Computational prediction of broadly neutralizing HIV-1 antibody epitopes from neutralization activity data.

TitleComputational prediction of broadly neutralizing HIV-1 antibody epitopes from neutralization activity data.
Publication TypeJournal Article
Year of Publication2013
AuthorsFerguson AL, Falkowska E, Walker LM, Seaman MS, Burton DR, Chakraborty AK
JournalPLoS One
Volume8
Issue12
Paginatione80562
Date Published12/02/2013
ISSN1932-6203
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.

DOI10.1371/journal.pone.0080562
Alternate JournalPLoS ONE
PubMed ID24312481
PubMed Central IDPMC3846483
Grant ListUM1 AI100663 / AI / NIAID NIH HHS / United States
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