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The HIV Positive Selection Mutation Database


NAR Molecular Biology Database Collection entry number 990
Pan C.1, Kim J., Chen L.2, Wang Q.1, Lee C.1,2
1Molecular Biology Institute, Institute for Genomics and Proteomics, University of California, Los Angeles, CA, USA
2Department of Chemistry and Biochemistry, University of California, Los Angeles, CA, USA

Database Description

The HIV positive selection mutation database is a large-scale database available at http://www.bioinformatics.ucla.edu/HIV/ that provides detailed selection pressure maps of HIV protease and reverse transcriptase, both of which are molecular targets of antiretroviral therapy. This database makes available for the first time a very large HIV sequence dataset (sequences from approximately 50,000 clinical AIDS samples, generously contributed by Specialty Laboratories Inc.), which makes possible high-resolution selection pressure mapping. It provides information about not only the selection pressure on individual sites, but also how selection pressure at one site is affected by mutations on other sites. It also includes datasets from other public databases, namely the Stanford HIV database (1). Comparison between these datasets in the database enables cross-validation with independent datasets and also specific evaluation of the effect of drug treatment.

Acknowledgements

The HIV Positive Selection Mutation Database is supported in part by NIH grants U54 RR021813 and T32-HG002536.

References

1. Rhee, S.Y., Gonzales, M.J., Kantor, R., Betts, B.J., Ravela, J. and Shafer, R.W. (2003) Human immunodeficiency virus reverse transcriptase and protease sequence database. Nucleic Acids Res, 31, 298-303.

Subcategory: Viral genome databases

Go to the abstract in the NAR 2007 Database Issue.
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