2 CATNAP

The CATNAP database is a web server hosted by Los Alamos National Laboratory (Yoon et al. 2015). The database integrates antibody neutralization and HIV-1 sequence data from published studies. Neutralization is measured in terms of half-maximal inhibitory concentration (IC\(_{50}\)) and 80% inhibitory concentration (IC\(_{80}\)). These measures of neutralization against HIV envelope pseudoviruses are available for many broadly neutralizing antibodies (bnAbs) and for some combination bnAbs. Also available on each pseudovirus are amino acid (AA) sequence features for the gp160 protein. These are detailed in Section 7.

During each build of the slapnap container, all raw data are downloaded from CATNAP. At run time, pseudovirus features are derived and measured sensitivity outcomes are derived from the raw CATNAP database files and merged into a .csv file that is used in subsequent predictive analyses.

The CATNAP data are updated periodically. The data are downloaded into the slapnap container at every build. The most recent build occurred on July 23, 2021.

References

Yoon, Hyejin, Jennifer Macke, Anthony P West Jr, Brian Foley, Pamela J Bjorkman, Bette Korber, and Karina Yusim. 2015. “CATNAP: A Tool to Compile, Analyze and Tally Neutralizing Antibody Panels.” Nucleic Acids Research 43 (W1): W213–W219. https://doi.org/10.1093/nar/gkv404.