Center-Authored Papers

Filters: Author is Bloom, Jesse D  [Clear All Filters]
Journal Article
Doud MB, Bloom JD.  2016.  Accurate Measurement of the Effects of All Amino-Acid Mutations on Influenza Hemagglutinin.. Viruses. 8(6) Abstract
Balazs AB, Bloom JD, Hong CM, Rao DS, Baltimore D.  2013.  Broad protection against influenza infection by vectored immunoprophylaxis in mice.. Nature biotechnology. 31(7):647-52. Abstract
Dingens AS, Acharya P, Haddox HK, Rawi R, Xu K, Chuang G-Y, Wei H, Zhang B, Mascola JR, Carragher B et al..  2018.  Complete functional mapping of infection- and vaccine-elicited antibodies against the fusion peptide of HIV.. PLoS pathogens. 14(7):e1007159. Abstract
Doud MB, Hensley SE, Bloom JD.  2017.  Complete mapping of viral escape from neutralizing antibodies.. PLoS pathogens. 13(3):e1006271. Abstract
Dingens AS, Haddox HK, Overbaugh J, Bloom JD.  2017.  Comprehensive Mapping of HIV-1 Escape from a Broadly Neutralizing Antibody.. Cell host & microbe. 21(6):777-787.e4. Abstract
Strauch E-M, Bernard SM, La D, Bohn AJ, Lee PS, Anderson CE, Nieusma T, Holstein CA, Garcia NK, Hooper KA et al..  2017.  Computational design of trimeric influenza-neutralizing proteins targeting the hemagglutinin receptor binding site.. Nature biotechnology. Abstract
Xue KS, Hooper KA, Ollodart AR, Dingens AS, Bloom JD.  2016.  Cooperation between distinct viral variants promotes growth of H3N2 influenza in cell culture.. eLife. 5 Abstract
Ashenberg O, Padmakumar J, Doud MB, Bloom JD.  2017.  Deep mutational scanning identifies sites in influenza nucleoprotein that affect viral inhibition by MxA.. PLoS pathogens. 13(3):e1006288. Abstract
Lee JM, Huddleston J, Doud MB, Hooper KA, Wu NC, Bedford T, Bloom JD.  2018.  Deep mutational scanning of hemagglutinin helps predict evolutionary fates of human H3N2 influenza variants.. Proceedings of the National Academy of Sciences of the United States of America. 115(35):E8276-E8265. Abstract
Gong LI, Bloom JD.  2014.  Epistatically Interacting Substitutions Are Enriched during Adaptive Protein Evolution.. PLoS genetics. 10(5):e1004328. Abstract
Butler J, Hooper KA, Petrie S, Lee R, Maurer-Stroh S, Reh L, Guarnaccia T, Baas C, Xue L, Vitesnik S et al..  2014.  Estimating the Fitness Advantage Conferred by Permissive Neuraminidase Mutations in Recent Oseltamivir-Resistant A(H1N1)pdm09 Influenza Viruses.. PLoS pathogens. 10(4):e1004065. Abstract
Haddox HK, Dingens AS, Bloom JD.  2016.  Experimental Estimation of the Effects of All Amino-Acid Mutations to HIV's Envelope Protein on Viral Replication in Cell Culture.. PLoS pathogens. 12(12):e1006114. Abstract
Bloom JD.  2014.  An Experimentally Determined Evolutionary Model Dramatically Improves Phylogenetic Fit.. Molecular biology and evolution. Abstract
Bloom JD.  2014.  An experimentally informed evolutionary model improves phylogenetic fit to divergent lactamase homologs.. Molecular biology and evolution. 31(8):1956-78. Abstract
Russell AB, Trapnell C, Bloom JD.  2018.  Extreme heterogeneity of influenza virus infection in single cells.. eLife. 7 Abstract
Machkovech H, Bloom JD.  2014.  Generation Of a Human T-Cell Receptor Cell Line to Evaluate Influenza Peptide Presentation. Journal of Investigative Medicine. 62:279-279. Abstract
Chao DL, Bloom JD, Kochin BF, Antia R, Longini IM.  2012.  The global spread of drug-resistant influenza.. Journal of the Royal Society, Interface / the Royal Society. 9(69):648-656. Abstract
Doud MB, Lee JM, Bloom JD.  2018.  How single mutations affect viral escape from broad and narrow antibodies to H1 influenza hemagglutinin.. Nature communications. 9(1):1386. Abstract
Bloom JD.  2017.  Identification of positive selection in genes is greatly improved by using experimentally informed site-specific models.. Biology direct. 12(1):1. Abstract
Hooper KA, Crowe JE, Bloom JD.  2015.  Influenza viruses with receptor-binding N1 neuraminidases occur sporadically in several lineages and show no attenuation in cell culture or mice.. Journal of virology. 89(7):3737-45. Abstract
Thyagarajan B, Bloom JD.  2014.  The inherent mutational tolerance and antigenic evolvability of influenza hemagglutinin.. eLife. :e03300. Abstract
Haddox HK, Dingens AS, Hilton SK, Overbaugh J, Bloom JD.  2018.  Mapping mutational effects along the evolutionary landscape of HIV envelope.. eLife. 7 Abstract
Hooper KA, Bloom JD.  2013.  A mutant influenza virus that uses an n1 neuraminidase as the receptor-binding protein.. Journal of virology. 87(23):12531-40. Abstract
Ashenberg O, Gong IL, Bloom JD.  2013.  Mutational effects on stability are largely conserved during protein evolution.. Proceedings of the National Academy of Sciences of the United States of America. 110(52):21071-6. Abstract
Xue KS, Stevens-Ayers T, Campbell AP, Englund JA, Pergam SA, Boeckh MJ, Bloom JD.  2017.  Parallel evolution of influenza across multiple spatiotemporal scales.. eLife. 6 Abstract