Channel : Francis Crick Institute

Delineating the rules for structural adaptation of membrane-associated proteins to evolutionary changes in membrane lipidome
Makarova, M., Peter, M., Balogh, G., Glatz, A., MacRae, J. I., Mora, N. L., Booth, P., Makeyev, E., Vigh, L., Oliferenko, S.
10.1101/762146 — Posted: 2019-09-09
The antibiotic bedaquiline activates host macrophage innate immune resistance to bacterial infection
Giraud-Gatineau, A., Coya, J. M., Maure, A., Biton, A., Thomson, M., Bernard, E. M., Gutierrez, M. G., Larrouy-Maumus, G., Brosch, R., Gicquel, B., Tailleux, L.
10.1101/758318 — Posted: 2019-09-06
Protein ubiquitylation is essential for the schizont to merozoite transition in Plasmodium falciparum blood-stage development
Wu, Y., Encheva, V., Green, J. L., Lasonder, E., Prommaban, A., Kunzelmann, S., Christodoulou, E., Grainger, M., Truongvan, N., Bothe, S., Sharma, V., Song, W., Pinzuti, I., Uthaipibull, C., Srichairatanakool, S., Barault, V., Langsley, G., Schindelin, H., Stieglitz, B., Snijders, A. P., Holder, A. A.
10.1101/755439 — Posted: 2019-09-04
Elongations of epithelial colony in vitro: symmetry breaking through collective effects
Comelles, J., Soumya, S. S., Anvitha, S., Salbreux, G., Jülicher, F., Inamdar, M. M., Riveline, D.
10.1101/755181 — Posted: 2019-09-04
Apical length modulates dendritic excitability in L5 pyramidal neurons
Galloni, A. R., Laffere, A., Rancz, E. A.
10.1101/754499 — Posted: 2019-09-04
A single cell transcriptome atlas of the developing zebrafish hindbrain
Tambalo, M., Mitter, R., Wilkinson, D.
10.1101/745141 — Posted: 2019-08-23
Lysine acetylation promotes PALB2 chromatin association to maintain genome stability
Esashi, F., Fournier, M., Bleuyard, J.-Y., Couturier, A. M., Ellins, J., Hester, S., Smerdon, S. J., Tora, L.
10.1101/735811 — Posted: 2019-08-15
Th22 cells are a major contributor to the mycobacterial CD4+ T cell response and are depleted during HIV infection
Bunjun, R., Omondi, F. M. A., Makatsa, M. S., Muller, T. L., Prentice, C., Wilkinson, R. J., Riou, C., Burgers, W. A.
10.1101/732263 — Posted: 2019-08-13
Improving protein function prediction with synthetic feature samples created by generative adversarial networks
Wan, C., Jones, D. T.
10.1101/730143 — Posted: 2019-08-08
jULIEs: extracellular probes for recordings and stimulation in the structurally and functionally intact mouse brain
Racz, R. R., Kollo, M., Racz, G., Bulz, C., Ackels, T., Warner, T., Wray, W. A., Kiskin, N., Chen, C., Ye, Z., de Hoz, L., Rancz, E. A., Schaefer, A. T.
10.1101/721548 — Posted: 2019-08-01
Precision of Tissue Patterning is Controlled by Dynamical Properties of Gene Regulatory Networks
Exelby, K., Herrera-Delgado, E., Garcia Perez, L., Perez-Carrasco, R., Sagner, A., Metzis, V., Sollich, P., Briscoe, J.
10.1101/721043 — Posted: 2019-07-31
Global profiling of myristoylation in Toxoplasma gondii reveals key roles for lipidation in CDPK1 and MIC7 function
Broncel, M., Dominicus, C., Hunt, A., Wallbank, B. A., Federico, S., Young, J. C., Treeck, M.
10.1101/719062 — Posted: 2019-07-30
O-linked mucin-type glycosylation regulates the transcriptional programme downstream of EGFR in breast cancer
Tajadura-Ortega, V., Gambardella, G., Skinner, A., Ter-Borch Gram Schjoldager, K., Beatson, R., Graham, R., Achkova, D., Taylor-Papadimitriou, J., Ciccarelli, F. D., Burchell, J.
10.1101/714675 — Posted: 2019-07-25
Lessons in genome engineering: opportunities, tools and pitfalls
Poernbacher, I., Crossman, S., Kurth, J., Nojima, H., Baena-Lopez, A., Alexandre, C., vincent, J.-P.
10.1101/710871 — Posted: 2019-07-22
A landmark-free morphometric pipeline: Application to characterise a Down syndrome model skull phenotype
Toussaint, N., Redhead, Y., Liu, W., Fisher, E., Hallgrimsson, B., Tybulewicz, V., Green, J. B. A., Schnabel, J.
10.1101/711259 — Posted: 2019-07-22
TRF1 prevents permissive DNA damage response, recombination and Break Induced Replication at telomeres
Vannier, J.-B., Porreca, R. M., Law, P. P., Herrera-Moyano, E., Gonzalez Franco, R., Montoya, A., Faull, P., Kramer, H.
10.1101/697979 — Posted: 2019-07-10
Structure of D. melanogaster ARC1 reveals a repurposed molecule with characteristics of retroviral Gag
Cottee, M. A., Letham, S. C., Young, G. R., Stoye, J. P., Taylor, I. A.
10.1101/691972 — Posted: 2019-07-10
Perifornical Area Urocortin-3 Neurons Promote Infant-directed Neglect and Aggression
Autry, A. E., Wu, Z., Kohl, J., Bambah-Mukku, D., Rubinstein, N. D., Marin-Rodriguez, B., Carta, I., Sedwick, V., Dulac, C.
10.1101/697334 — Posted: 2019-07-09
Greb1 is required for axial elongation and segmentation in vertebrate embryos.
Prajapati, R. S., Mitter, R., Vezzaro, A., Ish-Horowicz, D.
10.1101/692095 — Posted: 2019-07-06
Cyclin-dependent-like kinase 5 is required for pain signalling in both human neurons and mouse models
La Montanara, P., Hervera Abad, A., Baltussen, L., Palmisano, I., De Virgiliis, F., Gao, Y., Qasim, K., Gorgoraptis, N., Wong, K., Downs, J., Di Lazzaro, V., Pizzorusso, T., Ultanir, S., Leonard, H., Nagy, I., Mazarakis, N., Di Giovanni, S.
10.1101/690172 — Posted: 2019-07-02
High-throughput phenotyping reveals expansive genetic and structural underpinnings of immune variation
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
10.1101/688010 — Posted: 2019-07-02
Kinesin-8B controls basal body function and flagellum formation and is key to malaria parasite transmission
Zeeshan, M., Ferguson, D. J. P., Abel, S., Burrrell, A., Rea, E., Brady, D., Daniel, E., Delves, M., Vaughan, S., Holder, A. A., Le Roch, K. G., Moores, C. A., Tewari, R.
10.1101/686568 — Posted: 2019-06-28
Mouse retinal cell behaviour in space and time using light sheet fluorescence microscopy
Prahst, C., Ashrafzadeh, P., Harrington, K., Venkatraman, L., Richards, M., Russo, A. M., Cho, K.-S., Chang, K., Mead, T., Chen, D. F., Richardson, D., Claesson-Welsh, L., Franco, C., Bentley, K.
10.1101/686626 — Posted: 2019-06-28
RADICL-seq identifies general and cell type-specific principles of genome-wide RNA-chromatin interactions
Bonetti, A., Agostini, F., Suzuki, A. M., Hashimoto, K., Pascarella, G., Gimenez, J., Roos, L., Nash, A. J., Ghilotti, M., Cameron, C. J., Valentine, M., Medvedeva, Y. A., Noguchi, S., Agirre, E., Kashi, K., Samudyata, S., Luginbuehl, J., Cazzoli, R., Agrawal, S., Luscombe, N. M., Blanchette, M., Kasukawa, T., De Hoon, M., Arner, E., Lenhard, B., Plessy, C., Castelo-Branco, G., Orlando, V., Carninci, P.
10.1101/681924 — Posted: 2019-06-27
Insights into human genetic variation and population history from 929 diverse genomes
Bergström, A., McCarthy, S. A., Hui, R., Almarri, M. A., Ayub, Q., Danecek, P., Chen, Y., Felkel, S., Hallast, P., Kamm, J., Blanche, H., Deleuze, J.-F., Cann, H., Mallick, S., Reich, D., Sandhu, M. S., Skoglund, P., Scally, A., Xue, Y., Durbin, R., Tyler-Smith, C.
10.1101/674986 — Posted: 2019-06-27
Actomyosin regulation by Eph receptor signaling couples boundary cell formation to border sharpness
Cayuso, J., Xu, Q., Addison, M., Wilkinson, D.
10.1101/683631 — Posted: 2019-06-27
Broadly inhibiting anti-neuraminidase monoclonal antibodies induced by trivalent influenza vaccine and H7N9 infection in humans
Rijal, P., Wang, B. B., Tan, T. K., Schimanski, L., Janesch, P., Dong, T., McCauley, J. M., Daniels, R. S., Townsend, A., Huang, K.-Y. A.
10.1101/682450 — Posted: 2019-06-26
PEGylated surfaces for the study of DNA-protein interactions by atomic force microscopy
Akpinar, B., Bell, N., Pyne, A., Hoogenboom, B.
10.1101/680561 — Posted: 2019-06-24
Plasmodium condensin core subunits (SMC2/SMC4) mediate atypical mitosis and are essential for parasite proliferation and transmission
Pandey, R., Abel, S., Boucher, M., Wall, R. J., Zeeshan, M., Rea, E., Freville, A., Lu, X. M., Brady, D., Daniel, E., Stanway, R. R., Wheatley, S., Batugedara, G., Hollin, T., Bottrill, A. R., Gupta, D., Holder, A. A., Le Roch, K. G., Tewari, R.
10.1101/674028 — Posted: 2019-06-17
Inherited duplications of PPP2R3B promote naevi and melanoma via a novel C21orf91-driven proliferative phenotype
Polubothu, S., Al-Olabi, L., Lionarons, D. A., Harland, M., Thomas, A., Horswell, S., Hunt, L., Wlodarchak, N., Aguilera, P., Brand, S., Bryant, D., Beales, P., Carrera, C., Chen, H., Elgar, G., Harwood, C. A., Howell, M., Jenkins, D., Larue, L., Loughlin, S., MacDonald, J., Malvehy, J., Barberan Martin, S., Martins da Silva, V., Molina, M., Morrogh, D., Moulding, D., Nsengimana, J., Pittman, A., Puig-Butille, J.-A., Parmar, K., Sebire, N. J., Scherer, S., Stadnik, P., Stanier, P., Tell-Marti, G., Waelchli, R., Zarrei, M., Zecchin, D., Puig, S., Bataille, V., Xing, Y., Healey, E., Moore, G. E.
10.1101/672576 — Posted: 2019-06-15
Systematic analysis of Plasmodium myosins reveals differential expression, localization and function in invasive and proliferative parasite stages
Wall, R. J., ZEESHAN, M., Katris, N. J., Limenitakis, R., Rea, E., Stock, J., Brady, D., Waller, R. F., Holder, A. A., Tewari, R.
10.1101/671578 — Posted: 2019-06-14
Chemical precision glyco-mutagenesis by glycosyltransferase engineering in living cells
Schumann, B., Malaker, S. A., Wisnovsky, S. P., Debets, M. F., Agbay, A. J., Fernandez, D., Wagner, L. J. S., Lin, L., Choi, J., Fox, D. M., Peh, J., Gray, M. A., Pedram, K., Kohler, J. J., Mrksich, M., Bertozzi, C. R.
10.1101/669861 — Posted: 2019-06-13
Plasmodium Kinesin-8X associates with mitotic spindles and is essential for oocyst development during parasite proliferation and transmission
Zeeshan, M., Shilliday, F., Liu, T., Abel, S., Mourier, T., Ferguson, D. J. P., Rea, E., Stanway, R. R., Roques, M., Williams, D., Daniel, E., Brady, D., Roberts, A. J., Sinden, R. E., Holder, A. A., Pain, A., Le Roch, K. G., Moores, C. A., Tewari, R.
10.1101/665836 — Posted: 2019-06-10
Retroviral integration into nucleosomes throughDNA looping and sliding along the histone octamer
Wilson, M. D., Renault, L., Maskell, D. P., Ghoneim, M., Pye, V. E., Nans, A., Rueda, D. S., Cherepanov, P., Costa, A.
10.1101/663336 — Posted: 2019-06-07
Single-Cell Signalling Analysis of Heterocellular Organoids
Qin, X., Sufi, J., Vlckova, P., Kyriakidou, P., Acton, S. E., Li, V. S. W., Nitz, M., Tape, C. J.
10.1101/659896 — Posted: 2019-06-06
ScanningSWATH enables ultra-fast proteomics using high-flow chromatography and minute-scale gradients
Messner, C., Demichev, V., Bloomfield, N., Ivosev, G., Wasim, F., Zelezniak, A., Lilley, K., Tate, S., Ralser, M.
10.1101/656793 — Posted: 2019-05-31
The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens
Zhou, N., Jiang, Y., Bergquist, T. R., Lee, A. J., Kacsoh, B. Z., Crocker, A. W., Lewis, K. A., Georghiou, G., Nguyen, H. N., Hamid, M. N., Davis, L., The Critical Assessment of Function Annotation, , Rost, B., Brenner, S. E., Orengo, C. A., Jeffery, C. J., Bosco, G. D., Hogan, D. A., Martin, M. J., O\'Donovan, C., Mooney, S. D., Greene, C. S., Radivojac, P., Friedberg, I.
10.1101/653105 — Posted: 2019-05-29
Altered Hippocampal-Prefrontal Neural Dynamics in Mouse Models of Down Syndrome
Chang, P., Bush, D., Schorge, S., Good, M., Canonica, T., Shing, N., Noy, S., Wiseman, F. K., Burgess, N., Tybulewicz, V. L., Walker, M. C., Fisher, E. M.
10.1101/644849 — Posted: 2019-05-23
Rapid sensory integration in orexin neurons governs probability of future movements
Karnani, M. M., Schöne, C., Bracey, E. F., Gonzalez, J. A., Viskaitis, P., Adamantidis, A., Burdakov, D.
10.1101/620096 — Posted: 2019-04-26
Epigenetic regulation of unique genes and repetitive elements by the KRAB zinc finger protein ZFP57
Shi, H., Strogantsev, R., Takahashi, N., Kazachenka, A., Lorincz, M., Hemberger, M., Ferguson-Smith, A.
10.1101/611400 — Posted: 2019-04-18
nf-core: Community curated bioinformatics pipelines
Ewels, P., Peltzer, A., Fillinger, S., Alneberg, J., Patel, H., Wilm, A., Garcia, M., Di Tommaso, P., Nahnsen, S.
10.1101/610741 — Posted: 2019-04-16
A fence function for adherens junctions in epithelial cell polarity
Aguilar-Aragon, M., Tournier, A., Thompson, B. J.
10.1101/605808 — Posted: 2019-04-11
Natural hypothalamic circuit dynamics underlying object memorization
Kosse, C., Burdakov, D.
10.1101/603936 — Posted: 2019-04-11
Widespread FUS mislocalization is a molecular hallmark of ALS
Tyzack, G. E., Luisier, R., Taha, D. M., Neeves, J., Modic, M., Mitchell, J. S., Meyer, I., Greensmith, L., Newcombe, J., Ule, J., Luscombe, N. M., Patani, R.
10.1101/491787 — Posted: 2019-04-09
Canonical NOTCH signaling controls the early progenitor state and emergence of the medullary epithelial lineage in fetal thymus development.
Liu, D., Kousa, A., O\'Neill, K., Guillemot, F., Popis, M., Farley, A. M., Tomlinson, S. R., Ulyanchenko, S., Seymour, P. A., Serup, P., Koch, U., Radtke, F., Blackburn, C. C.
10.1101/600833 — Posted: 2019-04-05
Elevated LRRK2 and α-synuclein levels in CSF of infectious meningitis patients
Herbst, S., Marais, S., Gutierrez, M. G., Waddell, S. J., Wilkinson, R. J., Lai, R. P.
10.1101/599381 — Posted: 2019-04-04
Mycobacterium tuberculosis cording in the cytosol of live lymphatic endothelial cells
Lerner, T. R., Queval, C. J., Lai, R. P., Russell, M. R. G., Fearns, A., Greenwood, D. J., Collinson, L., Wilkinson, R. J., Gutierrez, M. G.
10.1101/595173 — Posted: 2019-04-01
Mask family proteins ANKHD1 and ANKRD17 regulate YAP nuclear import, stability and phase separation.
Sidor, C., Borreguero-Munoz, N., Fletcher, G., Elbediwy, A., Vanyai, H., Guillermin, O., Thompson, B. J.
10.1101/595439 — Posted: 2019-04-01
Apical transport of Crumbs maintains epithelial cell polarity
Aguilar-Aragon, M., Fletcher, G., Thompson, B. J.
10.1101/592311 — Posted: 2019-03-28
A Transcriptome Fingerprinting Assay for Clinical Immune Monitoring
Altman, M. C., Baldwin, N., Whalen, E., Al-Shaikhly, T., Presnell, S., Khaenam, P., Gersuk, V. H., Chiche, L., Jourde-Chiche, N., Phillips, T., Klintmalm, G., O\'Garra, A., Berry, M., Bloom, C., Wilkinson, R. J., Graham, C. M., Lipman, M., Lertmemongkolchai, G., Kheradmand, F., Mejias, A., Ramilo, O., Palucka, K., Pascual, V., Banchereau, J., Chaussabel, D.
10.1101/587295 — Posted: 2019-03-24
Prediction of inter-residue contacts with DeepMetaPSICOV in CASP13
Kandathil, S. M., Greener, J. G., Jones, D. T.
10.1101/586800 — Posted: 2019-03-24
ERK1/2 signalling dynamics promote neural differentiation by regulating the polycomb repressive complex
Semprich, C. I., Metzis, V., Patel, H., Briscoe, J., Storey, K. G.
10.1101/586719 — Posted: 2019-03-22
Identification of reduced host transcriptomic signatures for tuberculosis and digital PCR-based validation and quantification
Gliddon, H. D., Kaforou, M., Alikian, M., Habgood-Coote, D., Zhou, C., Oni, T., Anderson, S. T., Brent, A. J., Crampin, A. C., Eley, B., Heyderman, R. S., Kern, F., Langford, P. R., Ottenhoff, T. H., French, N., Hibberd, M. L., Wright, V. J., Dockrell, H. M., Coin, L. J., Wilkinson, R. J., Levin, M.
10.1101/583674 — Posted: 2019-03-21
Protein structure without structure determination: direct coupling analysis based on in vitro evolution
Fantini, M., Lisi, S., de los Rios, P., Cattaneo, A., Pastore, A.
10.1101/582056 — Posted: 2019-03-20
Neuronal programming by microbiota enables environmental regulation of intestinal motility
Obata, Y., Boeing, S., Castano, A., Carina Bon-Frauches, A., Gomez de Aguero, M., Boesmans, W., Yilmaz, B., Lopes, R., Huseynova, A., Maradana, M. R., Vanden Berghe, P., Murray, A. J., Stockinger, B., Macpherson, A. J., Pachnis, V.
10.1101/579250 — Posted: 2019-03-15
ESCRT-III/Vps4 controls heterochromatin-nuclear envelope attachments
Pieper, G. H., Sprenger, S., Teis, D., Oliferenko, S.
10.1101/579805 — Posted: 2019-03-15
Pax9 is required for cardiovascular development and interacts with Tbx1 in the pharyngeal endoderm to control 4th pharyngeal arch artery morphogenesis.
Phillips, H. M., Stothard, C. A., Shaikh Qureshi, W. M., Kousa, A. I., Briones-Leon, A., Khasawneh, R., Sanders, R., Mazotta, S., Dodds, R., Seidel, K., Bates, T., Nakatomi, M., Cockell, S., Schneider, J. E., Mohun, T. J., Maehr, R., Kist, R., Peters, H., Bamforth, S. D.
10.1101/576660 — Posted: 2019-03-14
Massively Parallel Microwire Arrays Integrated with CMOS chips for Neural Recording
Obaid, A. M., Hanna, M.-E. S., Wu, Y.-W., Kollo, M., Racz, R. R., Angle, M. R., Muller, J., Brackbill, N., Wray, W., Franke, F., Chichilnisky, E. J., Hierlemann, A., Ding, J. B., Schaefer, A. T., Melosh, N. A.
10.1101/573295 — Posted: 2019-03-11
Lactate potentiates differentiation and expansion of cytotoxic T cells
Rundqvist, H., Velica, P., Barbieri, L., Gameiro, P., Cunha, P., Gojkovic, M., Mijwel, S., Ahlstedt, E., Foskolou, I. P., Ruiz-Perez, M., Arsenian-Henriksson, M., Ule, J., Ostman, A., Johnson, R.
10.1101/571745 — Posted: 2019-03-09
Oncogenic signaling alters cell shape and mechanics to facilitate cell division under confinement.
Matthews, H. K., Ganguli, S., Plak, K., Taubenberger, A. V., Piel, M., Guck, J., Baum, B.
10.1101/571885 — Posted: 2019-03-09
Mammalian olfaction is a high temporal bandwidth sense
Erskine, A., Ackels, T., Dasgupta, D., Fukunaga, I., Schaefer, A. T.
10.1101/570689 — Posted: 2019-03-09
CHIME: CMOS-hosted in-vivo microelectrodes for massively scalable neuronal recordings
Kollo, M., Racz, R. R., Hanna, M., Obaid, A., Angle, M. R., Wray, W., Kong, Y., Hierlemann, A., Muller, J., Melosh, N. A., Schaefer, A. T.
10.1101/570069 — Posted: 2019-03-08
Differential requirements of cyclase associated protein (CAP) for actin turnover during the lytic cycle of Toxoplasma gondii
Hunt, A., Wagener, J., Kent, R., Carmeille, R., Russell, M., Peddie, C., Collinson, L., Heaslip, A., Ward, G. E., Treeck, M.
10.1101/569368 — Posted: 2019-03-06
In the chick embryo, estrogen can induce chromosomally male ZZ left gonad epithelial cells to form an ovarian cortex which supports oogenesis
Guioli, S., Zhao, D., Nandi, S., Clinton, M., Lovell-Badge, R.
10.1101/568691 — Posted: 2019-03-05
An Integrated Chemical Proteomics Approach for Quantitative Profiling of Intracellular ADP-Ribosylation
Kalesh, K., Lukauskas, S., Borg, A. J., Snijders, A. P., Leung, A. K. L., Haskard, D. O., DiMaggio, P. A.
10.1101/568527 — Posted: 2019-03-05
The Personal Genome Project-UK: an open access resource of human multi-omics data
Chervova, O., Conde, L., Guerra-Assuncao, J. A., Moghul, I., Webster, A. P., Berner, A., Larose Cadieux, E., Tian, Y., Voloshin, V., Hamoudi, R. A., Herrero, J., Beck, S.
10.1101/566711 — Posted: 2019-03-04
A Complex Interplay of Anionic Phospholipid Binding Regulates 3-Phosphoinositide-Dependent-Kinase-1 Homodimer Activation
De Las Heras, G., Calleja, V., Bailly, R., Dessolin, J., Requejo-Isidro, J., Larijani, B.
10.1101/566430 — Posted: 2019-03-03
TGF-β family ligands exhibit distinct signaling dynamics that are driven by receptor localization
Miller, D. S. J., Schmierer, B., Hill, C. S.
10.1101/565416 — Posted: 2019-03-01
Identification of RBPMS as a smooth muscle master splicing regulator via proximity of its gene with super-enhancers
Nakagaki-Silva, E. E., Gooding, C., Llorian, M., Jacob, A. G., Richards, F., Buckroyd, A., Sinha, S., Smith, C. W.
10.1101/563304 — Posted: 2019-02-28
Improving diagnosis and monitoring of treatment response in pulmonary tuberculosis using the molecular bacterial load assay (MBLA)
Sabiiti, W., Azam, K., Kuchaka, D., Mtafya, B., Bowness, R. E., Oravcova, K., Farmer, E., Honeyborne, I., Evangelopoulos, D., McHugh, T. D., Xiao, H., Khosa, C., Rachow, A., Heinrich, N., Kampira, E., Davies, G., Bhatt, N., Ntinginya, N., Viegas, S., Jani, I., Kamdolozi, M., Mdolo, a., Khonga, M., Boeree, M. J., Philips, P. P., Sloan, D. J., Hoelscher, M., Kibiki, G., Gillespie, S. H.
10.1101/555995 — Posted: 2019-02-28
Perturbation of the gut microbiota by antibiotics results in accelerated breast tumour growth and metabolic dysregulation
Kirkup, B., McKee, A., Makin, K., Paveley, J., Caim, S., Alcon-Giner, C., Leclaire, C., Dalby, M., Le Gall, G., Andrusaite, A., Kreuzaler, P., Driscoll, P., MacRae, J., Calvani, E., Ghanate, A., Milling, S., Yuneva, M., Weilbaecher, K., Korcsmaros, T., Hall, L. J., Robinson, S. D.
10.1101/553602 — Posted: 2019-02-19
Segment 2 from influenza A(H1N1)pdm09 viruses confers temperature sensitive HA yield on candidate vaccine virus growth in eggs that is complemented by PB2 701D
Hussain, S., Turnbull, M. L., Pinto, R. M., McCauley, J. W., Engelhardt, O. G., Digard, P.
10.1101/541235 — Posted: 2019-02-08
Simultaneous tracking of cell motility in liquid and at the solid-liquid interface
Hook, A. L., Flewellen, J. L., Zaid, I. M., Berry, R. M., Dubern, J.-F., Carabelli, A., Wildman, R., Russell, N., Williams, P., Alexander, M. R.
10.1101/541615 — Posted: 2019-02-05
Neuronal differentiation affects tissue mechanics and progenitor arrangement in the vertebrate neuroepithelium
Guerrero, P., Perez-Carrasco, R., Zagorski, M., Page, D., Kicheva, A., Briscoe, J., Page, K.
10.1101/536342 — Posted: 2019-01-31
The visual system of the genetically tractable crustacean Parhyale hawaiensis: diversification of eyes and visual circuits associated with low-resolution vision
Ramos, A. P., Gustafsson, O., Labert, N., Salecker, I., Nilsson, D. E., Averof, M.
10.1101/527564 — Posted: 2019-01-23
A Novel Repertoire of Blood Transcriptome Modules Based on Co-expression Patterns Across Sixteen Disease and Physiological States
Altman, M. C., Rinchai, D., Baldwin, N., Whalen, E., Garand, M., Kabeer, B. A., Toufiq, M., Presnell, S., Chiche, L., Jourde-Chiche, N., Phillips, T., Klintmalm, G., O\'Garra, A., Berry, M., Bloom, C., Wilkinson, R. J., Graham, C. M., Lipman, M., Lertmemongkolchai, G., Bedognetti, D., Kheradmand, F., Mejias, A., Ramilo, O., Palucka, K., Pascual, V., Banchereau, J., Chaussabel, D.
10.1101/525709 — Posted: 2019-01-23
Missense variants in health and disease target distinct functional pathways and proteomics features
Laddach, A., Ng, J. C.-F., Fraternali, F.
10.1101/512764 — Posted: 2019-01-09
Genomic approaches reveal an endemic sub-population of gray wolves in Southern China
Wang, G.-D., Zhang, M., Wang, X., Yang, M. A., Cao, P., Liu, F., Lu, H., Feng, X., Skoglund, P., Wang, L., Fu, Q., Zhang, Y.-P.
10.1101/512921 — Posted: 2019-01-08
Comparative analysis of Synthetic Physical Interactions with the yeast centrosome
Howell, R. S., Csikasz-Nagy, A., Thorpe, P. H.
10.1101/514166 — Posted: 2019-01-07
Whole Genome Doubling mitigates Muller\'s Ratchet in Cancer Evolution
Lopez, S., Lim, E., Huebner, A., Dietzen, M., Mourikis, T., Watkins, T. B., Rowan, A., Dewhurst, S. M., Birkbak, N. J., Wilson, G. A., Jamal-Hanjani, M., Swanton, C., TRACERx Consortium, , McGranahan, N.
10.1101/513457 — Posted: 2019-01-07
CSynth: A Dynamic Modelling and Visualisation Tool for 3D Chromatin Structure
Todd, S., Todd, P., McGowan, S. J., Hughes, J. R., Kakui, Y., Leymarie, F. F., Latham, W., Taylor, S.
10.1101/499806 — Posted: 2019-01-03
TorC2 dependent phosphorylation modulates calcium regulation of fission yeast myosin.
Baker, K. B., Gyamfi, I. A., Mashanov, G. I., Molloy, J. E., Geeves, M. A., Mulvihill, D. P.
10.1101/498865 — Posted: 2018-12-18
Using deep maxout neural networks to improve the accuracy of function prediction from protein interaction networks
Wan, C., Cozzetto, D., Fa, R., Jones, D. T.
10.1101/499244 — Posted: 2018-12-17
Interleukin-36 promotes systemic Type-I IFN responses in severe psoriasis.
Catapano, M., Vergnano, M., Romano, M., Mahil, S. K., Choon, S.-E., Burden, D. A., Young, H. S., Carr, I. M., Lachmann, H. J., Lombardi, G., Smith, C., Ciccarelli, F. D., Barker, J. N., Capon, F.
10.1101/496851 — Posted: 2018-12-14
Nucleosome positioning stability is a significant modulator of germline mutation rate variation across the human genome
Li, C., Luscombe, N. M.
10.1101/494914 — Posted: 2018-12-13
The Spatio-Temporal Control of Zygotic Genome Activation
Gentsch, G., Owens, N. D. L., Smith, J. C.
10.1101/488056 — Posted: 2018-12-06
Robust estimation of recent effective population size from number of independent origins in soft sweeps
Khatri, B. S., Burt, A.
10.1101/472266 — Posted: 2018-11-19
Single cell transcriptomics reveals spatial and temporal dynamics of gene expression in the developing mouse spinal cord
Delile, J., Rayon, T., Melchionda, M., Edwards, A., Briscoe, J., Sagner, A.
10.1101/472415 — Posted: 2018-11-16
Fix your membrane receptor imaging: Actin cytoskeleton and CD4 membrane organization disruption by chemical fixation
Pereira, P. M., Albrecht, D., Jacobs, C., Marsh, M., Mercer, J., Henriques, R.
10.1101/450635 — Posted: 2018-10-23
Mitochondria form cholesterol-rich contact sites with the nucleus during retrograde response
Desai, R., East, D. A., Hardy, L., Crosby, J., Faccenda, D., Alvarex, M. S., Mainenti, M., Hussey, L. K., Bentham, R., Szabadkai, G., Zappulli, V., Dhoot, G., Fleck, R. A., Vizcay-Barrena, G., Smith, K., Campanella, M.
10.1101/445411 — Posted: 2018-10-17
Temporal control of cortico-thalamic neuron specification by regulation of Neurogenin activity and Polycomb repressive complexes
Oishi, K., van den Berg, D. L. C., Guillemot, F.
10.1101/431684 — Posted: 2018-10-01
NanoJ: a high-performance open-source super-resolution microscopy toolbox
Laine, R., Tosheva, K., Gustafsson, N., Gray, R. D. M., Almada, P., Albrecht, D., Risa, G. T., Hurtig, F., Lindas, A.-C., Baum, B., Mercer, J., Leterrier, C., Pereira, P. M., Culley, S., Henriques, R.
10.1101/432674 — Posted: 2018-10-01
Id4 eliminates the pro-activation factor Ascl1 to maintain quiescence of adult hippocampal stem cells
Blomfield, I. M., Rocamonde, B., Masdeu, M. D. M., Mulugeta, E., Vaga, S., van den Berg, D. L. C., Huillard, E., Guillemot, F., Urban, N.
10.1101/426015 — Posted: 2018-09-25
Apical caspase reporters uncover unknown stages of apoptosis and enable ready visualization of undead cells
Baena-Lopez, L. A., Arthurton, L., Bischoff, M., Vincent, J.-P., Alexandre, C., McGregor, R.
10.1101/419630 — Posted: 2018-09-17
Function and essentiality of Plasmodium falciparum Plasmepsin V
Boonyalai, N., Collins, C. R., Hackett, F., Withers-Martinez, C., Blackman, M. J.
10.1101/404798 — Posted: 2018-09-06
An Artificial Intelligence Workflow for Defining Host-Pathogen Interactions
Fisch, D. H., Yakimovich, A., Clough, B., Wright, J., Bunyan, M., Howell, M., Mercer, J., Frickel, E.-M.
10.1101/408450 — Posted: 2018-09-05
EGFR SIGNALING COORDINATES PATTERNING WITH CELL SURVIVAL DURING DROSOPHILA EPIDERMAL DEVELOPMENT
Crossman, S. H., Streichan, S., vincent, J.-P.
10.1101/399865 — Posted: 2018-08-24
A divergent kinase lacking the glycine-rich loop regulates membrane ultrastructure of the Toxoplasma parasitophorous vacuole
Beraki, T., Hu, X., Broncel, M., Young, J. C., O\'Shaughnessy, W. J., Borek, D. M., Treeck, M., Reese, M. L.
10.1101/397489 — Posted: 2018-08-22
CryoEM structures of open dimers of Gyrase A in complex with DNA illuminate mechanism of strand passage
Soczek, K. M., Grant, T., Rosenthal, P. B., Mondragon, A.
10.1101/397000 — Posted: 2018-08-21
P-TEFb activation by RBM7 shapes a pro-survival transcriptional response to genotoxic stress
Bugai, A., Quaresma, A. J., Friedel, C. C., Lenasi, V., Sibley, C. R., Kukanja, P., Fujinaga, K., Blasius, M., Hennig, T., Ule, J., Doelken, L., Barboric, M.
10.1101/394239 — Posted: 2018-08-17
Genome-Wide Reconstitution of Chromatin Transactions: RSC Preferentially disrupts H2A.Z-Containing Nucleosomes
Cakiroglu, A., Clapier, C., Ehrensberger, A., Darbo, E., Cairns, B., Luscombe, N., Svejstrup, J.
10.1101/394692 — Posted: 2018-08-17
The Network of Cancer Genes (NCG): a comprehensive catalogue of known and candidate cancer genes from cancer sequencing screens.
Ciccarelli, F. D., Kuppili Venkata, S., Repana, D., Nulsen, J., Dressler, L., Bortolomeazzi, M., Tourna, A., Yakovleva, A., Palmieri, T.
10.1101/389858 — Posted: 2018-08-11
Target-specific precision of CRISPR-mediated genome editing
Chakrabarti, A. M., Henser-Brownhill, T., Monserrat, J., Poetsch, A. R., Luscombe, N. M., Scaffidi, P.
10.1101/387027 — Posted: 2018-08-09
Mapping the human kinome in response to DNA damage
Owusu, M., Bannauer, P., Mourikis, A., Jones, A., Ferreira da Silva, J., Caldera, M., Wiedner, M., Lardeau, C.-H., Menche, J., Kubicek, S., Ciccarelli, F., Loizou, J.
10.1101/385344 — Posted: 2018-08-06
Nitrogen utilisation by the metabolic generalist pathogen Mycobacterium tuberculosis
Agapova, A., Hunt, D. M., Petridis, M., Garza-Garcia, A., Sohaskey, C. D., Carvalho, L. P.
10.1101/385278 — Posted: 2018-08-05
Functional cross-talk between allosteric effects of activating and inhibiting ligands underlies PKM2 regulation
Macpherson, J. A., Theisen, A., Masino, L., Fets, L., Driscoll, P. C., Encheva, V., Snijders, A. P., Martin, S. R., Kleinjung, J., Barran, P. E., Fraternali, F., Anastasiou, D.
10.1101/378133 — Posted: 2018-07-26
A Ubiquitin-Binding Domain that Does Not Bind Ubiquitin
Lim, M., Newman, J. A., Williams, H. L., Aitkenhead, H., Gileadi, O., Svejstrup, J.
10.1101/375832 — Posted: 2018-07-24
Survival of the frequent at finite population size and mutation rate: filing the gap between quasispecies and monomorphic regimes
Khatri, B. S.
10.1101/375147 — Posted: 2018-07-23
Antibiotic resistance evasion is explained by rare mutation frequency and not by lack of compensatory mechanisms
Carvalho, L. P., Evangelopoulos, D., Prosser, G., Rodgers, A., Dagg, B., Khatri, B., Ho, M. M., Gutierrez, M., Cortes, T.
10.1101/374215 — Posted: 2018-07-23
γ-proteobacteria eject their polar flagella under nutrient depletion, retaining flagellar motor relic structures
Ferreira, J. L., Gao, F. Z., Rossmann, F. M., Nans, A., Brenzinger, S., Hosseini, R., Briegel, A., Thormann, K. M., Rosenthal, P. B., Beeby, M.
10.1101/367458 — Posted: 2018-07-18
Bcl6 promotes neurogenic conversion through transcriptional repression of multiple self-renewal-promoting extrinsic pathways.
Bonnefont, J., Tiberi, L., van den Ameele, J., Potier, D., Gaber, Z., Lin, X., Bilheu, A., Herpoel, A., Velez Bravo, F., Guillemot, F., Aerts, S., Vanderhaeghen, P.
10.1101/370999 — Posted: 2018-07-18
Drug susceptibility testing and mortality in patients treated for tuberculosis in high-burden countries
Zuercher, K., Ballif, M., Fenner, L., Borrell, S., Keller, P. M., Gnokoro, J., Marcy, O., Yotebieng, M., Diero, L., Carter, E. J., Rockwood, N., Wilkinson, R. J., Cox, H., Ezati, N., Abimiku, A. l. G., Collantes, J., Avihingsanon, A., Kawkitinarong, K., Reinhard, M., Hoemke, R., Huebner, R., Gagneux, S., Boettger, E. C., Egger, M., on behalf of the International Epidemiology Databases to Evaluate AIDS (IeDEA)
10.1101/370056 — Posted: 2018-07-18
Nanoscale Polarization of the Vaccinia Virus Entry Fusion Complex Drives Efficient Fusion
Gray, R., Albrecht, D., Beerli, C., Cohen, G., Henriques, R., Mercer, J.
10.1101/360073 — Posted: 2018-07-01
Transcriptome-wide profiling of mammalian spliceosome and branchpoints with iCLIP
Briese, M., Haberman, N., Sibley, C., Chakrabarti, A., Wang, Z., Konig, J., Perera, D., Wickramasinghe, V., Venkitaraman, A., Luscombe, N., Smith, C., Curk, T., Ule, J.
10.1101/353599 — Posted: 2018-06-22
Dual RNAseq of human leprosy lesions identifies bacterial determinants linked to host immune response
Montoya, D., Andrade, P. R., Silva, B. J. A., Teles, R. M. B., Bryson, B., Sadanand, S., Noel, T., Lu, J., Sarno, E., Arnvig, K. B., Young, D., Lahiri, R., Williams, D. L., Fortune, S., Bloom, B. R., Pellegrini, M., Modlin, R. L.
10.1101/354407 — Posted: 2018-06-22
Plasmodium-specific atypical memory B cells are not part of the long-lived memory response
Perez-Mazliah, D., Gardner, P. J., Schweighoffer, E., McLaughlin, S., Hosking, C., Tumwine, I., Davis, R. S., Potocnik, A. J., Tybulewicz, V., langhorne, j.
10.1101/350819 — Posted: 2018-06-22
Modelling the nuclear envelope of HeLa cells
Karabag, C., Jones, M. L., Peddie, C. J., Weston, A. E., Collinson, L. M., Reyes-Aldasoro, C. C.
10.1101/344986 — Posted: 2018-06-12
Phosphorylation of a Toxoplasma gondii tyrosine transporter by calcium-dependent kinase 3 is important for parasite fitness
Wallbank, B. A., Dominicus, C. S., Broncel, M., Legrave, N., MacRae, J. I., Staines, H. M., Treeck, M.
10.1101/339671 — Posted: 2018-06-05
Repression of divergent noncoding transcription by a sequence-specific transcription factor
Wu, A. C., Patel, H., Chia, M., Moretto, F., Frith, D., Snijders, A. P., van Werven, F. J.
10.1101/314310 — Posted: 2018-05-17
Discovery of a novel stereospecific β-hydroxyacyl-CoA lyase/thioesterase shared by three metabolic pathways in Mycobacterium tuberculosis
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.
10.1101/322404 — Posted: 2018-05-15
TET1 drives global DNA demethylation via DPPA3-mediated inhibition of maintenance methylation
Mulholland, C. B., Ryan, J., Qin, W., Bartoschek, M. D., Traube, F. R., Parsa, E., Modic, M., Nixdorf, D., Ziegenhain, C., Carell, T., Enard, W., Bultmann, S., Leonhardt, H.
10.1101/321604 — Posted: 2018-05-15
Mechanics of CaMKII-actin networks
Khan, S. M., Molloy, J. E., Downing, K. H.
10.1101/308353 — Posted: 2018-05-14
Automating multimodal microscopy with NanoJ-Fluidics
Almada, P., Pereira, P., Culley, S., Caillol, G., Boroni-Rueda, F., Dix, C. L., Laine, R. F., Charras, G., Baum, B., Leterrier, C., Henriques, R.
10.1101/320416 — Posted: 2018-05-14
Patient-specific detection of cancer genes reveals recurrently perturbed processes in esophageal adenocarcinoma
Mourikis, T., Benedetti, L., Foxall, E., Perner, J., Cereda, M., Lagergren, J., Howell, M., Yau, C., Fitzgerald, R., Scaffidi, P., Ciccarelli, F. D.
10.1101/321612 — Posted: 2018-05-14
Portraits of genetic intra-tumour heterogeneity and subclonal selection across cancer types
Dentro, S. C., Leshchiner, I., Haase, K., Tarabichi, M., Wintersinger, J., Deshwar, A. G., Yu, K., Rubanova, Y., Mcintyre, G., Vazquez-Garcia, I., Kleinheinz, K., Livitz, D. G., Malikic, S., Donmez, N., Sengupta, S., Demeulemeester, J., Anur, P., Jolly, C., Cmero, M., Rosebrock, D., Schumacher, S., Fan, Y., Fittall, M., Drews, R. M., Yao, X., Lee, J., Schlesner, M., Adams, D. J., Getz, G., Boutros, P. C., Imielinski, M., Beroukhim, R., Sahinalp, S. C., Ji, Y., Peifer, M., Martincorena, I., Markowetz, F., Mustonen, V., Yuan, K., Gerstung, M., Spellman, P. T., Wang, W., Morris, Q. D., Wedge, D.
10.1101/312041 — Posted: 2018-05-05
Genomic determinants of sympatric speciation of the Mycobacterium tuberculosis complex across evolutionary timescales.
Chiner-Oms, A., Sanchez-Buso, L., Corander, J., Gagneux, S., Harris, S., Young, D., Gonzalez-Candelas, F., Comas, I.
10.1101/314559 — Posted: 2018-05-04
Creating Standards for Evaluating Tumour Subclonal Reconstruction
Boutros, P. C., Salcedo, A., Tarabichi, M., Espiritu, S. M. G., Deshwar, A. G., David, M., Wilson, N. M., Dentro, S., Wintersinger, J. A., Liu, L. Y., Ko, M., Sivanandan, S., Zhang, H., Zhu, K., Yang, T.-H., Chilton, J. M., Buchanan, A., Lalansingh, C. M., P\'ng, C., Anghel, C. V., Umar, I., Lo, B., Simpson, J. T., Stuart, J. M., Anastassiou, D., Guan, Y., Ewing, A., Ellrott, K., Wedge, D. C., Morris, Q. D., Van Loo, P., DREAM SMC-Het Participants
10.1101/310425 — Posted: 2018-04-28
Maternal pluripotency factors prime the zygotic genome to respond to intercellular signals
Gentsch, G. E., Spruce, T., Owens, N. D. L., Smith, J. C.
10.1101/306803 — Posted: 2018-04-23
Heteromeric RNP assembly at LINEs controls lineage-specific RNA processing
Attig, J., Agostini, F., Gooding, C., Singh, A., Chakrabarti, A. M., Haberman, N., Emmett, W., Smith, C. W., Luscombe, N. M., Ule, J.
10.1101/297853 — Posted: 2018-04-09
A non-cell autonomous actin redistribution enables isotropic retinal growth
Matejcic, M., Salbreux, G., Norden, C.
10.1101/293951 — Posted: 2018-04-03
AutonoMouse: High throughput automated operant conditioning shows progressive behavioural impairment with graded olfactory bulb lesions.
Erskine, A., Bus, T., Herb, J. T., Schaefer, A. T.
10.1101/291815 — Posted: 2018-03-29
Comparable affinity of RabGDIα for GTP- and GDP-bound forms of Rab7 supports a four-state transition model for Rab7 subcellular localization
Kanemitsu, A. F., Morishita, S., Kjaer, S., Fukuda, M., Schiavo, G., Nakamura, T.
10.1101/287516 — Posted: 2018-03-27
Glycosylation-dependent modulation of the lL-2 signaling axis determines Th17 differentiation and IL-10 production
Gabrysova, L., Mann, E. H., Bradley, L., MacRae, J. I., Whicher, C., Hawrylowicz, C. M., Anastasiou, D., O\'Garra, A.
10.1101/287920 — Posted: 2018-03-23
Identifying the genetic basis of variation in cell behaviour in human iPS cell lines from healthy donors
Vigilante, A., Laddach, A., Moens, N., Meleckyte, R., Leha, A., Ghahramani, A., Culley, O. J., Kathuria, A., Hurling, C., Vickers, A., Tewary, M., Zandstra, P., HipSci Consortium, , Durbin, R., Fraternali, F., Stegle, O., Birney, E., Luscombe, N. M., Danovi, D., Watt, F. M.
10.1101/285627 — Posted: 2018-03-20
DIA-NN: Deep neural networks substantially improve the identification performance of Data-independent acquisition (DIA) in proteomics
Demichev, V., Messner, C. B., Lilley, K. S., Ralser, M.
10.1101/282699 — Posted: 2018-03-15
Distinct and stage-specific contributions of TET1 and TET2 to stepwise cytosine oxidation in the transition from naive to primed pluripotency
Mulholland, C. B., Traube, F. R., Parsa, E., Eckl, E.-M., Schoenung, M., Modic, M., Bartoschek, M. D., Stolz, P., Ryan, J., Carell, T., Leonhardt, H., Bultmann, S.
10.1101/281519 — Posted: 2018-03-13
Neurofilament light as a blood biomarker for neurodegeneration in Down syndrome
Strydom, A., Heslegrave, A., Startin, C. M., Mok, K. Y., Hardy, J., Groet, J., Nizetic, D., The LonDownS consortium, , Zetterberg, H.
10.1101/281139 — Posted: 2018-03-13
A strategy to study intrinsically mixed folded proteins: The structure in solution of ataxin-3
Sicorello, A., Kelly, G., Oregioni, A., Novacek, J., sklenar, v., Pastore, A.
10.1101/275131 — Posted: 2018-03-09
Predicting improved protein conformations with a temporal deep recurrent neural network
Pfeiffenberger, E., Bates, P. A.
10.1101/275008 — Posted: 2018-03-03
Human axial progenitors generate trunk neural crest cells
Frith, T. J. R., Granata, I., Stout, E., Wind, M., Thompson, O., Neumann, K., Stavish, D., Heath, P. R., Hackland, J. O. S., Anastassiadis, K., Gouti, M., Briscoe, J., Wilson, V., Guarracino, M. R., Andrews, P. W., Tsakiridis, A.
10.1101/272591 — Posted: 2018-02-27
Differential expression of an alternative splice variant of IL-12Rβ1 impacts early dissemination in the mouse and associates with disease outcome in both mouse and humans exposed to tuberculosis
Das, M. K., Ray, A. A., Cai, Y., Singhania, A., Graham, C., Liao, M., Fountain, J. J., Pearl, J. E., Pareek, M., Haldar, P., O'Garra, A., Chen, X., Cooper, A. M.
10.1101/271627 — Posted: 2018-02-26
Population Turnover in Remote Oceania Shortly After Initial Settlement
Lipson, M., Skoglund, P., Spriggs, M., Valentin, F., Bedford, S., Shing, R., Buckley, H., Phillip, I., Ward, G. K., Mallick, S., Rohland, N., Broomandkhoshbacht, N., Cheronet, O., Ferry, M., Harper, T. K., Michel, M., Oppenheimer, J., Sirak, K., Stewardson, K., Auckland, K., Hill, A. V. S., Maitland, K., Oppenheimer, S. J., Parks, T., Robson, K., Williams, T. N., Kennett, D. J., Mentzer, A. J., Pinhasi, R., Reich, D.
10.1101/268037 — Posted: 2018-02-19
Spatio-temporal relays control layer specificity of motion-direction sensitive neurons in Drosophila
Apitz, H., Salecker, I.
10.1101/262451 — Posted: 2018-02-10
TCR-MHC Interaction Strength Defines Trafficking and Resident Memory Status of CD8 T cells in the Brain
Sanecka, A., Yoshida, N., Kolawole, E. M., Patel, H., Evavold, B. D., Frickel, E.
10.1101/263152 — Posted: 2018-02-09
Generative adversarial networks uncover epidermal regulators and predict single cell perturbations
Ghahramani, A., Watt, F. M., Luscombe, N. M.
10.1101/262501 — Posted: 2018-02-08
ANIMA: Association Network Integration for Multiscale Analysis
Deffur, A., Wilkinson, R. J., Mayosi, B. M., Mulder, N. M.
10.1101/257642 — Posted: 2018-01-31
Predicting Human Protein Function with Multi-task Deep Neural Networks
Fa, R., Cozzetto, D., Wan, C., Jones, D. T.
10.1101/256420 — Posted: 2018-01-30
Machine learning models in electronic health records can outperform conventional survival models for predicting patient mortality in coronary artery disease
Steele, A. J., Cakiroglu, S. A., Shah, A. D., Denaxas, S. C., Hemingway, H., Luscombe, N. M.
10.1101/256008 — Posted: 2018-01-30
A role for a conserved kinase in the transcriptional control of methionine biosynthesis in Escherichia coli experiencing sustained nitrogen starvation
Switzer, A., Evangelopoulos, D., Figueira, R., de Carvalho, L., Brown, D., Wigneshweraraj, S.
10.1101/254623 — Posted: 2018-01-27
Modelling mitosis with multiple phenotypes: relation to Haeckels biogenetic recapitulation law
Alexandrov, Y.
10.1101/253203 — Posted: 2018-01-24
Characterization of P. falciparum dipeptidyl aminopeptidase 3 specificity identifies different amino acid preferences between peptide-based substrates and inhibitors.
Deu, E., de Vries, L. E., Sanchez, M. I., Groborz, K., Kuppens, L., Poreba, M., Lehmann, C., Yuan, F., Arastu-Kapur, S., Bogyo, M., Drag, M.
10.1101/246124 — Posted: 2018-01-11
The Homeostatic Logic of Reward
Morville, T., Friston, K., Burdakov, D., Siebner, H. R., Hulme, O. J.
10.1101/242974 — Posted: 2018-01-05
PolNet Analysis: a software tool for the quantification of network-level endothelial cell polarity and blood flow during vascular remodelling
Bernabeu, M. O., Jones, M. L., Nash, R. W., Pezzarossa, A., Coveney, P. V., Gerhardt, H., Franco, C. A.
10.1101/237602 — Posted: 2017-12-22
AP-4 mediated ATG9A sorting underlies axonal and autophagosome biogenesis defects in a mouse model of AP-4 deficiency syndrome
Ivankovic, D., Lopez-Domenech, G., Drew, J., Tooze, S. A., Kittler, J. T.
10.1101/235101 — Posted: 2017-12-16
Regionalization of the nervous system requires axial allocation prior to neural lineage commitment
Metzis, V., Steinhauser, S., Pakanavicius, E., Gouti, M., Stamataki, D., Lovell-Badge, R., Luscombe, N. M., Briscoe, J.
10.1101/229203 — Posted: 2017-12-04
Sniff-invariant intensity perception using olfactory bulb coding of inhalation dynamics
Jordan, R., Kollo, M., Schaefer, A. T.
10.1101/226969 — Posted: 2017-11-29
CYRI (FAM49) proteins are local inhibitors of Scar/WAVE induced lamellipodia that bind directly to active Rac1
Fort, L., Batista, J., Thomason, P. A., Spence, H. J., Greaves, J., Martin, K. J., Anderson, K. I., Brown, P., Lilla, S., Neilson, M. P., Tafelmeyer, P., Zanivan, S., Ismail, S., Tomkinson, N. C. O., Chamberlain, L. H., Insall, R. H., Machesky, L. M.
10.1101/164905 — Posted: 2017-11-29
A single cycle influenza virus coated in H7 hemagglutinin provides heterotypic protection and neutralising antibody responses to both glycoproteins.
Powell, T. J., Rijal, P., McEwen-Smith, R. M., Byun, H., Hardwick, M., Schimanski, L. M., Huang, K.-Y. A., Daniels, R. S., Townsend, A. R. M.
10.1101/224550 — Posted: 2017-11-27
A hidden Markov model approach to characterizing the photo-switching behavior of fluorophores
Patel, L., Gustafsson, N., Lin, Y., Ober, R., Henriques, R., Cohen, E.
10.1101/223875 — Posted: 2017-11-22
BCL11A interacts with SOX2 to control the expression of epigenetic regulators in lung squamous cell carcinoma
Lazarus, K. A., Hadi, F., Zambon, E., Bach, K., Santolla, M.-F., Watson, J. K., Correia, L. L., Das, M., Ugur, R., Pensa, S., Becker, L., Campos, L. S., Ladds, G., Liu, P., Evan, G., McCaughan, F., Le Quesne, J., Lee, J.-H., Calado, D., Khaled, W. T.
10.1101/223776 — Posted: 2017-11-22
Active sampling state dynamically enhances olfactory bulb odor representation
Jordan, R., Fukunaga, I., Kollo, M., Schaefer, A. T.
10.1101/222588 — Posted: 2017-11-21
A modular transcriptional signature identifies phenotypic heterogeneity of human tuberculosis infection
Singhania, A., Verma, R., Graham, C. M., Lee, J., Trang, T., Richarsdon, M., Lecine, P., Leissner, P., Berry, M. P. R., Wilkinson, R. J., Kaiser, K., Rodrigue, M., Woltmann, G., Haldar, P., O'Garra, A.
10.1101/216879 — Posted: 2017-11-09
Coherent olfactory bulb gamma oscillations arise from coupling independent columnar oscillators
Peace, S. T., Johnson, B. C., Li, G., Kaiser, M. E., Fukunaga, I., Schaefer, A. T., Molnar, A. C., Cleland, T. A.
10.1101/213827 — Posted: 2017-11-03
Detection of cytosolic Shigella flexneri via a C-terminal triple-arginine motif of GBP1 inhibits actin-based motility
Piro, A., Hernandez, D., Luoma, S., Feeley, E., Finethy, R., Yirga, A., Frickel, E., Lesser, C., Coers, J.
10.1101/212175 — Posted: 2017-11-01
Data Science Issues in Understanding Protein-RNA Interactions
Chakrabarti, A. M., Haberman, N., Praznik, A., Luscombe, N. M., Ule, J.
10.1101/208124 — Posted: 2017-10-25
Plasmodium falciparum dipeptidyl aminopeptidase 3 activity is important for efficient erythrocyte invasion.
Lehmann, C., Tan, M. S. Y., de Vries, L. E., Russo, I., Sanchez, M. I., Goldberg, D. A., Deu, E.
10.1101/202812 — Posted: 2017-10-13
Actin and Src-family kinases regulate nuclear YAP1 and its export
Ege, N., Dowbaj, A. M., Jiang, M., Howell, M., Jenkins, R. P., Sahai, E.
10.1101/201004 — Posted: 2017-10-11
WDR11-mediated Hedgehog signalling defects underlie a new ciliopathy related to Kallmann syndrome
Kim, Y.-J., Osborn, D., Lee, J.-Y., Araki, M., Araki, K., Mohun, T., Kansakoski, J. E. M., Brandstack, N., Kim, H.-T., Miralles, F., Kim, C.-H., Brown, N. A., Kim, H.-G., Martinez-Barbera, J. P., Ataliotis, P., Raivio, T., Layman, L. C., Kim, S.-H.
10.1101/200154 — Posted: 2017-10-10
Identifying developmentally important genes with single-cell RNA-seq from an embryo
Ilsley, G. R., Suyama, R., Noda, T., Satoh, N., Luscombe, N. M.
10.1101/197699 — Posted: 2017-10-03
Integrated analysis sheds light on evolutionary trajectories of young transcription start sites in the human genome
Li, C., Lenhard, B., Luscombe, N. M.
10.1101/192757 — Posted: 2017-09-22
Non-canonical circadian oscillations in Drosophila S2 cells drive gene-expression cycles coupled to metabolic oscillations
Rey, G., Milev, N. B., Valekunja, U. K., Ch, R., Ray, S., Silva Dos Santos, M., Nagy, A. D., Antrobus, R., MacRae, J. I., Reddy, A. B.
10.1101/191338 — Posted: 2017-09-20
A Yeast Global Genetic Screen Reveals that Metformin Induces an Iron Deficiency-Like State
Stynen, B., Abd-Rabbo, D., Kowarzyk, J., Miller-Fleming, L., Ralser, M., Michnick, S.
10.1101/190389 — Posted: 2017-09-18
ATR is a multifunctional regulator of male mouse meiosis
Widger, A., Mahadevaiah, S. K., Lange, J., ElInati, E., Zohren, J., Hirota, T., Stanzione, M., Ojarikre, O., Maciulyte, V., de Rooij, D., Toth, A., Keeney, S., Turner, J. M.
10.1101/172106 — Posted: 2017-09-15
Systematic mapping of the free energy landscapes of a growing immunoglobulin domain identifies a kinetic intermediate associated with co-translational proline isomerization
Waudby, C. A., Karyadi, M.-E., Wlodarski, T., Cassaignau, A. M. E., Chan, S., Schmidt-Engler, J. M., Wentink, A. S., Camilloni, C., Vendruscolo, M., Cabrita, L. D., Christodoulou, J.
10.1101/189050 — Posted: 2017-09-14
Pan-cancer analysis of whole genomes reveals driver rearrangements promoted by LINE-1 retrotransposition in human tumours
Rodriguez-Martin, B., Alvarez, E. G., Baez-Ortega, A., Demeulemeester, J., Ju, Y. S., Zamora, J., Detering, H., Li, Y., Contino, G., Dentro, S. C., Bruzos, A. L., Dueso-Barroso, A., Ardeljan, D., Tojo, M., Roberts, N. D., Blanco, M. G., Edwards, P. A. W., Weischenfeldt, J., Santamarina, M., Puiggros, M., Chong, Z., Chen, K., Lee, E. A., Wala, J. A., Raine, K., Butler, A., Waszak, S. M., Navarro, F. C. P., Schumacher, S. E., Monlong, J., Maura, F., Bolli, N., Bourque, G., Gerstein, M., Park, P. J., Berroukhim, R., Torrents, D., Korbel, J. O., Martincorena, I., Fitzgerald, R. C., Van Loo, P., Ka
10.1101/179705 — Posted: 2017-08-24
Post-transcriptional remodelling is temporally deregulated during motor neurogenesis in human ALS models
Luisier, R., Tyzack, G. E., Hall, C. E., Ule, J., Luscombe, N. M., Patani, R.
10.1101/180372 — Posted: 2017-08-24
3' UTR Remodelling of Axonal Transcripts in Sympathetic Neurons
Andreassi, C., Luisier, R., Crerar, H., Franke, S., Luscombe, N. M., Cuda, G., Gaspari, M., Riccio, A.
10.1101/170100 — Posted: 2017-07-30
Genomic landscape of oxidative DNA damage and repair reveals regioselective protection from mutagenesis
Poetsch, A. R., Boulton, S. J., Luscombe, N.
10.1101/168153 — Posted: 2017-07-25
Probing tissue-scale deformation by in vivo force application reveals a fast tissue softening during early embryogenesis
D'Angelo, A., Dierkes, K., Carolis, C., Salbreux, G., Solon, J.
10.1101/167155 — Posted: 2017-07-21
Allele-specific multi-sample copy number segmentation
Ross, E. M., Haase, K., Van Loo, P., Markowetz, F.
10.1101/166017 — Posted: 2017-07-20
The evolutionary history of 2,658 cancers
Gerstung, M., Jolly, C., Leshchiner, I., Dentro, S. C., Gonzalez, S., Mitchell, T. J., Rubanova, Y., Anur, P., Rosebrock, D., Yu, K., Tarabichi, M., Deshwar, A., Wintersinger, J., Kleinheinz, K., Vazquez-Garcia, I., Haase, K., Sengupta, S., Macintyre, G., Malikic, S., Donmez, N., Livitz, D. G., Cmero, M., Demeulemeester, J., Schumacher, S., Fan, Y., Yao, X., Lee, J., Schlesner, M., Boutros, P. C., Bowtell, D. D., Zhu, H., Getz, G., Imielinski, M., Beroukhim, R., Sahinalp, S. C., Ji, Y., Peifer, M., Markowetz, F., Mustonen, V., Yuan, K., Wang, W., Morris, Q. D., Spellman, P. T., Wedge, D. C., V
10.1101/161562 — Posted: 2017-07-11
Large-Scale Uniform Analysis of Cancer Whole Genomes in Multiple Computing Environments
Yung, C. K., O'Connor, B. D., Yakneen, S., Zhang, J., Ellrott, K., Kleinheinz, K., Miyoshi, N., Raine, K. M., Royo, R., Saksena, G. B., Schlesner, M., Shorser, S. I., Vazquez, M., Weischenfeldt, J., Yuen, D., Butler, A. P., Davis-Dusenbery, B. N., Eils, R., Ferretti, V., Grossman, R. L., Harismendy, O., Kim, Y., Nakagawa, H., Newhouse, S. J., Torrents, D., Stein, L. D., - PCAWG Technical Working Group
10.1101/161638 — Posted: 2017-07-10
Neutral tumor evolution?
Tarabichi, M., Martincorena, I., Gerstung, M., Markowetz, F., Spellman, P. T., Morris, Q. D., Lingjaerde, O. C., Wedge, D. C., Van Loo, P., - PCAWG Evolution and Heterogeneity Working Group
10.1101/158006 — Posted: 2017-06-30
Epidermal Wnt signalling regulates transcriptome heterogeneity and proliferative fate in neighbouring cells
Ghahramani, A., Donati, G., Luscombe, N. M., Watt, F. M.
10.1101/152637 — Posted: 2017-06-20
Activity-Dependent Control Of Inhibitory Interneuron Number In The Mammalian Cortex
Denaxa, M., Neves, G., Rabinowitz, A., Kemlo, S., Liodis, P., Burrone, J., Pachnis, V.
10.1101/134916 — Posted: 2017-05-17
Universal Patterns Of Selection In Cancer And Somatic Tissues
Martincorena, I., Raine, K. M., Gerstung, M., Dawson, K. J., Haase, K., Van Loo, P., Davies, H., Stratton, M. R., Campbell, P. J.
10.1101/132324 — Posted: 2017-04-29
Combinatorial Regulation Of The Balance Between Dynein Microtubule End Accumulation And Initiation Of Directed Motility
Jha, R., Roostalu, J., Trokter, M., Surrey, T.
10.1101/126508 — Posted: 2017-04-11
Rate Of Fixation Of Rare Variants In A Population
Khatri, B. S.
10.1101/123232 — Posted: 2017-04-02
Pairwise Hybrid Incompatibilities Dominate During Allopatric Speciation For A Simple Genotype-Phenotype Map Of Embryonic Spatial Patterning
Khatri, B. S., Goldstein, R.
10.1101/123265 — Posted: 2017-04-02
Evolution and clinical impact of genetic epistasis within EGFR-mutant lung cancers
Blakely, C. M., Watkins, T. B. K., Wu, W., Gini, B., Chabon, J. J., McCoach, C. E., McGranahan, N., Wilson, G. A., Birkbak, N. J., Olivas, V., Rotow, J., Maynard, A., Wang, V., Gubens, M., Banks, K., Lanman, R., Caulin, A., St. John, J., Cordero, A., Giannikopoulos, P., Mack, P., Gandara, D., Husain, H., Doebele, R., Riess, J., Diehn, M., Swanton, C., Bivona, T. G.
10.1101/117291 — Posted: 2017-03-16
Free ISG15 as a dimer generates IL-1β-producing CD8α+ dendritic cells at the site of infection
Napolitano, A., van der Veen, A. G., Bunyan, M., Borg, A., Kjaer, S., Beling, A., Knobeloch, K.-P., Frickel, E.
10.1101/111658 — Posted: 2017-02-27
FAM83G/PAWS1 controls cytoskeletal dynamics and cell migration through association with the SH3 adaptor CD2AP
Sapkota, G. P., Cummins, T. D., Wu, K. Z. L., Bozatzi, P., Dingwell, K. S., Macartney, T. J., Wood, N. T., Varghese, J., Gourlay, R., Campbell, D. G., Prescott, A., Griffis, E., Smith, J. C.
10.1101/106971 — Posted: 2017-02-08
Olig2 and Hes regulatory dynamics during motor neuron differentiation revealed by single cell transcriptomics
Sagner, A., Gaber, Z., Delile, J., Kong, J. H., Rousso, D. L., Pearson, C. A., Weicksel, S. E., Mousavy Gharavy, N., Briscoe, J., Novitch, B.
10.1101/104307 — Posted: 2017-01-30
Genome sequence of a diabetes-prone desert rodent reveals a mutation hotspot around the ParaHox gene cluster
Hargreaves, A. D., Zhou, L., Christensen, J., Marletaz, F., Liu, S., Li, F., Jansen, P. G., Spiga, E., Hansen, M. T., Horn Pedersen, S. V., Biswas, S., Serikawa, K., Fox, B. A., Taylor, W. R., Mulley, J. F., Zhang, G., Heller, R. S., Holland, P. W. H.
10.1101/093401 — Posted: 2016-12-17
Myosin II controls junction fluctuations to guide epithelial tissue ordering
Scott Curran, Charlotte Strandkvist, Jasper Bathmann, Marc de Gennes, Alexandre Kabla, Guillaume Salbreux, Buzz Baum
10.1101/078204 — Posted: 2016-09-29
Protein Kinase C and the stress response pathways are required for kinetochore homeostasis.
Elena Ledesma-Fernández, Eva Herrero, Guđjón Ólafsson, Peter Thorpe
10.1101/078196 — Posted: 2016-09-28
The FACT complex and cell cycle progression are essential to maintain asymmetric transcription factor partitioning during cell division
Eva Herrero, Sonia Stinus, Eleanor Bellows, Peter H Thorpe
10.1101/075135 — Posted: 2016-09-19
Precise label-free quantitative proteomes in high-throughput by microLC and data-independent SWATH acquisition
Jakob Vowinckel, Aleksej Zelezniak, Artur Kibler, Roland Bruderer, Michael Muelleder, Lukas Reiter, Markus Ralser
10.1101/073478 — Posted: 2016-09-05
Mutational signatures associated with tobacco smoking in human cancer
Ludmil B Alexandrov, Young Seok Ju, Kerstin Haase, Peter Van Loo, Inigo Martincorena, Serena Nik-Zainal, Yasushi Totoki, Akihiro Fujimoto, Hidewaki Nakagawa, Tatsuhiro Shibata, Peter J Campbell, Paolo Vineis, David H Phillips, Michael R Stratton
10.1101/051417 — Posted: 2016-05-03
A simple analytical formula to compute the residual Mutual Information between pairs of data vectors
Jens Kleinjung, Anthony C.C. Coolen
10.1101/041988 — Posted: 2016-03-01
GOTHiC, a simple probabilistic model to resolve complex biases and to identify real interactions in Hi-C data
Borbala Mifsud, Inigo Martincorena, Elodie Darbo, Robert Sugar, Stefan Schoenfelder, Peter Fraser, Nicholas Luscombe
10.1101/023317 — Posted: 2015-07-27

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