Computational Prediction of Broadly Neutralizing HIV-1 Antibody Epitopes from Neutralization Activity Data
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Ferguson-2013-Computational Predic.pdf
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Author(s)
Ferguson, Andrew L.
Falkowska, Emilia
Walker, Laura M.
Seaman, Michael S.
Burton, Dennis R.
Chakraborty, Arup K
Date Issued
December 2013
Journal
PLoS ONE
Publisher
Public Library of Science
Citation
Ferguson, Andrew L., Emilia Falkowska, Laura M. Walker, Michael S. Seaman, Dennis R. Burton, and Arup K. Chakraborty. “Computational Prediction of Broadly Neutralizing HIV-1 Antibody Epitopes from Neutralization Activity Data.” Edited by Freddie Salsbury. PLoS ONE 8, no. 12 (December 2, 2013): e80562.
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Final published version
Abstract
Broadly neutralizing monoclonal antibodies effective against the majority of circulating isolates of HIV-1 have been isolated from a small number of infected individuals. Definition of the conformational epitopes on the HIV spike to which these antibodies bind is of great value in defining targets for vaccine and drug design. Drawing on techniques from compressed sensing and information theory, we developed a computational methodology to predict key residues constituting the conformational epitopes on the viral spike from cross-clade neutralization activity data. Our approach does not require the availability of structural information for either the antibody or antigen. Predictions of the conformational epitopes of ten broadly neutralizing HIV-1 antibodies are shown to be in good agreement with new and existing experimental data. Our findings suggest that our approach offers a means to accelerate epitope identification for diverse pathogenic antigens.
MIT Department
Massachusetts Institute of Technology. Institute for Medical Engineering & Science
Massachusetts Institute of Technology. Department of Chemical Engineering
Massachusetts Institute of Technology. Department of Chemistry
Massachusetts Institute of Technology. Department of Physics
Ragon Institute of MGH, MIT and Harvard
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DOI of Published Version
https://doi.org/10.1371/journal.pone.0080562
