CATNAP: a tool to compile, analyze and tally neutralizing antibody panels
CATNAP (Compile, Analyze and Tally NAb Panels) is a new web server at Los Alamos HIV Database, created to respond to the newest advances in HIV neutralizing antibody research. It is a comprehensive platform focusing on neutralizing antibody potencies in conjunction with viral sequences. CATNAP integrates neutralization and sequence data from published studies, and allows users to analyze that data for each HIV Envelope protein sequence position and each antibody. The tool has multiple data retrieval and analysis options. As input, the user can pick specific antibodies and viruses, choose a panel from a published study, or supply their own data. The output superimposes neutralization panel data, virus epidemiological data, and viral protein sequence alignments on one page, and provides further information and analyses. The user can highlight alignment positions, or select antibody contact residues and view position-specific information from the HIV databases. The tool calculates tallies of amino acids and N-linked glycosylation motifs, counts of antibody-sensitive and -resistant viruses in conjunction with each amino acid or N-glycosylation motif, and performs Fisher's exact test to detect potential positive or negative amino acid associations for the selected antibody. Website name: CATNAP (Compile, Analyze and Tally NAb Panels). Website address: http://hiv.lanl.gov/catnap.
Published by Oxford University Press on behalf of Nucleic Acids Research 2015. This work is written by a US Government employee and is in the public domain in the US. Received March 13, 2015; revision received April 13, 2015; accepted April 15, 2015. First published online: June 4, 2015. National Institutes of Health (NIH) [contract AGRAAI1200700101000 HIV/SIV, Database and Analysis Unit (B.T.K., H.Y., J.M., B.F., K.Y.) and grant HIVRAD P01 AI100148 (P.J.B., A.P.W.)]; Bill & Melinda Gates Foundation [Collaboration for AIDS Vaccine Discovery, grant 1032144 (B.T.K., H.Y.) and grant 1040753 (P.J.B., A.P.W.)]. Funding for open access charge: NIH contract AGRAAI1200700101000 through Los Alamos National Laboratory. Conflict of interest statement. None declared.
Published - Nucl._Acids_Res.-2015-Yoon-W213-9.pdf