. Marino, B. Pontillo, M. Armando, M. Vicari, S. Angkustsiri, K. Campbell, L. Busa, T. Heine-Suner, D. Murphy, K. C. Murphy, D. Garcia-Minaur, S. Fernandez, L 2022-10-03 doi:10.1101/2022.09.30.507111 Cold Spring Harbor Laboratory Press 2022-10-03 <![CDATA[ Loss of the MLL3 tumor suppressor accelerates breast tumor onset via HIF1a-induced CCL2-mediated recruitment of CCR2+ regulatory T cells ]]> https://biorxiv.org/cgi/content/short/2022.10.02.510540v1?rss=1" Boutet, M. Erler, P. Nishitani, K. Couturier, N. Zhang, Z. Barbieux, E. Guillen, E. Suzuki, M. Lauvau, G. Guo, W. 2022-10-05 doi:10.1101/2022.10.02.510540 Cold Spring Harbor Laboratory Press 2022-10-05 <![CDATA[ Polycomb Repressive Complex 1 subunit Cbx4 positively regulates effector responses in CD8 T cells ]]> https://biorxiv.org/cgi/content/short/2022.10.03.510675v1?rss=1" Melo, G. A. Xu, T. Caloba, C. Schutte, A. W. Brum, G. Passos, T. O. Higa, L. Goncalves, A. N. A. Tanuri, A. Viola, J. P. B. Werneck, M. B. F. Nakaya, H. Pipkin, M. E. Martinez, G. J. Pereira, R. M. 2022-10-07 doi:10.1101/2022.10.03.510675 Cold Spring Harbor Laboratory Press 2022-10-07 <![CDATA[ Iron Chelation Improves Ineffective Erythropoiesis and Iron Overload in Myelodysplastic Syndrome Mice ]]> https://biorxiv.org/cgi/content/short/2022.10.05.510967v1?rss=1" An, W. Feola, M. Aluri, S. Ruiz-Martinez, M. Sridharan, A. Levy, M. Fibach, E. Zhu, X. Verma, A. K. Ginzburg, Y. 2022-10-07 doi:10.1101/2022.10.05.510967 Cold Spring Harbor Laboratory Press 2022-10-07 <![CDATA[ SARS-CoV-2 multi-antigen protein microarray for detailed characterization of antibody responses in COVID-19 patients ]]> https://biorxiv.org/cgi/content/short/2022.10.14.512324v1?rss=1" Celikgil, A. Massimi, A. B. Nakouzi, A. Herrera, N. G. Morano, N. C. Lee, J. H. Yoon, H. a. Garforth, S. J. Almo, S. C. 2022-10-16 doi:10.1101/2022.10.14.512324 Cold Spring Harbor Laboratory Press 2022-10-16 <![CDATA[ DISRUPTION OF SYMPATHETIC OUTFLOW TO INTRA-ABDOMINAL ORGANS EMULATES THE METABOLIC EFFECTS OF SLEEVE GASTRECTOMY IN OBESE MICE ]]> https://biorxiv.org/cgi/content/short/2022.10.17.512615v1?rss=1" Emiliano, A. Kraljevic, M. Lopatinsky, N. R. Batista, R. Jiang, C. Schwartz, G. J. 2022-10-21 doi:10.1101/2022.10.17.512615 Cold Spring Harbor Laboratory Press 2022-10-21 <![CDATA[ Spatiotemporal coordination of stem cell behavior following alveolar injury ]]> https://biorxiv.org/cgi/content/short/2022.10.28.514255v1?rss=1" Chioccioli, M. Magruder, S. McDonough, J. E. Nouws, J. Gonzalez, D. Borriello, L. Traub, B. Ye, X. Hendry, C. E. Entenberg, D. Kaminski, N. Krishnaswamy, S. Sauler, M. 2022-10-30 doi:10.1101/2022.10.28.514255 Cold Spring Harbor Laboratory Press 2022-10-30 <![CDATA[ Structural insights into 3Fe-4S ferredoxins diversity in M.tuberculosis highlighted by a first redox complex with P450. ]]> https://biorxiv.org/cgi/content/short/2022.11.02.514812v1?rss=1" Gilep, A. Varaksa, T. Bukhdruker, S. Kavaleuski, A. Ryzhykau, Y. Smolskaya, S. Sushko, T. Tsumoto, K. Grabovec, I. Kapranov, I. Okhrimenko, I. Marin, E. Shevtsov, M. Mishin, A. Kovalev, K. Kuklin, A. Gordeliy, V. Kaluzhskiy, L. Gnedenko, O. Yablokov, E. Ivanov, A. Borshchevskiy, V. Strushkevich, N. 2022-11-02 doi:10.1101/2022.11.02.514812 Cold Spring Harbor Laboratory Press 2022-11-02 <![CDATA[ Nucleotide-free structures of Kif20A illuminate the atypical allostery in this mitotic kinesin-6 ]]> https://biorxiv.org/cgi/content/short/2022.11.10.515925v1?rss=1" Ranaivoson, F. M. Crozet, V. Benoit, M. Mohammed Khalid, A. A. Kikuti, C. Sirkia, H. El Marjou, A. Asenjo, A. Sosa, H. Schmidt, C. Rosenfeld, S. Houdusse, A. 2022-11-10 doi:10.1101/2022.11.10.515925 Cold Spring Harbor Laboratory Press 2022-11-10 <![CDATA[ Expression of retrotransposons contributes to aging in Drosophila ]]> https://biorxiv.org/cgi/content/short/2022.11.14.516438v1?rss=1" Schneider, B. K. Sun, S. Lee, M. Li, W. Skvir, N. Neretti, N. Vijg, J. Secombe, J. 2022-11-15 doi:10.1101/2022.11.14.516438 Cold Spring Harbor Laboratory Press 2022-11-15 <![CDATA[ All-or-None Evaluation of Prediction Certainty in Autism ]]> https://biorxiv.org/cgi/content/short/2022.11.17.516919v1?rss=1" Reisli, S. Crosse, M. J. Molholm, S. 2022-11-17 doi:10.1101/2022.11.17.516919 Cold Spring Harbor Laboratory Press 2022-11-17 <![CDATA[ Proximity labeling reveals a new in vivo network of interactors for the histone demethylase KDM5 ]]> https://biorxiv.org/cgi/content/short/2022.11.20.517232v1?rss=1" Yheskel, M. Sidoli, S. Secombe, J. 2022-11-20 doi:10.1101/2022.11.20.517232 Cold Spring Harbor Laboratory Press 2022-11-20 <![CDATA[ Mapping the content of comments on bioRxiv and medRxiv preprints ]]> https://biorxiv.org/cgi/content/short/2022.11.23.517621v1?rss=1" Carneiro, C. F. D. Costa, G. Neves, K. Abreu, M. B. Tan, P. B. Rayee, D. Boos, F. Andrejew, R. Lubiana, T. Malicki, M. Amaral, O. B. 2022-11-24 doi:10.1101/2022.11.23.517621 Cold Spring Harbor Laboratory Press 2022-11-24 <![CDATA[ Measuring cell-to-cell expression variability in single-cell RNA-sequencing data: a comparative analysis and applications to B cell ageing ]]> https://biorxiv.org/cgi/content/short/2022.11.24.517880v1?rss=1" Zheng, H. Vijg, J. Taherian Fard, A. Mar, J. C. 2022-11-25 doi:10.1101/2022.11.24.517880 Cold Spring Harbor Laboratory Press 2022-11-25 <![CDATA[ Pynapple: a toolbox for data analysis in neuroscience. ]]> https://biorxiv.org/cgi/content/short/2022.12.06.519376v1?rss=1" Viejo, G. Levenstein, D. Carrasco, S. S. Mehrotra, D. Mahallati, S. Vite, G. R. Denny, H. Sjulson, L. Battaglia, F. P. Peyrache, A. 2022-12-07 doi:10.1101/2022.12.06.519376 Cold Spring Harbor Laboratory Press 2022-12-07 <![CDATA[ An in vivo platform for rebuilding functional neocortical tissue ]]> https://biorxiv.org/cgi/content/short/2022.12.09.519776v1?rss=1" Quezada, A. Ward, C. Bader, E. R. Zolotavin, P. Altun, E. Hong, S. Killian, N. Xie, C. Batista-Brito, R. Hebert, J. M. 2022-12-11 doi:10.1101/2022.12.09.519776 Cold Spring Harbor Laboratory Press 2022-12-11 <![CDATA[ Visualization of early RNA replication kinetics of SARS-CoV-2 by using single molecule RNA-FISH ]]> https://biorxiv.org/cgi/content/short/2022.12.10.517707v1?rss=1" Pathak, R. Eliscovich, C. Mena, I. Dixit, U. Garcia-Sastre, A. Singer, R. Kalpana, G. V. 2022-12-12 doi:10.1101/2022.12.10.517707 Cold Spring Harbor Laboratory Press 2022-12-12 <![CDATA[ Chaotic signatures in host-microbe interactions ]]> https://biorxiv.org/cgi/content/short/2022.12.14.520402v1?rss=1" Sella, Y. Broderick, N. A. Stouffer, K. McEwan, D. L. Ausubel, F. M. Casadevall, A. Bergman, A. 2022-12-14 doi:10.1101/2022.12.14.520402 Cold Spring Harbor Laboratory Press 2022-12-14 <![CDATA[ Cleavage of cFLIP restrains cell death during viral infection and tissue injury and favors tissue repair ]]> https://biorxiv.org/cgi/content/short/2022.12.15.520548v1?rss=1" Martinez Lagunas, K. Savcigil, D. P. Zrilic, M. Carvajal Fraile, C. Craxton, A. Self, E. Uranga, I. de Miguel, D. Arias, M. Willenborg, S. Piekarek, M. Albert, M. C. Nugraha, K. Lisewski, I. Janakova, E. Igual, N. Tonnus, W. Hilendbrandt, X. Ibrahim, M. Ballegeer, M. Saelens, X. Kueh, A. J. Meier, P. Linkermann, A. Pardo, J. Eming, S. Walczak, H. MacFarlane, M. Peltzer, N. Annibaldi, A. 2022-12-15 doi:10.1101/2022.12.15.520548 Cold Spring Harbor Laboratory Press 2022-12-15 <![CDATA[ Laminar Neural Dynamics of Auditory Evoked Responses: Computational Modeling of Local Field Potentials in Auditory Cortex of Non-Human Primates ]]> https://biorxiv.org/cgi/content/short/2022.12.21.521407v1?rss=1" Chien, S.-C. Wang, P. Maess, B. Fishman, Y. Knoesche, T. 2022-12-21 doi:10.1101/2022.12.21.521407 Cold Spring Harbor Laboratory Press 2022-12-21 <![CDATA[ An optimized approach for multiplexing single-nuclear ATAC-seq using oligonucleotide conjugated antibodies ]]> https://biorxiv.org/cgi/content/short/2022.12.22.521637v1?rss=1" Bera, B. S. Thompson, T. V. Sosa, E. Nomaru, H. Reynolds, D. Dubin, R. A. Maqbool, S. B. Zheng, D. Morrow, B. E. Greally, J. M. Suzuki, M. 2022-12-22 doi:10.1101/2022.12.22.521637 Cold Spring Harbor Laboratory Press 2022-12-22 <![CDATA[ Cooperative NF-κB and Notch1 signaling promotes macrophage-mediated MenaINV expression in breast cancer ]]> https://biorxiv.org/cgi/content/short/2023.01.03.522642v1?rss=1" Duran, C. L. Karagiannis, G. S. Chen, X. Sharma, V. P. Entenberg, D. Condeelis, J. S. Oktay, M. H. 2023-01-03 doi:10.1101/2023.01.03.522642 Cold Spring Harbor Laboratory Press 2023-01-03 <![CDATA[ Genetics of Latin American Diversity (GLAD) Project: insights into population genetics and association studies in recently admixed groups in the Americas ]]> https://biorxiv.org/cgi/content/short/2023.01.07.522490v1?rss=1" Borda, V. Loesch, D. P. Guo, B. Laboulaye, R. Veliz-Otani, D. French-Kwawu, J. N. Peixoto Leal, T. Gogarten, S. M. Ikpe, S. Gouveia, M. H. Mendes, M. Abecasis, G. R. Alvim, I. Arboleda-Bustos, C. E. Arboleda, G. Arboleda, H. Barreto, M. L. Barwick, L. Bezzera, M. A. Blangero, J. Borges, V. Caceres, O. Cai, J. Chana-Cuevas, P. Chen, Z. Custer, B. Dean, M. Dinardo, C. Domingos, I. Duggirala, R. Dieguez, E. Fernandez, W. Ferraz, H. B. Gilliland, F. D. Guio, H. Horta, B. Curran, J. E. Johnsen, J. M. Kaplan, R. C. Kelly, S. Kenny, E. E. Kittner, S. Konkle, 2023-01-09 doi:10.1101/2023.01.07.522490 Cold Spring Harbor Laboratory Press 2023-01-09 <![CDATA[ Restructuring of an asymmetric neural circuit during associative learning ]]> https://biorxiv.org/cgi/content/short/2023.01.12.523604v1?rss=1" Tang, L. T. H. Lee, G. A. Cook, S. J. Ho, J. Potter, C. C. Buelow, H. E. 2023-01-13 doi:10.1101/2023.01.12.523604 Cold Spring Harbor Laboratory Press 2023-01-13 <![CDATA[ Periosteal skeletal stem cells can migrate into the bone marrow and support hematopoiesis after injury ]]> https://biorxiv.org/cgi/content/short/2023.01.12.523842v1?rss=1" Marchand, T. Akinnola, K. E. Takeishi, S. Maryanovich, M. Pinho, S. Saint-Vanne, J. Birbrair, A. Lamy, T. Tarte, K. Frenette, P. Gritsman, K. 2023-01-13 doi:10.1101/2023.01.12.523842 Cold Spring Harbor Laboratory Press 2023-01-13 <![CDATA[ Excitation and inhibition delays within a feedforward inhibitory pathway modulate cerebellar Purkinje cell output in mice ]]> https://biorxiv.org/cgi/content/short/2023.01.18.524515v1?rss=1" Binda, F. Spaeth, L. Kumar, A. Isope, P. 2023-01-18 doi:10.1101/2023.01.18.524515 Cold Spring Harbor Laboratory Press 2023-01-18 <![CDATA[ Role of Gut Microbiome in Neoadjuvant Chemotherapy Response in Urothelial Carcinoma: A Multi-Institutional Prospective Cohort Evaluation ]]> https://biorxiv.org/cgi/content/short/2023.01.21.525021v1?rss=1" Bukavina, L. Ginwala, R. Sindhani, M. Prunty, M. Geynisman, D. Pooja, G. Valentine, H. Calaway, A. Brown, J. R. Correa, A. Mishra, K. Pominville, R. Plimack, E. Kutikov, A. Ghannoum, M. ElShaer, M. Retuerto, M. Uzzo, R. Ponsky, L. Abbosh, P. H. 2023-01-23 doi:10.1101/2023.01.21.525021 Cold Spring Harbor Laboratory Press 2023-01-23 <![CDATA[ Structural variation across 138,134 samples in the TOPMed consortium ]]> https://biorxiv.org/cgi/content/short/2023.01.25.525428v1?rss=1" 90% allele concordance compared to long-read de-novo assemblies of well-characterized control samples. We demonstrate utility through significant associations between SVs and important various cardio-metabolic and hemotologic traits. We have identified 690 SV hotspots and deserts and those that potentially impact the regulation of medically relevant genes. This catalog characterizes SVs across multiple populations and will serve as a valuable tool to understand the impact of SV on disease development and progression. ]]> Jun, G. English, A. C. Metcalf, G. A. Yang, J. Chaisson, M. J. Pankratz, N. Menon, V. K. Salerno, W. J. Krasheninina, O. Smith, A. V. Lane, J. A. Blackwell, T. Kang, H. M. Salvi, S. Meng, Q. Shen, H. Pasham, D. Bhamidipati, S. Kottapalli, K. Arnett, D. K. Ashley-Koch, A. Auer, P. L. Beutel, K. M. Bis, J. C. Blangero, J. Bowden, D. W. Brody, J. A. Cade, B. E. Chen, Y.-D. I. Cho, M. H. Curran, J. E. Fornage, M. Freedman, B. I. Fingerlin, T. Gelb, B. D. Hou, L. Hung, Y.-J. Kane, J. P. Kaplan, R. Kim, W. Loos, R. J. F. Marcus,, G. M. Mathias, R. A. McGarv 2023-01-26 doi:10.1101/2023.01.25.525428 Cold Spring Harbor Laboratory Press 2023-01-26 <![CDATA[ Assessing the functional impact of protein binding site definition ]]> https://biorxiv.org/cgi/content/short/2023.01.26.525812v1?rss=1" Nandigrami, P. Fiser, A. 2023-01-27 doi:10.1101/2023.01.26.525812 Cold Spring Harbor Laboratory Press 2023-01-27 <![CDATA[ Genetic control of mRNA splicing as a potential mechanism for incomplete penetrance of rare coding variants ]]> https://biorxiv.org/cgi/content/short/2023.01.31.526505v1?rss=1" Einson, J. Glinos, D. Boerwinkle, E. Castaldi, P. Darbar, D. de Andrade, M. Ellinor, P. Fornage, M. Gabriel, S. Germer, S. Gibbs, R. Hersh, C. Johnsen, J. Kaplan, R. Konkle, B. Kooperberg, C. Nassir, R. Loos, R. J. F. Meyers, D. A. Mitchell, B. D. Psaty, B. Vasan, R. S. Rich, S. S. Rienstra, M. Rotter, J. I. Saferali, A. Shoemaker, M. B. Silverman, E. Smith, A. V. Mohammadi, P. Castel, S. E. Iossifov, I. Lappalainen, T. 2023-01-31 doi:10.1101/2023.01.31.526505 Cold Spring Harbor Laboratory Press 2023-01-31 <![CDATA[ High-Resolution structures of microtubule-bound KIF1A and its pathogenic variant P305L ]]> https://biorxiv.org/cgi/content/short/2023.02.02.526913v1?rss=1" Benoit, M. P. M. H. Rao, L. Asenjo, A. B. Gennerich, A. Sosa, H. J. 2023-02-03 doi:10.1101/2023.02.02.526913 Cold Spring Harbor Laboratory Press 2023-02-03 <![CDATA[ Chromatin remodeling enzyme Snf2h is essential for retinal cell proliferation and photoreceptor maintenance ]]> https://biorxiv.org/cgi/content/short/2023.02.13.528323v1?rss=1" Kuzelova, A. Dupacova, N. Antosova, B. Sunny, S. S. Kozmik, Z. Paces, J. Skoultchi, A. I. Stopka, T. Kozmik, Z. 2023-02-13 doi:10.1101/2023.02.13.528323 Cold Spring Harbor Laboratory Press 2023-02-13 <![CDATA[ The SapM phosphatase arrests phagosome maturation in an ESX-1 independent manner in Mycobacterium tuberculosis and BCG ]]> https://biorxiv.org/cgi/content/short/2023.02.13.528419v1?rss=1" Xander, C. Rajagopalan, S. Jacobs, W. R. Braunstein, M. 2023-02-14 doi:10.1101/2023.02.13.528419 Cold Spring Harbor Laboratory Press 2023-02-14 <![CDATA[ A hyper-quiescent chromatin state formed during aging is reversed by regeneration ]]> https://biorxiv.org/cgi/content/short/2023.02.14.528512v1?rss=1" Yang, N. Occean, J. R. Melters, D. P. Shi, C. Wang, L. Stransky, S. Doyle, M. E. Cui, C.-Y. Delannoy, M. Fan, J. Slama, E. Egan, J. M. De, S. Cunningham, S. C. Cabo, R. d. Sidoli, S. Dalal, Y. Sen, P. 2023-02-15 doi:10.1101/2023.02.14.528512 Cold Spring Harbor Laboratory Press 2023-02-15 <![CDATA[ Fine-tuning spatial-temporal dynamics and surface receptor expression support plasma cell-intrinsic longevity ]]> https://biorxiv.org/cgi/content/short/2023.02.15.527913v1?rss=1" Jing, Z. Galbo, P. Ovando, L. Demouth, M. Welte, S. Park, R. Chandran, K. Wu, Y. MacCarthy, T. Zheng, D. Fooksman, D. 2023-02-15 doi:10.1101/2023.02.15.527913 Cold Spring Harbor Laboratory Press 2023-02-15 <![CDATA[ Gene body DNA hydroxymethylation restricts the magnitude of transcriptional changes during aging ]]> https://biorxiv.org/cgi/content/short/2023.02.15.528714v1?rss=1" Occean, J. R. Yang, N. Sun, Y. Dawkins, M. S. Munk, R. Belair, C. Dar, S. Anerillas, C. Wang, L. Shi, C. Dunn, C. Bernier, M. Price, N. L. Kim, J. S. Cui, C.-Y. Fan, J. Bhattacharyya, M. De, S. Maragkakis, M. Cabo, R. d. Sidoli, S. Sen, P. 2023-02-15 doi:10.1101/2023.02.15.528714 Cold Spring Harbor Laboratory Press 2023-02-15 <![CDATA[ Macrophages Promote Tumor Cell Extravasation across an Endothelial Barrier through Thin Membranous Connections ]]> https://biorxiv.org/cgi/content/short/2023.02.16.528161v1?rss=1" Genna, A. Duran, C. L. Entenberg, D. Condeelis, J. S. Cox, D. 2023-02-16 doi:10.1101/2023.02.16.528161 Cold Spring Harbor Laboratory Press 2023-02-16 <![CDATA[ Transcription elongation defects link oncogenic splicing factor mutations to targetable alterations in chromatin landscape ]]> https://biorxiv.org/cgi/content/short/2023.02.25.530019v1?rss=1" View larger version (50K): org.highwire.dtl.DTLVardef@dc6d22org.highwire.dtl.DTLVardef@180f36borg.highwire.dtl.DTLVardef@ed341forg.highwire.dtl.DTLVardef@f8dfb2_HPS_FORMAT_FIGEXP M_FIG C_FIG ]]> Boddu, P. C. Gupta, A. K. Roy, R. De La Pena Avalos, B. Olazabal Herrero, A. Neuenkirchen, N. Zimmer, J. Chandhok, N. S. King, D. Nannya, Y. Ogawa, S. Lin, H. Simon, M. Dray, E. Kupfer, G. Verma, A. K. Neugebauer, K. M. Pillai, M. M. 2023-02-26 doi:10.1101/2023.02.25.530019 Cold Spring Harbor Laboratory Press 2023-02-26 <![CDATA[ Substrate stiffness facilitates improved induced pluripotent stem cell production through modulation of both early and late phases of cell reprogramming ]]> https://biorxiv.org/cgi/content/short/2023.02.27.530366v1?rss=1" Chowdhury, M. M. Samuel Zimmerman, S. Leeson, H. Nefzger, C. Mar, J. C. Laslett, A. Polo, J. M. Wolvetang, E. J. Cooper-White, J. J. 2023-03-01 doi:10.1101/2023.02.27.530366 Cold Spring Harbor Laboratory Press 2023-03-01 <![CDATA[ Delayed formation of neural representations of space in aged mice ]]> https://biorxiv.org/cgi/content/short/2023.03.03.531021v1?rss=1" McDermott, K. D. Frechou, M. A. Jordan, J. T. Martin, S. S. Goncalves, J. T. 2023-03-06 doi:10.1101/2023.03.03.531021 Cold Spring Harbor Laboratory Press 2023-03-06 <![CDATA[ Dynamic network-guided CRISPRi screen reveals CTCF loop-constrained nonlinear enhancer-gene regulatory activity in cell state transitions ]]> https://biorxiv.org/cgi/content/short/2023.03.07.531569v1?rss=1" Luo, R. Yan, J. Oh, J. W. Xi, W. Shigaki, D. Wong, W. Cho, H. Murphy, D. Cutler, R. Rosen, B. P. Pulecio, J. Yang, D. Glenn, R. Chen, T. Li, Q. V. Vierbuchen, T. Sidoli, S. Apostolou, E. Huangfu, D. Beer, M. A. 2023-03-09 doi:10.1101/2023.03.07.531569 Cold Spring Harbor Laboratory Press 2023-03-09 <![CDATA[ Regulation of FMRP granule structure and function through phosphorylation ]]> https://biorxiv.org/cgi/content/short/2023.03.15.532613v1?rss=1" Kharod, S. C. Hwang, D. Castillo, P. E. Yoon, Y. J. 2023-03-15 doi:10.1101/2023.03.15.532613 Cold Spring Harbor Laboratory Press 2023-03-15 <![CDATA[ Host genetic variation guides hepacivirus clearance, chronicity, and liver fibrosis in mice ]]> https://biorxiv.org/cgi/content/short/2023.03.18.533278v1?rss=1" Brown, A. J. Won, J. Wolfisberg, R. Fanhoe, U. Catanzaro, N. West, A. Moreira, F. Nogeuira Batista, M. Ferris, M. T. Linnertz, C. Leist, S. R. Nguyen, C. De la Cruz, G. Midkiff, B. Xia, Y. Montgomery, S. A. Billerbeck, E. Bukh, J. Scheel, T. Rice, C. M. Sheahan, T. P. 2023-03-19 doi:10.1101/2023.03.18.533278 Cold Spring Harbor Laboratory Press 2023-03-19 <![CDATA[ Structural basis for functional properties of cytochrome c oxidase ]]> https://biorxiv.org/cgi/content/short/2023.03.20.530986v1?rss=1" Ishigami, I. Sierra, R. G. Su, Z. Peck, A. Wang, C. Poitevin, F. Lisova, S. Hayes, B. Moss, F. R. Boutet, S. Sublett, R. E. Yoon, C. H. Yeh, S.-R. Rousseau, D. L. 2023-03-22 doi:10.1101/2023.03.20.530986 Cold Spring Harbor Laboratory Press 2023-03-22 <![CDATA[ Mind of a dauer: Comparative connectomics reveals developmental plasticity ]]> https://biorxiv.org/cgi/content/short/2023.03.23.533915v1?rss=1" Yim, H. Choe, D. T. Bae, J. A. Kang, H.-M. Nguyen, K. C. Q. Choi, M.-k. Ahn, S. Bahn, S.-k. Yang, H. Hall, D. H. Kim, J. S. Lee, J. 2023-03-23 doi:10.1101/2023.03.23.533915 Cold Spring Harbor Laboratory Press 2023-03-23 <![CDATA[ Self-formation of concentric zones of telencephalic and ocular tissues and directional retinal ganglion cell axons ]]> https://biorxiv.org/cgi/content/short/2023.03.22.533827v1?rss=1" Liu, W. Shrestha, R. Lowe, A. Zhang, X. Spaeth, L. 2023-03-24 doi:10.1101/2023.03.22.533827 Cold Spring Harbor Laboratory Press 2023-03-24 <![CDATA[ A local ATR-dependent checkpoint pathway is activated by a site-specific replication fork block in human cells ]]> https://biorxiv.org/cgi/content/short/2023.03.26.534293v1?rss=1" Ahmed-Seghir, S. Jalan, M. Grimsley, H. E. Sharma, A. Twayana, S. Kosiyatrakul, S. T. Thompson, C. Schildkraut, C. L. Powell, S. N. 2023-03-26 doi:10.1101/2023.03.26.534293 Cold Spring Harbor Laboratory Press 2023-03-26 <![CDATA[ Response inhibition and error-monitoring in cystinosis (CTNS gene mutations): Behavioral and electrophysiological evidence of a diverse set of difficulties ]]> https://biorxiv.org/cgi/content/short/2023.03.31.535145v1?rss=1" Francisco, A. A. Foxe, J. J. Berruti, A. Horsthuis, D. J. Molholm, S. 2023-04-02 doi:10.1101/2023.03.31.535145 Cold Spring Harbor Laboratory Press 2023-04-02 <![CDATA[ Event-related potential (ERP) evidence of early visual processing differences in cystinosis ]]> https://biorxiv.org/cgi/content/short/2023.03.31.535154v1?rss=1" Horsthuis, D. J. Molholm, S. Foxe, J. J. Francisco, A. A. 2023-04-02 doi:10.1101/2023.03.31.535154 Cold Spring Harbor Laboratory Press 2023-04-02 <![CDATA[ Novel non hot spot modification in Fks1 of Candida auris confers echinocandin resistance ]]> https://biorxiv.org/cgi/content/short/2023.03.29.534846v1?rss=1" 64x; MCF >64x). ]]> Kordalewska, M. Cancino-Prado, G. Nobrega de Almeida, J. Brasil Brandao, I. Tigulini de Souza Peral, R. Lopes Colombo, A. Perlin, D. S. 2023-04-03 doi:10.1101/2023.03.29.534846 Cold Spring Harbor Laboratory Press 2023-04-03 <![CDATA[ The role of microglial LRRK2 in manganese-induced inflammatory neurotoxicity via NLRP3 inflammasome and RAB10-mediated autophagy dysfunction ]]> https://biorxiv.org/cgi/content/short/2023.04.03.535418v1?rss=1" Pajarillo, E. Kim, S. Digman, A. Dutton, M. Son, D.-S. Aschner, M. Lee, E. 2023-04-04 doi:10.1101/2023.04.03.535418 Cold Spring Harbor Laboratory Press 2023-04-04 <![CDATA[ Histone Deacetylases (HDACs) maintain expression of the pluripotent gene network via recruitment of RNA polymerase II to coding and non-coding loci ]]> https://biorxiv.org/cgi/content/short/2023.04.06.535398v1?rss=1" Kelly, R. Stengel, K. Chandru, A. Johnson, L. Hiebert, S. W. Cowley, S. M. 2023-04-06 doi:10.1101/2023.04.06.535398 Cold Spring Harbor Laboratory Press 2023-04-06 <![CDATA[ StocSum: stochastic summary statistics for whole genome sequencing studies ]]> https://biorxiv.org/cgi/content/short/2023.04.06.535886v1?rss=1" Wang, N. Yu, B. Jun, G. Qi, Q. Durazo-Arvizu, R. A. Lindstroem, S. Morrison, A. Kaplan, R. C. Boerwinkle, E. Chen, H. 2023-04-06 doi:10.1101/2023.04.06.535886 Cold Spring Harbor Laboratory Press 2023-04-06 <![CDATA[ Engineering GliaTrap: a biodegradable non-swelling hydrogel with tuned release of CXCL12 to attract migrating glioblastoma cells ]]> https://biorxiv.org/cgi/content/short/2023.04.12.536581v1?rss=1" Suita, Y. Miriyala, S. Merih-Toruner, D. Yue, W. Xie, L. Akobundu, B. Perch, N. Fiser, A. Fajardo, E. Shen, J. Tapinos, N. 2023-04-13 doi:10.1101/2023.04.12.536581 Cold Spring Harbor Laboratory Press 2023-04-13 <![CDATA[ SARS-CoV-2 selectively induces the expression of unproductive splicing isoforms of interferon, class I MHC and splicing machinery genes ]]> https://biorxiv.org/cgi/content/short/2023.04.12.536671v1?rss=1" Lüscher Dias, T. Mamede Costa Andrade da Conceicao, I. Toledo, N. E. Queiroz, L. R. de Castro, I. M. S. Polidoro, R. B. Del-Bem, L.-E. Nakaya, H. Franco, G. R. 2023-04-13 doi:10.1101/2023.04.12.536671 Cold Spring Harbor Laboratory Press 2023-04-13 <![CDATA[ EOGT Enables Residual Notch Signaling in Mouse Intestinal Cells Lacking POFUT1 ]]> https://biorxiv.org/cgi/content/short/2023.04.14.536788v1?rss=1" Nauman, M. Varshney, S. Choi, J. Augenlicht, L. H. Stanley, P. 2023-04-14 doi:10.1101/2023.04.14.536788 Cold Spring Harbor Laboratory Press 2023-04-14 <![CDATA[ Early-life stress and ovarian hormones alter transcriptional regulation in the nucleus accumbens resulting in sex-specific responses to cocaine ]]> https://biorxiv.org/cgi/content/short/2023.04.14.536984v1?rss=1" Rocks, D. Jaric, I. Bellia, F. Cham, H. Greally, J. M. Suzuki, M. Kundakovic, M. 2023-04-15 doi:10.1101/2023.04.14.536984 Cold Spring Harbor Laboratory Press 2023-04-15 <![CDATA[ mRNA Localization and Local Translation of the Microtubule Severing Enzyme, Fidgetin-Like 2, in Polarization, Migration and Outgrowth ]]> https://biorxiv.org/cgi/content/short/2023.04.17.537087v1?rss=1" View larger version (20K): org.highwire.dtl.DTLVardef@139f4e5org.highwire.dtl.DTLVardef@1fd1a4eorg.highwire.dtl.DTLVardef@1ca17b4org.highwire.dtl.DTLVardef@da2b56_HPS_FORMAT_FIGEXP M_FIG C_FIG HighlightsO_LIThe microtubule severing enzyme FL2 RNA is localized to the leading edge C_LIO_LIFL2 mRNA localization leads to FL2 translation within protrusions C_LIO_LIThe IMP family works in concert with Let-7 miRNA to regulate FL2 mRNA C_LI ]]> Birnbaum, R. Biswas, J. Singer, R. Sharp, D. 2023-04-17 doi:10.1101/2023.04.17.537087 Cold Spring Harbor Laboratory Press 2023-04-17 <![CDATA[ Transcription promotes the restoration of chromatin following DNA replication. ]]> https://biorxiv.org/cgi/content/short/2023.04.19.537523v1?rss=1" Bandau, S. Alvarez, V. Jiang, H. Graff, S. Sundaramoorthy, R. Toman, M. Owen-Hughes, T. Sidoli, S. Lamond, A. I. Alabert, C. 2023-04-20 doi:10.1101/2023.04.19.537523 Cold Spring Harbor Laboratory Press 2023-04-20 <![CDATA[ Identification of allele-specific KIV-2 repeats and impact on Lp(a) measurements for cardiovascular disease risk ]]> https://biorxiv.org/cgi/content/short/2023.04.24.538128v1?rss=1" Behera, S. Belyeu, J. Chen, X. Paulin, L. F. Nguyen, N. Q. Newman, E. Mahmoud, M. Menon, V. K. Qi, Q. Joshi, P. Marcovina, S. Rossi, M. Roller, E. Han, J. Onuchic, V. Avery, C. L. Ballantyne, C. M. Rodriguez, C. J. Kaplan, R. C. Muzny, D. M. Metcalf, G. A. Gibbs, R. Yu, B. Boerwinkle, E. Eberle, M. A. Sedlazeck, F. J. 2023-04-27 doi:10.1101/2023.04.24.538128 Cold Spring Harbor Laboratory Press 2023-04-27 <![CDATA[ Dopamine D2 receptors in mossy cells reduce excitatory transmission and are essential for hippocampal function ]]> https://biorxiv.org/cgi/content/short/2023.05.05.539468v1?rss=1" Gulfo, M. C. Lebowitz, J. J. Ramos, C. Hwang, D.-W. Nasrallah, K. Castillo, P. E. 2023-05-05 doi:10.1101/2023.05.05.539468 Cold Spring Harbor Laboratory Press 2023-05-05 <![CDATA[ Reduced frequency of clonal hematopoiesis in Parkinson's disease ]]> https://biorxiv.org/cgi/content/short/2023.05.04.539397v1?rss=1" Sun, S. Sproviero, D. Payan-Gomez, C. Huang, Z. Hoeijmakers, J. H. J. Maslov, A. Y. Mastroberardino, P. G. Vijg, J. 2023-05-07 doi:10.1101/2023.05.04.539397 Cold Spring Harbor Laboratory Press 2023-05-07 <![CDATA[ DNA repair and anti-cancer mechanisms in the longest-living mammal: the bowhead whale ]]> https://biorxiv.org/cgi/content/short/2023.05.07.539748v1?rss=1" Firsanov, D. Zacher, M. Tian, X. Zhao, Y. George, J. C. Sformo, T. L. Tombline, G. Biashad, S. A. Gilman, A. Hamilton, N. Patel, A. Straight, M. Lee, M. Lu, J. Y. Haseljic, E. Williams, A. Miller, N. Gladyshev, V. N. Zhang, Z. Vijg, J. Seluanov, A. Gorbunova, V. 2023-05-08 doi:10.1101/2023.05.07.539748 Cold Spring Harbor Laboratory Press 2023-05-08 <![CDATA[ Monomethylation of Lysine 27 at Histone 3 Confers Lifelong Susceptibility to Stress ]]> https://biorxiv.org/cgi/content/short/2023.05.08.539829v1?rss=1" Torres-Berrio, A. Estill, M. Ramakrishnan, A. Kronman, H. Patel, V. Minier-Toribio, A. Issler, O. Browne, C. J. Parise, E. van der Zee, Y. Walker, D. Martinez-Rivera, F. J. Lardner, C. K. Durand, R. Russo, S. Shen, L. Sidoli, S. Nestler, E. J. 2023-05-08 doi:10.1101/2023.05.08.539829 Cold Spring Harbor Laboratory Press 2023-05-08 <![CDATA[ Detection of a geminate photoproduct of bovine cytochrome c oxidase by time-resolved serial femtosecond crystallography ]]> https://biorxiv.org/cgi/content/short/2023.05.08.539888v1?rss=1" Yeh, S.-R. Ishigami, I. Rousseau, D. L. Carbajo, S. Zatsepin, N. Coe, J. Hikita, M. Seaberg, M. H. Sierra, R. G. Hunter, M. S. Fromme, P. Fromme, R. Nelson, G. Grant, T. Basu, S. Conrad, C. 2023-05-10 doi:10.1101/2023.05.08.539888 Cold Spring Harbor Laboratory Press 2023-05-10 <![CDATA[ SKP2 knockout in Rb1/p53 deficient mouse models of osteosarcoma induces immune infiltration and drives a transcriptional program with a favorable prognosis ]]> https://biorxiv.org/cgi/content/short/2023.05.09.540053v1?rss=1" Ferrena, A. Wang, J. Zhang, R. Karadal-Ferrena, B. al-Hardan, W. Singh, S. Borjihan, H. Schwartz, E. Zhao, H. Yang, R. Geller, D. Hoang, B. Zheng, D. 2023-05-12 doi:10.1101/2023.05.09.540053 Cold Spring Harbor Laboratory Press 2023-05-12 <![CDATA[ Targeted inhibition of SCF-SKP2 confers anti-tumor activities resulting in a survival benefit in osteosarcoma ]]> https://biorxiv.org/cgi/content/short/2023.05.13.540637v1?rss=1" Wang, J. Ferrena, A. Singh, S. Viscarret, V. Al-Hardan, W. Aldahamsheh, O. Borjihan, H. Singla, A. Yaguare, S. Tingling, J. Zi, X. Lo, Y. Gorlick, R. Schwartz, E. L. Zhao, H. Yang, R. Geller, D. S. Zheng, D. Hoang, B. H. 2023-05-14 doi:10.1101/2023.05.13.540637 Cold Spring Harbor Laboratory Press 2023-05-14 <![CDATA[ PROX1 inhibits PDGF-B expression to prevent myxomatous degeneration of heart valves ]]> https://biorxiv.org/cgi/content/short/2023.05.10.540284v1?rss=1" Ho, Y.-C. Geng, X. O'Donnell, A. Ibarrola, J. Fernandez-Celis, A. Varshney, R. Subramani, K. Azartash-Namin, Z. J. Kim, J. Silasi, R. Wylie-Sears, J. Alvandi, Z. Chen, L. Cha, B. Chen, H. Xia, L. Zhou, B. Lupu, F. Burkhart, H. Aikawa, E. Olson, L. Ahamed, J. Lopez-Andres, N. Bischoff, J. Yutzey, K. E. Srinivasan, R. S. 2023-05-15 doi:10.1101/2023.05.10.540284 Cold Spring Harbor Laboratory Press 2023-05-15 <![CDATA[ Longevity-associated SMAD3 non-coding centenarian variant impairs a cell-type specific enhancer to reduce inflammation ]]> https://biorxiv.org/cgi/content/short/2023.05.17.540984v1?rss=1" Yang, J. Tare, A. Zhang, L. Kim, S. Ryu, S. Guo, Q. Zhu, Y. Wang, X. Wang, X. Hudgins, A. D. Guan, D. Jin, C. Chang, H.-K. Atzmon, G. Milman, S. Barzilai, N. Vijg, J. Niedernhofer, L. Robbins, P. D. Suh, Y. 2023-05-18 doi:10.1101/2023.05.17.540984 Cold Spring Harbor Laboratory Press 2023-05-18 <![CDATA[ The regulation of Insulin/IGF-1 signaling by miR-142-3p associated with human longevity ]]> https://biorxiv.org/cgi/content/short/2023.05.19.541542v1?rss=1" Wang, X. Jung, H. J. Milholland, B. Cui, J. Tazearslan, C. Atzmon, G. Wang, X. Yang, J. Guo, Q. Barzilai, N. Robbins, P. D. Suh, Y. 2023-05-20 doi:10.1101/2023.05.19.541542 Cold Spring Harbor Laboratory Press 2023-05-20 <![CDATA[ Identification and functional validation of an enhancer variant in the 9p21.3 locus associated with glaucoma risk and elevated expression of p16INK4a ]]> https://biorxiv.org/cgi/content/short/2023.05.18.541339v1?rss=1" Zhu, Y. Tazearslan, C. Rosenfeld, M. G. Fiser, A. Suh, Y. 2023-05-22 doi:10.1101/2023.05.18.541339 Cold Spring Harbor Laboratory Press 2023-05-22 <![CDATA[ KDM5-mediated activation of genes required for mitochondrial biology is necessary for viability in Drosophila ]]> https://biorxiv.org/cgi/content/short/2023.05.23.541787v1?rss=1" Rogers, M. F. Marshall, O. J. Secombe, J. 2023-05-24 doi:10.1101/2023.05.23.541787 Cold Spring Harbor Laboratory Press 2023-05-24 <![CDATA[ Ultrastructural analysis reveals mitochondrial placement independent of synapse placement in fine caliber C. elegans neurons ]]> https://biorxiv.org/cgi/content/short/2023.05.30.542959v1?rss=1" Riboul, D. V. Crill, S. Oliva, C. D. Restifo, M. G. Joseph, R. Joseph, K. Nguyen, K. C. Hall, D. H. Fily, Y. Macleod, G. T. 2023-06-01 doi:10.1101/2023.05.30.542959 Cold Spring Harbor Laboratory Press 2023-06-01 <![CDATA[ Ribosomal protein control of hematopoietic stem cell transformation through direct, non-canonical regulation of metabolism ]]> https://biorxiv.org/cgi/content/short/2023.05.31.543132v1?rss=1" Harris, B. Singh, D. K. Verma, M. Fahl, S. P. Rhodes, M. Sprinkle, S. R. Wang, M. Zhang, Y. Perrigoue, J. Kessel, R. Peri, S. West, J. Giricz, O. Boultwood, J. Pellagatti, A. Ramesh, K. Montangna, C. Pradhan, K. Tyner, J. Kennedy, B. K. Holinstat, M. Steidl, U. Sykes, S. Verma, A. Wiest, D. L. 2023-06-01 doi:10.1101/2023.05.31.543132 Cold Spring Harbor Laboratory Press 2023-06-01 <![CDATA[ Understanding the General Principles of T Cell Engagement by Multiscale Computational Simulations ]]> https://biorxiv.org/cgi/content/short/2023.06.07.544116v1?rss=1" Su, Z. Almo, S. Wu, Y. 2023-06-07 doi:10.1101/2023.06.07.544116 Cold Spring Harbor Laboratory Press 2023-06-07 <![CDATA[ Kinesin-14 HSET and KlpA are non-processive microtubule motors with load-dependent power strokes ]]> https://biorxiv.org/cgi/content/short/2023.06.09.544415v1?rss=1" Gennerich, A. Liu, X. Rao, L. Qiu, W. 2023-06-10 doi:10.1101/2023.06.09.544415 Cold Spring Harbor Laboratory Press 2023-06-10 <![CDATA[ RNA Helicase DDX3 Regulates RAD51 Localization and DNA Damage Repair in Ewing Sarcoma ]]> https://biorxiv.org/cgi/content/short/2023.06.10.544474v1?rss=1" Randolph, M. E. Afifi, M. Gorthi, A. Weil, R. Wilky, B. A. Weinreb, J. Ciero, P. ter Hoeve, N. van Diest, P. J. Raman, V. Bishop, A. J. Loeb, D. M. 2023-06-10 doi:10.1101/2023.06.10.544474 Cold Spring Harbor Laboratory Press 2023-06-10 <![CDATA[ KATP channel mutation disrupts hippocampal network activity and nocturnal γ shifts ]]> https://biorxiv.org/cgi/content/short/2023.06.18.545438v1?rss=1" Burkart, M.-E. Kurzke, J. Vera, J. Ashcroft, F. M. Eilers, J. Lippmann, K. 2023-06-21 doi:10.1101/2023.06.18.545438 Cold Spring Harbor Laboratory Press 2023-06-21 <![CDATA[ Intrarenal myeloid subsets associated with kidney injury are comparable in mice and patients with lupus nephritis ]]> https://biorxiv.org/cgi/content/short/2023.06.24.546409v1?rss=1" Hoover, P. Lieb, D. J. Kang, J. Li, S. Peters, M. Raparia, C. Arazi, A. Eisenhaure, T. Gurajala, S. S. Xiao, Q. Mishra, R. Spurrell, M. Menon, R. Kretzler, M. Chen, J. Nieman, L. Sonny, A. Demeke, D. Hodgin, J. Guthridge, J. Fava, A. Clancy, R. Putterman, C. Izmirly, P. Belmont, H. M. Kalunian, K. Kamen, D. Wofsy, D. Buyon, J. James, J. A. Petri, M. Diamond, B. Raychaudhuri, S. The Kidney Precision Medicine Project, The Accelerating Medicines Partnership: RA/SLE network, Hacohen, N. Davidson, A. 2023-06-25 doi:10.1101/2023.06.24.546409 Cold Spring Harbor Laboratory Press 2023-06-25 <![CDATA[ The catalytic-independent function of LSD1 modulates the epigenetic landscape of mouse embryonic stem cells ]]> https://biorxiv.org/cgi/content/short/2023.06.29.547010v1?rss=1" Malla, S. Kumari, K. Martinez-Gamero, C. Garcia-Prieto, C. A. Stransky, S. Caroli, J. Alvarez-Errico, D. Saiki, P. A. Lai, W. Lyu, C. Gilthorpe, J. D. Wang, H. Sidoli, S. Mattevi, A. Mateus, A. Esteller, M. Roman, A. Aguilo, F. 2023-06-29 doi:10.1101/2023.06.29.547010 Cold Spring Harbor Laboratory Press 2023-06-29 <![CDATA[ Transcription factor Nrf1 regulates proteotoxic stress-induced autophagy ]]> https://biorxiv.org/cgi/content/short/2023.06.29.547114v1?rss=1" Kaya, H. E. K. Ward, M. A. Vangala, J. R. Byers, H. A. Diaz, A. Kaushik, S. Cuervo, A. M. Radhakrishnan, S. K. 2023-06-30 doi:10.1101/2023.06.29.547114 Cold Spring Harbor Laboratory Press 2023-06-30 <![CDATA[ Intratumoral immune triads are required for adoptive T cell therapy-mediated elimination of solid tumors ]]> https://biorxiv.org/cgi/content/short/2023.07.03.547423v1?rss=1" Schietinger, A. Espinosa-Carrasco, G. Dave, A. Scrivo, A. Lee, H.-S. Burt, B. M. Zumbo, P. Betel, D. Hellmann, M. 2023-07-03 doi:10.1101/2023.07.03.547423 Cold Spring Harbor Laboratory Press 2023-07-03 <![CDATA[ Proteomics and phosphoproteomics profiling in glutamatergic neurons and microglia in an iPSC model of Jansen de Vries Syndrome ]]> https://biorxiv.org/cgi/content/short/2023.07.08.548192v1?rss=1" Aguilan, J. Pedrosa, E. Dolstra, H. Nur Baykara, R. Barnes, J. Zhang, J. Sidoli, S. Lachman, H. 2023-07-08 doi:10.1101/2023.07.08.548192 Cold Spring Harbor Laboratory Press 2023-07-08 <![CDATA[ Crk/Crkl regulates early angiogenesis in mouse embryos by accelerating endothelial cell maturation ]]> https://biorxiv.org/cgi/content/short/2023.07.12.548782v1?rss=1" Morrow, B. E. Shi, L. Song, H. Zhou, B. 2023-07-13 doi:10.1101/2023.07.12.548782 Cold Spring Harbor Laboratory Press 2023-07-13 <![CDATA[ Validation of human telomere length trans-ancestry meta-analysis association signals identifies POP5 and KBTBD6 as novel human telomere length regulation genes ]]> https://biorxiv.org/cgi/content/short/2023.07.12.548702v1?rss=1" Keener, R. Chhetri, S. B. Connelly, C. J. Taub, M. A. Conomos, M. P. Weinstock, J. S. Ni, B. Strober, B. J. Aslibekyan, S. Auer, P. L. Barwick, L. Becker, L. C. Blangero, J. Bleecker, E. R. Brody, J. A. Cade, B. E. Celedon, J. C. Chang, Y.-C. Cupples, L. A. Custer, B. Freedman, B. I. Gladwin, M. T. Heckbert, S. R. Hou, L. Irvin, M. R. Isasi, C. R. Johnsen, J. M. Kenny, E. E. Kooperberg, C. Minster, R. L. Nekhai, S. Pankratz, N. Peyser, P. A. Rotter, J. I. Taylor, K. D. Telen, M. J. Wu, B. Yanek, L. R. Yang, I. V. Albert, C. Arnett, D. K. Ashley-Koch, A. 2023-07-14 doi:10.1101/2023.07.12.548702 Cold Spring Harbor Laboratory Press 2023-07-14 <![CDATA[ The components of an electrical synapse as revealed by expansion microscopy of a single synaptic contact ]]> https://biorxiv.org/cgi/content/short/2023.07.25.550347v1?rss=1" Cardenas- Garcia, S. P. Ijaz, S. Pereda, A. E. 2023-07-28 doi:10.1101/2023.07.25.550347 Cold Spring Harbor Laboratory Press 2023-07-28 <![CDATA[ Lysosomal release of amino acids at ER three-way junctions regulates transmembrane and secretory protein mRNA translation ]]> https://biorxiv.org/cgi/content/short/2023.08.01.551382v1?rss=1" Choi, H. Liao, Y.-C. Yoon, Y. J. Grimm, J. B. Lavis, L. Singer, R. H. Lippincott-Schwartz, J. 2023-08-03 doi:10.1101/2023.08.01.551382 Cold Spring Harbor Laboratory Press 2023-08-03 <![CDATA[ Loss of synaptopodin impairs mGluR5 and protein synthesis dependent mGluR-LTD at CA3-CA1 synapses ]]> https://biorxiv.org/cgi/content/short/2023.08.02.551676v1?rss=1" Wu, P. Y. Ji, L. De Sanctis, C. Francesconi, A. Inglebert, Y. McKinney, R. A. 2023-08-03 doi:10.1101/2023.08.02.551676 Cold Spring Harbor Laboratory Press 2023-08-03 <![CDATA[ Targeting the dependence on PIK3C3-mTORC1 signaling in dormancy-prone breast cancer cells blunts metastasis initiation ]]> https://biorxiv.org/cgi/content/short/2023.08.02.551681v1?rss=1" Elkholi, I. E. Robert, A. Kuasne, H. Drapela, S. Macleod, G. Hebert, S. Pacis, A. Calderon, V. Kleinman, C. L. Gomes, A. P. Aguirre-Ghiso, J. A. Park, M. Angers, S. Cote, J.-F. 2023-08-05 doi:10.1101/2023.08.02.551681 Cold Spring Harbor Laboratory Press 2023-08-05 <![CDATA[ Sex-Specific Developmental Gene Expression Atlas Unveils Dimorphic Gene Networks in C. elegans ]]> https://biorxiv.org/cgi/content/short/2023.08.05.552096v1?rss=1" Haque, R. Peedikayil-Kurien, S. Setty, H. Salzberg, Y. Stelzer, G. Litvak, E. Gingold, H. Rechavi, O. Oren-Suissa, M. 2023-08-06 doi:10.1101/2023.08.05.552096 Cold Spring Harbor Laboratory Press 2023-08-06 <![CDATA[ An oligodendrocyte silencer element underlies the pathogenic impact of lamin B1 structural variants ]]> https://biorxiv.org/cgi/content/short/2023.08.03.551473v1?rss=1" Nmezi, B. Bey, G. R. Oranburg, T. D. Dudnyk, K. Morgan, S. Herdman, N. Jacko, A. Rubio, S. Alcocer, E. L. Kofler, J. Kim, D. Rankin, J. Kivuva, E. Gutowski, N. Schon, K. van den Ameele, J. Chinnery, P. F. Sousa, S. B. Palavra, F. Toro, C. Pinto e Vairo, F. Saute, J. Pan, L. Alturkustani, M. Hammond, R. Gros-Louis, F. Gold, M. Park, Y. Bernard, G. Raininko, R. Zhou, J. Hainer, S. Padiath, Q. 2023-08-07 doi:10.1101/2023.08.03.551473 Cold Spring Harbor Laboratory Press 2023-08-07 <![CDATA[ Plasma Glycomic Markers of Accelerated Biological Aging During Chronic HIV Infection ]]> https://biorxiv.org/cgi/content/short/2023.08.09.551369v1?rss=1" Giron, L. B. Liu, Q. Adeniji, O. S. Yin, X. Kannan, T. Ding, J. Lu, D. Y. Langan, S. Zhang, J. Azevedo, J. L. L. C. Hanna, D. B. Ofotokun, I. Lazar, J. Fischl, M. A. Haberlen, S. Macatangay, B. Adimora, A. A. Jamieson, B. D. Rinaldo, C. Merenstein, D. Roan, N. R. Kutsch, O. Gange, S. Wolinsky, S. Witt, M. Post, W. S. Kossenkov, A. Landay, A. Frank, I. Tien, P. C. Gross, R. Brown, T. T. Mohsen, M. A. 2023-08-10 doi:10.1101/2023.08.09.551369 Cold Spring Harbor Laboratory Press 2023-08-10 <![CDATA[ Brain Specific Estrogen Ameliorates Cognitive Effects of Surgical Menopause in Mice ]]> https://biorxiv.org/cgi/content/short/2023.08.09.552687v1?rss=1" Salinero, A. E. Abi-Ghanem, C. Venkataganesh, H. Sura, A. Smith, R. M. Thrasher, C. A. Kelly, R. D. Hatcher, K. M. Nyblom, V. Shamlian, V. Kyaw, N.-R. Belanger, K. M. Gannon, O. J. Stephens, S. B. Zuloaga, D. G. Zuloaga, K. L. 2023-08-13 doi:10.1101/2023.08.09.552687 Cold Spring Harbor Laboratory Press 2023-08-13 <![CDATA[ KAT2 paralogs prevent dsRNA accumulation and interferon signaling to maintain intestinal stem cells ]]> https://biorxiv.org/cgi/content/short/2023.09.04.556156v1?rss=1" Nguyen, M.-U. T. Potgieter, S. Huang, W. Pfeffer, J. Woo, S. Zhao, C. Lawlor, M. Yang, R. Halstead, A. Dent, S. Saenz, J. Zheng, H. Yuan, Z.-F. Sidoli, S. Ellison, C. E. Verzi, M. 2023-09-05 doi:10.1101/2023.09.04.556156 Cold Spring Harbor Laboratory Press 2023-09-05 <![CDATA[ Conserved nucleocytoplasmic density homeostasis drives cellular organization across eukaryotes ]]> https://biorxiv.org/cgi/content/short/2023.09.05.556409v1?rss=1" Biswas, A. Munoz, O. Kim, K. Hoege, C. Lorton, B. M. Shechter, D. Guck, J. Zaburdaev, V. Reber, S. 2023-09-06 doi:10.1101/2023.09.05.556409 Cold Spring Harbor Laboratory Press 2023-09-06 <![CDATA[ Encoding the Space of Protein-protein Binding Interfaces by Artificial Intelligence ]]> https://biorxiv.org/cgi/content/short/2023.09.08.556812v1?rss=1" Su, Z. Dhusia, K. Wu, Y. 2023-09-10 doi:10.1101/2023.09.08.556812 Cold Spring Harbor Laboratory Press 2023-09-10 <![CDATA[ Whole Genome Sequencing Based Analysis of Inflammation Biomarkers in the Trans-Omics for Precision Medicine (TOPMed) Consortium ]]> https://biorxiv.org/cgi/content/short/2023.09.10.555215v1?rss=1" Jiang, M.-Z. Gaynor, S. M. Li, X. Van Buren, E. Stilp, A. Buth, E. Wang, F. F. Manansala, R. Gogarten, S. M. Li, Z. Polfus, L. M. Salimi, S. Bis, J. C. Pankratz, N. Yanek, L. R. Durda, P. Tracy, R. P. Rich, S. S. Rotter, J. I. Mitchell, B. D. Lewis, J. P. Psaty, B. M. Pratte, K. A. Silverman, E. K. Kaplan, R. C. Avery, C. North, K. Mathias, R. A. Faraday, N. Lin, H. Wang, B. Carson, A. P. Norwood, A. F. Gibbs, R. A. Kooperberg, C. Lundin, J. Peters, U. Dupuis, J. Hou, L. Fornage, M. Benjamin, E. J. Reiner, A. P. Bowler, R. P. Lin, X. Auer, P. L. Raf 2023-09-12 doi:10.1101/2023.09.10.555215 Cold Spring Harbor Laboratory Press 2023-09-12 <![CDATA[ Prenatal vitamin D deficiency alters immune cell proportions of young adult offspring through alteration of long-term stem cell fates ]]> https://biorxiv.org/cgi/content/short/2023.09.11.557255v1?rss=1" Ueda, K. Chin, S. S. Sato, N. NIshikawa, M. Yasuda, K. Miyasaka, N. Bera, B. S. Chorro, L. Dona-Termine, R. Koba, W. R. Reynolds, D. Steidl, U. G. Lauvau, G. Greally, J. M. Suzuki, M. 2023-09-13 doi:10.1101/2023.09.11.557255 Cold Spring Harbor Laboratory Press 2023-09-13 <![CDATA[ Prediction of Interactions between Cell Surface Proteins by Machine Learning ]]> https://biorxiv.org/cgi/content/short/2023.09.12.557337v1?rss=1" Su, Z. Griffin, B. Emmons, S. Wu, Y. 2023-09-14 doi:10.1101/2023.09.12.557337 Cold Spring Harbor Laboratory Press 2023-09-14 <![CDATA[ Attractor dynamics reflect decision confidence in macaque prefrontal cortex ]]> https://biorxiv.org/cgi/content/short/2023.09.17.558139v1?rss=1" Wang, S. Falcone, R. Richmond, B. Averbeck, B. 2023-09-17 doi:10.1101/2023.09.17.558139 Cold Spring Harbor Laboratory Press 2023-09-17 <![CDATA[ Proximity labeling reveals new insights into the relationships between meiotic recombination proteins in S. cerevisiae ]]> https://biorxiv.org/cgi/content/short/2023.09.17.558147v1?rss=1" Voelkel-Meiman, K. Poppel, A. J. Liddle, J. C. Balsbaugh, J. L. MacQueen, A. J. 2023-09-17 doi:10.1101/2023.09.17.558147 Cold Spring Harbor Laboratory Press 2023-09-17 <![CDATA[ Glutamylation of Npm2 and Nap1 acidic disordered regions increases DNA charge mimicry to enhance chaperone efficiency ]]> https://biorxiv.org/cgi/content/short/2023.09.18.558337v1?rss=1" Lorton, B. M. Warren, C. Ilyas, H. Nandigrami, P. Hegde, S. Cahill, S. Lehman, S. M. Shabanowitz, J. Hunt, D. Fiser, A. Cowburn, D. Shechter, D. 2023-09-19 doi:10.1101/2023.09.18.558337 Cold Spring Harbor Laboratory Press 2023-09-19 <![CDATA[ Isofagomine inhibits multiple TcdB variants and protects mice from Clostridioides difficile induced mortality ]]> https://biorxiv.org/cgi/content/short/2023.09.19.558375v1?rss=1" Paparella, A. S. Brew, I. Hong, H. A. Ferriera, W. Cutting, S. Lamiable-Oulaidi, F. Popadynec, M. Tyler, P. C. Schramm, V. L. 2023-09-19 doi:10.1101/2023.09.19.558375 Cold Spring Harbor Laboratory Press 2023-09-19 <![CDATA[ Molecular and network disruptions in neurodevelopment uncovered by single cell transcriptomics analysis of CHD8 heterozygous cerebral organoids ]]> https://biorxiv.org/cgi/content/short/2023.09.27.559752v1?rss=1" Astorkia, M. Liu, Y. Pedrosa, E. Lachman, H. Zheng, D. 2023-09-27 doi:10.1101/2023.09.27.559752 Cold Spring Harbor Laboratory Press 2023-09-27 <![CDATA[ The origin of intestinal cancer in the context of inflammation ]]> https://biorxiv.org/cgi/content/short/2023.10.02.560432v1?rss=1" Verhagen, M. P. Joosten, R. Schmitt, M. Valimaki, N. Sacchetti, A. Rajamaki, K. Choi, J. Procopio, P. Silva, S. van der Steen, B. van den Bosch, T. P. P. Seinstra, D. Doukas, M. Augenlicht, L. H. Aaltonen, L. A. Fodde, R. 2023-10-04 doi:10.1101/2023.10.02.560432 Cold Spring Harbor Laboratory Press 2023-10-04 <![CDATA[ Extramacrochaetae regulates Notch signaling in the Drosophila eye through non-apoptotic caspase activity ]]> https://biorxiv.org/cgi/content/short/2023.10.04.560841v1?rss=1" Baker, N. E. Nair, S. 2023-10-04 doi:10.1101/2023.10.04.560841 Cold Spring Harbor Laboratory Press 2023-10-04 <![CDATA[ Differential activation of mouse and human Panx1 channel variants. ]]> https://biorxiv.org/cgi/content/short/2023.10.11.561880v1?rss=1" Cibelli, A. Dohare, P. Spray, D. C. Scemes, E. 2023-10-12 doi:10.1101/2023.10.11.561880 Cold Spring Harbor Laboratory Press 2023-10-12 <![CDATA[ Tumor-targeted delivery of Tetanus toxoid by Listeria improves immunotherapy against ovarian cancer in mice ]]> https://biorxiv.org/cgi/content/short/2023.10.11.561944v1?rss=1" View larger version (20K): org.highwire.dtl.DTLVardef@d8612dorg.highwire.dtl.DTLVardef@1d3e547org.highwire.dtl.DTLVardef@71bd28org.highwire.dtl.DTLVardef@139a1d6_HPS_FORMAT_FIGEXP M_FIG Graphical abstract C_FIG ]]> Scanlon, L. R. Gabor, L. Khouri, O. R. Ahmad, S. Levy, E. Kuo, D. Y.-S. Lin, K. Nevadunsky, N. Gravekamp, C. 2023-10-12 doi:10.1101/2023.10.11.561944 Cold Spring Harbor Laboratory Press 2023-10-12 <![CDATA[ Regulatory Landscape Enrichment Analysis (RLEA) using gaiaAssociation ]]> https://biorxiv.org/cgi/content/short/2023.10.11.561933v1?rss=1" Sosa, E. A. Rosean, S. O'Shea, D. Raj, S. M. Seoighe, C. Greally, J. M. 2023-10-16 doi:10.1101/2023.10.11.561933 Cold Spring Harbor Laboratory Press 2023-10-16 <![CDATA[ The PDIM paradox of Mycobacterium tuberculosis: new solutions to a persistent problem ]]> https://biorxiv.org/cgi/content/short/2023.10.16.562559v1?rss=1" Mulholland, C. V. Wiggins, T. J. Cui, J. Vilcheze, C. Rajagopalan, S. Shultis, M. W. Reyes-Fernandez, E. Z. Jacobs, W. R. Berney, M. 2023-10-16 doi:10.1101/2023.10.16.562559 Cold Spring Harbor Laboratory Press 2023-10-16 <![CDATA[ Identification of new markers of angiogenic sprouting using transcriptomics: New role for RND3 ]]> https://biorxiv.org/cgi/content/short/2023.10.18.563021v1?rss=1" View larger version (92K): org.highwire.dtl.DTLVardef@1045439org.highwire.dtl.DTLVardef@1357703org.highwire.dtl.DTLVardef@1189cf2org.highwire.dtl.DTLVardef@e7d574_HPS_FORMAT_FIGEXP M_FIG C_FIG ]]> Abbey, C. A. Duran, C. L. Chen, Z. Chen, Y. Roy, S. Coffell, A. Chakraborty, S. Wells, G. B. Chang, J. Bayless, K. 2023-10-19 doi:10.1101/2023.10.18.563021 Cold Spring Harbor Laboratory Press 2023-10-19 <![CDATA[ In Vitro Safety Signals for Potential Clinical Development of the Anti-Inflammatory Pregnane X Receptor Agonist FKK6 ]]> https://biorxiv.org/cgi/content/short/2023.10.21.563410v1?rss=1" Dvorak, Z. Vyhlidalov, B. Pecinkov, P. Li, H. Anzenbacher, P. spicakova, a. anzenbacherova, e. Chow, V. LIU, J. Krause, H. Wilson, D. J. Beres, T. Tarkowski, P. Chen, D. Mani, S. 2023-10-21 doi:10.1101/2023.10.21.563410 Cold Spring Harbor Laboratory Press 2023-10-21 <![CDATA[ Unique Binding and Stabilization Mechanisms Employed By and Engineered Into Nanobodies. ]]> https://biorxiv.org/cgi/content/short/2023.10.22.563475v1?rss=1" Ketaren, N. E. Fridy, P. C. Malashkevich, V. Sanyal, T. Brilliantes, M. Thompson, M. K. Orens, D. A. Bonanno, J. B. Sali, a. Almo, S. C. Chait, B. T. Rout, M. P. 2023-10-22 doi:10.1101/2023.10.22.563475 Cold Spring Harbor Laboratory Press 2023-10-22 <![CDATA[ Simulation-Driven Design of Stabilized SARS-CoV-2 Spike S2 Immunogens ]]> https://biorxiv.org/cgi/content/short/2023.10.24.563841v1?rss=1" Nuqui, X. Casalino, L. Zhou, L. Shehata, M. Wang, A. Tse, A. L. Ojha, A. Kearns, F. L. Rosenfeld, M. A. Miller, E. H. Acreman, C. M. Ahn, S.-H. Chandran, K. McLellan, J. S. Amaro, R. E. 2023-10-25 doi:10.1101/2023.10.24.563841 Cold Spring Harbor Laboratory Press 2023-10-25 <![CDATA[ A Toxoplasma gondii O-glycosyltransferase that modulates bradyzoite cyst wall rigidity is structurally and functionally distinct from host homologues ]]> https://biorxiv.org/cgi/content/short/2023.10.26.564164v1?rss=1" Kumar, P. Tomita, T. Gerken, T. A. Ballard, C. J. Lee, Y. S. Weiss, L. M. Samara, N. L. 2023-10-26 doi:10.1101/2023.10.26.564164 Cold Spring Harbor Laboratory Press 2023-10-26 <![CDATA[ CD44 and β1-integrin are both engaged in cell traction force generation in hyaluronic acid-rich extracellular matrices ]]> https://biorxiv.org/cgi/content/short/2023.10.24.563860v1?rss=1" Cheung, B. C. H. Chen, X. Davis, H. J. Toth, J. Shenoy, V. B. Segall, J. E. Wu, M. 2023-10-27 doi:10.1101/2023.10.24.563860 Cold Spring Harbor Laboratory Press 2023-10-27 <![CDATA[ FAK family proteins regulate in vivo breast cancer metastasis via distinct mechanisms. ]]> https://biorxiv.org/cgi/content/short/2023.10.27.564212v1?rss=1" Genna, A. Alter, J. Poletti, M. Meirson, T. Sneh, T. Gendler, M. Saleev, N. Karagiannis, G. Wang, Y. Cox, D. Entenberg, D. Oktay, M. Korcsmaros, T. Condeelis, J. Gil-Henn, H. 2023-10-29 doi:10.1101/2023.10.27.564212 Cold Spring Harbor Laboratory Press 2023-10-29 <![CDATA[ Haematopoietic stem cell numbers are not solely determined by niche availability ]]> https://biorxiv.org/cgi/content/short/2023.10.28.564559v1?rss=1" Takeishi, S. Marchand, T. Koba, W. R. Borger, D. K. Xu, C. Guha, C. Bergman, A. Frenette, P. S. Gritsman, K. Steidl, U. 2023-10-29 doi:10.1101/2023.10.28.564559 Cold Spring Harbor Laboratory Press 2023-10-29 <![CDATA[ A statistical framework for powerful multi-trait rare variant analysis in large-scale whole-genome sequencing studies ]]> https://biorxiv.org/cgi/content/short/2023.10.30.564764v1?rss=1" Li, X. Chen, H. Selvaraj, M. S. Van Buren, E. Zhou, H. Wang, Y. Sun, R. McCaw, Z. R. Yu, Z. Arnett, D. K. Bis, J. C. Blangero, J. Boerwinkle, E. Bowden, D. W. Brody, J. A. Cade, B. E. Carson, A. P. Carlson, J. C. Chami, N. Chen, Y.-D. I. Curran, J. E. de Vries, P. S. Fornage, M. Franceschini, N. Freedman, B. I. Gu, C. Heard-Costa, N. L. He, J. Hou, L. Hung, Y.-J. Irvin, M. R. Kaplan, R. C. Kardia, S. L. R. Kelly, T. Konigsberg, I. Kooperberg, C. Kral, B. G. Li, C. Loos, R. J. F. Mahaney, M. C. Martin, L. W. Mathias, R. A. Minster, R. L. Mitchell, B. D 2023-11-02 doi:10.1101/2023.10.30.564764 Cold Spring Harbor Laboratory Press 2023-11-02 <![CDATA[ Ciliary intrinsic mechanisms regulate dynamic ciliary extracellular vesicle release from sensory neurons ]]> https://biorxiv.org/cgi/content/short/2023.11.01.565151v1?rss=1" Wang, J. Saul, J. Nikonorova, I. A. Cruz, C. N. Power, K. M. Nguyen, K. C. Hall, D. H. Barr, M. M. 2023-11-03 doi:10.1101/2023.11.01.565151 Cold Spring Harbor Laboratory Press 2023-11-03 <![CDATA[ Ablation of parasympathetic cholinergic innervation of the liver prevents diet-induced obesity and hepatic steatosis in mice. ]]> https://biorxiv.org/cgi/content/short/2023.11.03.565494v1?rss=1" JO, y.-h. Hwang, J. Okada, J. Liu, L. Pessin, J. E. Schwartz, G. J. 2023-11-05 doi:10.1101/2023.11.03.565494 Cold Spring Harbor Laboratory Press 2023-11-05 <![CDATA[ Methylation of histone H3 lysine 36 is a barrier for therapeutic interventions of head and neck squamous cell carcinoma. ]]> https://biorxiv.org/cgi/content/short/2023.11.06.565847v1?rss=1" Caeiro, L. Nakata, Y. Borges, R. L. Garcia-Martinez, L. Banuelos, C. Stransky, S. Chan, H. L. Brabson, J. Dominguez, D. Zhang, Y. Lewis, P. W. Benitah, S. A. Cimmino, L. Bilbao, D. Sidoli, S. Verdun, R. Morey, L. 2023-11-06 doi:10.1101/2023.11.06.565847 Cold Spring Harbor Laboratory Press 2023-11-06 <![CDATA[ Astrocyte sensitivity to glymphatic shear stress is amplified by albumin and mediated by the interaction of sphingosine 1 phosphate with Piezo1 ]]> https://biorxiv.org/cgi/content/short/2023.11.06.565884v1?rss=1" View larger version (21K): org.highwire.dtl.DTLVardef@17086e6org.highwire.dtl.DTLVardef@a89f32org.highwire.dtl.DTLVardef@6baed5org.highwire.dtl.DTLVardef@1a32f80_HPS_FORMAT_FIGEXP M_FIG C_FIG Astrocyte endfoot responds to glymphatic shear stress when albumin is present. Mechanism involves sphingosine-1-phosphate (S1P) binding to its receptor (S1PR), activating phospholipase C (PLC) and thereby sensitizing the response of Piezo1 to flow. Ca2+ influx triggers Ca2+ release from intracellular stores and further downstream signaling, thereby modulating parenchymal perfusion. Illustration created using BioRender.com ]]> Ballesteros-Gomez, D. McCutcheon, S. Yang, G. L. Cibelli, A. Bispo, A. Krawchuk, M. Piedra, G. Spray, D. C. 2023-11-07 doi:10.1101/2023.11.06.565884 Cold Spring Harbor Laboratory Press 2023-11-07 <![CDATA[ Lipid metabolism drives allele-specific early-stage hypertrophic cardiomyopathy ]]> https://biorxiv.org/cgi/content/short/2023.11.10.564562v1?rss=1" O_LINKSMALLFIG WIDTH=185 HEIGHT=200 SRC="FIGDIR/small/564562v1_ufig2.gif" ALT="Figure 1"> O_LINKSMALLFIG WIDTH=200 HEIGHT=74 SRC="FIGDIR/small/564562v1_ufig3.gif" ALT="Figure 1"> View larger version (90K): org.highwire.dtl.DTLVardef@195b1d7org.highwire.dtl.DTLVardef@cead88org.highwire.dtl.DTLVardef@e2bf35org.highwire.dtl.DTLVardef@776765_HPS_FORMAT_FIGEXP M_FIG C_FIG ]]> Vaniya, A. Karlstaedt, A. Ates Gulkok, D. Thottakara, T. Liu, Y. Fan, S. Eades, H. Fukunaga, R. Vernon, H. J. Fiehn, O. Abraham, M. R. 2023-11-15 doi:10.1101/2023.11.10.564562 Cold Spring Harbor Laboratory Press 2023-11-15 <![CDATA[ Mechanical force of uterine occupation enables large vesicle extrusion from proteostressed maternal neurons ]]> https://biorxiv.org/cgi/content/short/2023.11.13.565361v1?rss=1" Wang, G. Guasp, R. Salam, S. Chuang, E. Morera, A. Smart, A. J. Jimenez, D. Shekhar, S. Melentijevic, I. Nguyen, K. C. Hall, D. H. Grant, B. D. Driscoll, M. 2023-11-16 doi:10.1101/2023.11.13.565361 Cold Spring Harbor Laboratory Press 2023-11-16 <![CDATA[ Cell-specific alpha-tubulin TBA-6 and pan-ciliary IFT cargo RAB-28 generate a non-canonical transition zone ]]> https://biorxiv.org/cgi/content/short/2023.11.16.567340v1?rss=1" Akella, J. S. Silva, M. S. Nguyen, K. C. Q. Hall, D. H. Barr, M. M. 2023-11-17 doi:10.1101/2023.11.16.567340 Cold Spring Harbor Laboratory Press 2023-11-17 <![CDATA[ Protein-lipid interactions drive presynaptic assembly upstream of cell adhesion molecules ]]> https://biorxiv.org/cgi/content/short/2023.11.17.567618v1?rss=1" Frankel, E. B. Tiroumalechetty, A. R. Henry, P. S. Su, Z. Wu, Y. Kurshan, P. T. 2023-11-17 doi:10.1101/2023.11.17.567618 Cold Spring Harbor Laboratory Press 2023-11-17 <![CDATA[ Whole genome association testing in 333,100 individuals across three biobanks identifies rare non-coding single variant and genomic aggregate associations with height ]]> https://biorxiv.org/cgi/content/short/2023.11.19.566520v1?rss=1" Hawkes, G. Beaumont, R. N. Li, Z. Mandla, R. Li, X. Albert, C. M. Arnett, D. K. Ashley-Koch, A. E. Ashrani, A. A. Barnes, K. C. Boerwinkle, E. Brody, J. A. Carson, A. P. Chami, N. Chen, Y.-D. I. Chung, M. K. Curran, J. E. Darbar, D. Ellinor, P. T. Fornage, M. Gordeuk, V. R. Guo, X. He, J. Hwu, C.-M. Kalyani, R. R. Kaplan, R. Kardia, S. L. R. Kooperberg, C. Loos, R. J. F. Lubitz, S. A. Minster, R. L. Mitchell, B. D. Murabito, J. M. Palmer, N. D. Psaty, B. M. Redline, S. Shoemaker, M. B. Silverman, E. K. Telen, M. J. Weiss, S. T. Yanek, L. R. Zhou, H. NH 2023-11-20 doi:10.1101/2023.11.19.566520 Cold Spring Harbor Laboratory Press 2023-11-20 <![CDATA[ Isolating Single Cycles of Neural Oscillations in Spiking Activity ]]> https://biorxiv.org/cgi/content/short/2023.11.20.563492v1?rss=1" Sabri, E. Batista-Brito, R. 2023-11-21 doi:10.1101/2023.11.20.563492 Cold Spring Harbor Laboratory Press 2023-11-21 <![CDATA[ More than expected: extracellular waveforms and functional responses in monkey LGN ]]> https://biorxiv.org/cgi/content/short/2023.11.22.568065v1?rss=1" Sun, S. H. Killian, N. J. Pezaris, J. S. 2023-11-23 doi:10.1101/2023.11.22.568065 Cold Spring Harbor Laboratory Press 2023-11-23 <![CDATA[ Structural mechanism of HP1-dependent transcriptional repression and chromatin compaction ]]> https://biorxiv.org/cgi/content/short/2023.11.30.569387v1?rss=1" Sokolova, V. Miratsky, J. Svetlov, V. Brenowitz, M. Vant, J. Lewis, T. S. Dryden, K. Lee, G. L. Sarkar, S. L. Nudler, E. Singharoy, A. Tan, D. 2023-11-30 doi:10.1101/2023.11.30.569387 Cold Spring Harbor Laboratory Press 2023-11-30 <![CDATA[ Lens Placode Modulates Extracellular Matrix Formation During Early Eye Development ]]> https://biorxiv.org/cgi/content/short/2023.11.30.569417v1?rss=1" de Magalhaes, C. G. Cvekl, A. Jaeger, R. G. Yan, C. Y. I. 2023-12-01 doi:10.1101/2023.11.30.569417 Cold Spring Harbor Laboratory Press 2023-12-01 <![CDATA[ A proteogenomic surfaceome study identifies DLK1 as an immunotherapeutic target in neuroblastoma ]]> https://biorxiv.org/cgi/content/short/2023.12.06.570390v1?rss=1" Weiner, A. K. Radaoui, A. B. Tsang, M. Martinez, D. Sidoli, S. Conkrite, K. L. Delaidelli, A. Modi, A. Rokita, J. L. Patel, K. Lane, M. V. Zhang, B. Zhong, C. Ennis, B. Miller, D. P. Brown, M. A. Rathi, K. S. Raman, P. Pogoriler, J. Bhatti, T. Pawel, B. Glisovic-Aplenc, T. Teicher, B. Erickson, S. W. Earley, E. J. Bosse, K. R. Sorensen, P. H. Krytska, K. Mosse, Y. P. Havenith, K. E. Zammarchi, F. van Berkel, P. H. Smith, M. A. Garcia, B. A. Maris, J. M. Diskin, S. J. 2023-12-08 doi:10.1101/2023.12.06.570390 Cold Spring Harbor Laboratory Press 2023-12-08 <![CDATA[ Machine-learning-based Structural Analysis of Interactions between Antibodies and Antigens ]]> https://biorxiv.org/cgi/content/short/2023.12.06.570397v1?rss=1" Zhang, G. Su, Z. Zhang, T. Wu, Y. 2023-12-08 doi:10.1101/2023.12.06.570397 Cold Spring Harbor Laboratory Press 2023-12-08 <![CDATA[ Boosting bactericidal immunity of a recombinant Mycobacterium smegmatis strain via zinc-dependent ribosomal proteins ]]> https://biorxiv.org/cgi/content/short/2023.12.11.571163v1?rss=1" Singh, S. Kanzin, D. Chavez, S. Saavedra-Avila, N. A. Ng, T. Lukos, R. Mayer, O. Kim, J. Chen, B. Chen, M. Porcelli, S. Jacobs, W. R. Tiwari, S. 2023-12-12 doi:10.1101/2023.12.11.571163 Cold Spring Harbor Laboratory Press 2023-12-12 <![CDATA[ Mechanism of Dimer Selectivity and Binding Cooperativity of BRAF inhibitors ]]> https://biorxiv.org/cgi/content/short/2023.12.12.571293v1?rss=1" Clayton, J. Romany, A. Matenoglou, E. Gavathiotis, E. Poulikakos, P. I. Shen, J. 2023-12-12 doi:10.1101/2023.12.12.571293 Cold Spring Harbor Laboratory Press 2023-12-12 <![CDATA[ Molecular basis of neurodegeneration in a mouse model of Polr3-related disease ]]> https://biorxiv.org/cgi/content/short/2023.12.12.571310v1?rss=1" Moir, R. D. Merheb, E. Chitu, V. Stanley, E. R. Willis, I. M. 2023-12-12 doi:10.1101/2023.12.12.571310 Cold Spring Harbor Laboratory Press 2023-12-12 <![CDATA[ Metacell-based differential expression analysis identifies cell type specific temporal gene response programs in COVID-19 patient PBMCs ]]> https://biorxiv.org/cgi/content/short/2023.12.14.571774v1?rss=1" O'Leary, K. Zheng, D. 2023-12-15 doi:10.1101/2023.12.14.571774 Cold Spring Harbor Laboratory Press 2023-12-15 <![CDATA[ A CAG repeat threshold for therapeutics targeting somatic instability in Huntington's disease ]]> https://biorxiv.org/cgi/content/short/2023.12.15.571088v1?rss=1" Aldous, S. G. Smith, E. J. Landles, C. Osborne, G. F. Canibano-Pico, M. Nita, I. M. Phillips, J. Zhang, Y. Jin, B. Hirst, M. B. Benn, C. L. Bond, B. C. Edelmann, W. Greene, J. R. Bates, G. P. 2023-12-15 doi:10.1101/2023.12.15.571088 Cold Spring Harbor Laboratory Press 2023-12-15 <![CDATA[ Targetable leukemia dependency on noncanonical PI3Kγ signaling ]]> https://biorxiv.org/cgi/content/short/2023.12.15.571909v1?rss=1" Luo, Q. Raulston, E. G. Prado, M. A. Wu, X. Gritsman, K. Booth, C. A. G. Xu, R. van Galen, P. Doench, J. G. Shimony, S. Long, H. W. Neuberg, D. S. Paulo, J. A. Lane, A. A. 2023-12-15 doi:10.1101/2023.12.15.571909 Cold Spring Harbor Laboratory Press 2023-12-15 <![CDATA[ Synergistic insulation of regulatory domains by developmental genes and clusters of CTCF sites ]]> https://biorxiv.org/cgi/content/short/2023.12.15.571760v1?rss=1" Ealo, T. Sanchez-Gaya, V. Respuela, P. Munoz-San Martin, M. Martin-Batista, E. Haro, E. Rada-Iglesias, A. 2023-12-16 doi:10.1101/2023.12.15.571760 Cold Spring Harbor Laboratory Press 2023-12-16 <![CDATA[ Common genetic variation impacts molecular stress response in the brain ]]> https://biorxiv.org/cgi/content/short/2023.12.27.573459v1?rss=1" View larger version (25K): org.highwire.dtl.DTLVardef@1e07fa9org.highwire.dtl.DTLVardef@1dd530forg.highwire.dtl.DTLVardef@17822a5org.highwire.dtl.DTLVardef@2a889f_HPS_FORMAT_FIGEXP M_FIG C_FIG ]]> Seah, C. Singer, R. Deans, P. M. Bader, H. Rusielewicz, T. Hicks, E. M. Young, H. Cote, A. Townsley, K. Xu, C. Hunter, C. J. McCarthy, B. Goldberg, J. Dobariya, S. Holtzherimer, P. E. Young, K. A. NYSCF Global Stem Cell Array Team, Traumatic Stress Brain Research Group, Noggle, S. A. Krystal, J. H. Paull, D. Girgenti, M. J. Yehuda, R. Brennand, K. Huckins, L. 2023-12-28 doi:10.1101/2023.12.27.573459 Cold Spring Harbor Laboratory Press 2023-12-28 <![CDATA[ A single-cell transposable element atlas of human cell identity ]]> https://biorxiv.org/cgi/content/short/2023.12.28.573568v1?rss=1" Reyes-Gopar, H. Marston, J. L. Singh, B. Greenig, M. Lin, J. Ostrowski, M. A. Randall, K. N. Sandoval-Motta, S. Dopkins, N. Lawrence, E. O'Mara, M. M. Fei, T. Duarte, R. R. R. Powell, T. R. Hernandez-Lemus, E. Iniguez, L. P. Nixon, D. F. Bendall, M. L. 2023-12-28 doi:10.1101/2023.12.28.573568 Cold Spring Harbor Laboratory Press 2023-12-28 <![CDATA[ Blood immunophenotyping identifies distinct kidney histopathology and outcomes in patients with lupus nephritis ]]> https://biorxiv.org/cgi/content/short/2024.01.14.575609v1?rss=1" Horisberger, A. Griffith, A. Keegan, J. Arazi, A. Pulford, J. Murzin, E. Howard, K. Hancock, B. Fava, A. Sasaki, T. Ghosh, T. Inamo, J. Beuschel, R. Cao, Y. Preisinger, K. Gutierrez-Arcelus, M. Eisenhaure, T. M. Guthridge, J. Hoover, P. J. Dall'Era, M. Wofsy, D. Kamen, D. L. Kalunian, K. C. Furie, R. Belmont, M. Izmirly, P. Clancy, R. Hildeman, D. Woodle, E. S. Apruzzese, W. McMahon, M. A. Grossman, J. Barnas, J. L. Payan-Schober, F. Ishimori, M. Weisman, M. Kretzler, M. Berthier, C. C. Hodgin, J. B. Demeke, D. S. Putterman, C. Accelerating Medicines Pa 2024-01-16 doi:10.1101/2024.01.14.575609 Cold Spring Harbor Laboratory Press 2024-01-16 <![CDATA[ BETA-HYDROXYBUTYRATE COUNTERACTS THE DELETERIOUS EFFECTS OF A SATURATED HIGH-FAT DIET ON SYNAPTIC AMPA RECEPTORS AND COGNITIVE PERFORMANCE ]]> https://biorxiv.org/cgi/content/short/2024.01.23.576931v1?rss=1" Rojas, R. Grinan-Ferre, C. Castellanos, A. Griego, E. Martinez, M. Navarro-Lopez, J. d. D. Jimenez-Diaz, L. Rodriguez-Alvarez, J. Soto del Cerro, D. Castillo, P. E. Pallas, M. Fado, R. Casals, N. 2024-01-24 doi:10.1101/2024.01.23.576931 Cold Spring Harbor Laboratory Press 2024-01-24 <![CDATA[ Nr4a2 blocks oAbeta-mediated synaptic plasticity dysfunction and ameliorates spatial memory deficits in the APPSw,Ind mouse ]]> https://biorxiv.org/cgi/content/short/2024.01.24.577010v1?rss=1" Catala Solsona, J. Lutzu, S. Lituma, P. J. Fabregas Ordonez, C. Siedlecki, D. Gimenez-Llort, L. Minano-Molina, A. J. Saura, C. A. Castillo, P. E. Rodriguez Alvarez, J. 2024-01-24 doi:10.1101/2024.01.24.577010 Cold Spring Harbor Laboratory Press 2024-01-24 <![CDATA[ A hierarchical Bayesian interaction model to estimate cell-type-specific methylation quantitative trait loci incorporating priors from cell-sorted bisulfite sequencing data ]]> https://biorxiv.org/cgi/content/short/2024.02.01.578272v1?rss=1" Cheng, Y. Cai, B. Li, H. Zhang, X. D'Souza, G. Shrestha, S. Edmonds, A. Meyers, J. Fischl, M. Kassaye, S. Anastos, K. Cohen, M. Aouizerat, B. E. Xu, K. Zhao, H. 2024-02-02 doi:10.1101/2024.02.01.578272 Cold Spring Harbor Laboratory Press 2024-02-02 <![CDATA[ αKG-mediated carnitine synthesis promotes homologous recombination via histone acetylation ]]> https://biorxiv.org/cgi/content/short/2024.02.06.578742v1?rss=1" Uboveja, A. Huang, Z. Buj, R. Amalric, A. Wang, H. Tangudu, N. K. Cole, A. R. Megill, E. Kantner, D. Chatoff, A. Ahmad, H. Marcinkiewicz, M. M. Disharoon, J. A. Graff, S. Dahl, E. S. Hempel, N. Stallaert, W. Sidoli, S. Bitler, B. G. Long, D. T. Snyder, N. W. Aird, K. M. 2024-02-07 doi:10.1101/2024.02.06.578742 Cold Spring Harbor Laboratory Press 2024-02-07 <![CDATA[ iSCORE-PD: an isogenic stem cell collection to research Parkinson Disease ]]> https://biorxiv.org/cgi/content/short/2024.02.12.579917v1?rss=1" G+FS, SYNJ1 R258Q/FS, VPS13C A444P, VPS13C W395C, GBA1 IVS2+1). All mutations were generated in a fully characterized and sequenced female human embryonic stem cell (hESC) line (WIBR3; NIH approval number NIHhESC-10-0079) using CRISPR/Cas9 or prime editing-based approaches. We implemented rigorous quality controls, including high density genotyping to detect structural variants and confirm the genomic integrity of each cell line. This systematic approach ensures the high quality of our stem cell collection, highlights differences between conventional CRISPR/Cas9 and prime editing and provides a roadmap for how to generate gene-edited hPSCs collections at scale in an academic setting. We expect that our isogenic stem cell collection will become an accessible platform for the study of PD, which can be used by investigators to understand the molecular pathophysiology of PD in a human cellular setting. ]]> Busquets, O. Li, H. Syed, K. M. Jerez, P. A. Dunnack, J. Bu, R. L. Verma, Y. Pangilinan, G. R. Martin, A. Straub, J. Du, Y. Simon, V. M. Poser, S. Bush, Z. Diaz, J. Sahagun, A. Gao, J. Hernandez, D. Levine, K. S. Booth, E. O. Bateup, H. Rio, D. Hockemeyer, D. Blauwendraat, C. Soldner, F. 2024-02-13 doi:10.1101/2024.02.12.579917 Cold Spring Harbor Laboratory Press 2024-02-13 <![CDATA[ Maternal Immune Activation Alters Temporal Precision of Spike Generation of CA1 Pyramidal Neurons by Unbalancing GABAergic Inhibition in the Offspring ]]> https://biorxiv.org/cgi/content/short/2024.02.19.581109v1?rss=1" Griego, E. Cerna, C. Sollozo-Dupont, I. Fuenzalida, M. Galvan, E. J. 2024-02-22 doi:10.1101/2024.02.19.581109 Cold Spring Harbor Laboratory Press 2024-02-22 <![CDATA[ Liver-innervating vagal sensory neurons play an indispensable role in the development of hepatic steatosis in mice fed a high-fat diet. ]]> https://biorxiv.org/cgi/content/short/2024.02.20.581228v1?rss=1" JO, y.-h. Hwang, J. jo, W. Chua, S. Schwartz, G. J. 2024-02-23 doi:10.1101/2024.02.20.581228 Cold Spring Harbor Laboratory Press 2024-02-23 <![CDATA[ Development of novel tools for dissection of central versus peripheral dopamine D2-like receptor signaling in dysglycemia ]]> https://biorxiv.org/cgi/content/short/2024.02.21.581451v1?rss=1" Bonifazi, A. Ellenberger, M. Farino, Z. J. Aslanoglou, D. Rais, R. Pereira, S. Mantilla-Rivas, J. O. Boateng, C. A. Eshleman, A. J. Janowsky, A. Hahn, M. K. Schwartz, G. J. Slusher, B. S. Freyberg, Z. 2024-02-23 doi:10.1101/2024.02.21.581451 Cold Spring Harbor Laboratory Press 2024-02-23 <![CDATA[ Crimean-Congo Hemorrhagic Fever Survivors Elicit Protective Non-Neutralizing Antibodies that Target 11 Overlapping Regions on Viral Glycoprotein GP38 ]]> https://biorxiv.org/cgi/content/short/2024.03.02.583110v1?rss=1" Shin, O. S. Monticelli, S. R. Hjorth, C. K. Hornet, V. Doyle, M. Abelson, D. Kuehne, A. I. Wang, A. Bakken, R. R. Mishra, A. K. Middlecamp, M. Champney, E. Stuart, L. Maurer, D. P. Li, J. Berrigan, J. L. Balinandi, S. Lutwama, J. J. Lobel, L. Zeitlin, L. Walker, L. M. Dye, J. M. Chandran, K. Herbert, A. S. Pauli, N. T. McLellan, J. S. 2024-03-06 doi:10.1101/2024.03.02.583110 Cold Spring Harbor Laboratory Press 2024-03-06 <![CDATA[ Damage sensing through TLR9 Promotes Viral Clearance and Recovery During Influenza Infection ]]> https://biorxiv.org/cgi/content/short/2024.03.04.583378v1?rss=1" Kim, J. Yuan, Y. Agaronyan, K. Zhao, A. Wang, V. D. Gupta, G. Essayas, H. Kaminski, A. McGovern, J. Yu, S. Woo, S. Lee, C. J. Saleh, T. Hu, B. Sun, Y. Ishikawa, G. Bain, W. Evankovich, J. Herzog, E. Dela Cruz, C. S. Ryu, C. Sharma, L. 2024-03-06 doi:10.1101/2024.03.04.583378 Cold Spring Harbor Laboratory Press 2024-03-06 <![CDATA[ Lineage commitment pathways epigenetically oppose oncogenic Gαq/11-YAP signaling in dormant disseminated uveal melanoma ]]> https://biorxiv.org/cgi/content/short/2024.03.05.583565v1?rss=1" View larger version (24K): org.highwire.dtl.DTLVardef@146da24org.highwire.dtl.DTLVardef@9ba25aorg.highwire.dtl.DTLVardef@1bfd57corg.highwire.dtl.DTLVardef@158f414_HPS_FORMAT_FIGEXP M_FIG UM cells disseminate to the liver and stay dormant for a prolonged period before manifesting as overt metastasis(A). Dormant UM DCCs express high levels of NR2F1 which induces transcriptional repression of YAP1 by binding to its promoter (B). Binding of NR2F1 inhibits recruitment of H3K4me3 and H3K27ac gene activation marks onto YAP1 promoter and globally represses programs related to cell cycle proliferation, transcriptional initiation and GPCR signaling while activating axonal guidance and neural crest migration pathways in dormant UM DCCs (B). With time, dormant UM DCCs lose NR2F1 expression (C) and are reawakened to give rise to overt metastasis as NR2F1 binding onto the YAP promoter is reduced leading to activation of YAP1 oncogenic signaling (C). Also, YAP1 inhibits NR2F1 expression through unknown mechanisms causing activation of cell cycle proliferation, transcriptional initiation and GPCR pathways and inhibition of neuronal programs (C). C_FIG ]]> Kadamb, R. Anton, M. L. Purwin, T. J. Chua, V. Seeneevassen, L. Teh, J. Nieto, M. A. Sato, T. Terai, M. Roman, S. de Koning, L. Zheng, D. Aplin, A. E. Aguirre-Ghiso, J. 2024-03-08 doi:10.1101/2024.03.05.583565 Cold Spring Harbor Laboratory Press 2024-03-08 <![CDATA[ Function of C. elegans neurons from synaptic connectivity ]]> https://biorxiv.org/cgi/content/short/2024.03.08.584145v1?rss=1" Emmons, S. W. 2024-03-13 doi:10.1101/2024.03.08.584145 Cold Spring Harbor Laboratory Press 2024-03-13 <![CDATA[ Morphometric Analysis of the Thymic Epithelial Cell (TEC) Network Using Integrated and Orthogonal Digital Pathology Approaches ]]> https://biorxiv.org/cgi/content/short/2024.03.11.584509v1?rss=1" Lagou, M. K. Argyris, D. G. Vodopyanov, S. Gunther-Cummins, L. Hardas, A. Poutahidis, T. Panorias, C. DesMarais, S. Entenberg, C. Carpenter, R. S. Guzik, H. Nishku, X. Churaman, J. Maryanovich, M. DesMarais, V. Macaluso, F. P. Karagiannis, G. S. 2024-03-14 doi:10.1101/2024.03.11.584509 Cold Spring Harbor Laboratory Press 2024-03-14 <![CDATA[ Heterochromatin spreading in cancer cells through HDAC7 mediated histone H3.3 landscape reprogramming. ]]> https://biorxiv.org/cgi/content/short/2024.03.12.584656v1?rss=1" Hassan, O. Pizzagalli, M. Wu, L. J. Karambizi, D. Zepecki, J. P. Fajardo, E. Fiser, A. Tapinos, N. 2024-03-14 doi:10.1101/2024.03.12.584656 Cold Spring Harbor Laboratory Press 2024-03-14 <![CDATA[ A longevity-specific bank of induced pluripotent stem cells from centenarians and their offspring ]]> https://biorxiv.org/cgi/content/short/2024.03.12.584663v1?rss=1" Dowrey, T. W. Cranston, S. F. Skvir, N. Lok, Y. Gould, B. Petrowitz, B. Villar, D. Shan, J. James, M. Dodge, M. Belkina, A. C. Giadone, R. M. Sebastiani, P. Perls, T. T. Andersen, S. L. Murphy, G. J. 2024-03-14 doi:10.1101/2024.03.12.584663 Cold Spring Harbor Laboratory Press 2024-03-14 <![CDATA[ PRMT5 is required for full-length HTT expression by repressing multiple proximal intronic polyadenylation sites ]]> https://biorxiv.org/cgi/content/short/2024.03.14.584861v1?rss=1" ALQAZZAZ, M. Ciamponi, F. E. Ho, J. C. Maron, M. I. Yadav, M. Sababi, A. M. Macleod, G. Ahmadi, M. Bullivant, G. Tano, V. Langley, S. R. Osuna, M. S. Sachamitr, P. Kushida, M. Richards, L. M. Bardile, C. F. Pouladi, M. Pugh, T. Tyers, M. Angers, S. Dirks, P. B. Bader, G. Massirer, K. B. Barsyte-Lovejoy, D. Shechter, D. Harding, R. J. Arrowsmith, C. Prinos, P. 2024-03-14 doi:10.1101/2024.03.14.584861 Cold Spring Harbor Laboratory Press 2024-03-14 <![CDATA[ Estrogen regulation and functional role of FGFR4 in estrogen receptor positive breast cancer ]]> https://biorxiv.org/cgi/content/short/2024.03.18.585626v1?rss=1" Ding, K. Chen, L. Levine, K. M. Sikora, M. J. Tasdemir, N. Dabbs, D. Jankowitz, R. Hazan, R. S. Shah, O. S. Xavier, J. M. LEE, A. V. Oesterreich, S. 2024-03-20 doi:10.1101/2024.03.18.585626 Cold Spring Harbor Laboratory Press 2024-03-20 <![CDATA[ Co-translational sorting enables a single mRNA to generate distinct polysomes with different localizations and protein fates ]]> https://biorxiv.org/cgi/content/short/2024.03.20.585881v1?rss=1" Salloum, S. Seveno, M. El-koulali, K. Rialle, S. George, S. Lemmers, B. Zibara, K. Eliscovich, C. Hahne, M. Bertrand, E. 2024-03-20 doi:10.1101/2024.03.20.585881 Cold Spring Harbor Laboratory Press 2024-03-20