NEP: web server for epitope prediction based on antibody neutralization of viral strains with diverse sequences.

ABSTRACT: Delineation of the antigenic site, or epitope, recognized by an antibody can provide clues about functional vulnerabilities and resistance mechanisms, and can therefore guide antibody optimization and epitope-based vaccine design. Previously, we developed an algorithm for antibody-epitope prediction based on antibody neutralization of viral strains with diverse sequences and validated the algorithm on a set of broadly neutralizing HIV-1 antibodies. Here we describe the implementation of this algorithm, NEP (Neutralization-based Epitope Prediction), as a web-based server. The users must supply as input: (i) an alignment of antigen sequences of diverse viral strains; (ii) neutralization data for the antibody of interest against the same set of antigen sequences; and (iii) (optional) a struct

SUBMITTER: Chuang GY 

PROVIDER: S-EPMC4086065 | biostudies-literature | 2014 Jul

REPOSITORIES: biostudies-literature