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Viral surface geometry shapes influenza and coronavirus spike evolution through antibody pressure JOURNAL ARTICLE published 13 December 2021 in PLOS Computational Biology Research funded by National Institutes of Health (2U19AI057229-16) |
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An enriched network motif family regulates multistep cell fate transitions with restricted reversibility JOURNAL ARTICLE published 7 March 2019 in PLOS Computational Biology Research funded by National Natural Science Foundation of China (11771098) | Natural Science Foundation of Shanghai (17ZR1444500) |
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Deep inference of seabird dives from GPS-only records: Performance and generalization properties JOURNAL ARTICLE published 11 March 2022 in PLOS Computational Biology Research funded by Horizon 2020 (No. 817578) | Institut de Recherche pour le Dévelopement (JEAI Tabasco) | LEFE program (project IA-OAC) | Centre National d’Etudes Spatiales (SWOT-DIEGO) | Agence Nationale de la Recherche (Melody) | Agence Nationale de la Recherche (OceaniX) | Agence Nationale de la Recherche (Topineme) | LMI (DISCOH) |
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Leveraging genetic interactions for adverse drug-drug interaction prediction JOURNAL ARTICLE published 24 May 2019 in PLOS Computational Biology Research funded by National Institute of General Medical Sciences (R01 GM124559) | National Institute of General Medical Sciences (R01 GM125639) | National Institute of Diabetes and Digestive and Kidney Diseases (R01 DK115398) | National Science Foundation (DBI-1661380) |
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A Bayesian framework for the analysis of systems biology models of the brain JOURNAL ARTICLE published 26 April 2019 in PLOS Computational Biology Research funded by Wellcome Trust (104580/Z/14/Z) | Wellcome Trust (209409/Z/17/Z) |
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Active degradation of MarA controls coordination of its downstream targets JOURNAL ARTICLE published 27 December 2018 in PLOS Computational Biology Research funded by National Science Foundation (1347635) | National Institutes of Health (US) (R01AI102922) |
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Interspike intervals within retinal spike bursts combinatorially encode multiple stimulus features JOURNAL ARTICLE published 6 November 2020 in PLOS Computational Biology Research funded by Japan Society for the Promotion of Science (19300116) |
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HiCImpute: A Bayesian hierarchical model for identifying structural zeros and enhancing single cell Hi-C data JOURNAL ARTICLE published 13 June 2022 in PLOS Computational Biology Research funded by National Institute of General Medical Sciences (R01GM114142) |
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Modeling the efficiency of filovirus entry into cells in vitro: Effects of SNP mutations in the receptor molecule JOURNAL ARTICLE published 28 September 2020 in PLOS Computational Biology |
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Modification of Gene Duplicability during the Evolution of Protein Interaction Network JOURNAL ARTICLE published 7 April 2011 in PLoS Computational Biology |
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Free energy landscape of RNA binding dynamics in start codon recognition by eukaryotic ribosomal pre-initiation complex JOURNAL ARTICLE published 14 June 2021 in PLOS Computational Biology Research funded by Japan Society for the Promotion of Science (KAKENHI JP18KK0388) | National Research Foundation of Korea (Japan-Korea Basic Scientific Cooperation Program) | Japan Society for the Promotion of Science (Japan-Korea Basic Scientific Cooperation Program) | National Institutes of Health (K-INBRE program Pilot Grant P20 GM103418) | National Institutes of Health (R15 grant GM125671) | National Science Foundation (Research Grant 1412250) | Japan Society for the Promotion of Science (KAKENHI JP18K19963) |
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Prediction of gene regulatory enhancers across species reveals evolutionarily conserved sequence properties JOURNAL ARTICLE published 4 October 2018 in PLOS Computational Biology Research funded by National Institute of General Medical Sciences (R01GM115836) | National Institute of General Medical Sciences (R35GM127087) |
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Noise-resistant developmental reproducibility in vertebrate somite formation JOURNAL ARTICLE published 4 February 2019 in PLOS Computational Biology Research funded by Japan Society for the Promotion of Science (16K16147) |
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Characterization and clustering of kinase isoform expression in metastatic melanoma JOURNAL ARTICLE published 13 May 2022 in PLOS Computational Biology Research funded by National Human Genome Research Institute (1ZIAHG200323) |
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Paired fruit flies synchronize behavior: Uncovering social interactions in Drosophila melanogaster JOURNAL ARTICLE published 6 October 2020 in PLOS Computational Biology |
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Genetic buffering and potentiation in metabolism JOURNAL ARTICLE published 14 September 2020 in PLOS Computational Biology Research funded by Consejo Superior de Investigaciones Científicas (FIS2016-78781-R) | Consejo Superior de Investigaciones Científicas (PRX18/00439) |
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Computation of condition-dependent proteome allocation reveals variability in the macro and micro nutrient requirements for growth JOURNAL ARTICLE published 23 June 2021 in PLOS Computational Biology Research funded by Novo Nordisk Fonden (NNF10CC1016517) | National Institute of General Medical Sciences (NIH R01 GM057089) | National Institute of General Medical Sciences (NIH 1-U01-AI124316) | Office of Science (DE-AC02-05CH11231) |
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Global Analysis of Small Molecule Binding to Related Protein Targets JOURNAL ARTICLE published 12 January 2012 in PLoS Computational Biology |
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Physicochemical and metabolic constraints for thermodynamics-based stoichiometric modelling under mesophilic growth conditions JOURNAL ARTICLE published 25 January 2021 in PLOS Computational Biology Research funded by Biotechnology and Biological Sciences Research Council (BB/L013940/1) | Engineering and Physical Sciences Research Council (BB/L013940/1) | University of Nottingham’s School of Life Sciences (PhD studentship) |
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Modeling the role of gap junctions between excitatory neurons in the developing visual cortex JOURNAL ARTICLE published 6 July 2021 in PLOS Computational Biology Research funded by National Science Foundation (DMS-1703761) |