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Human immunodeficiency virus reverse transcriptase and protease sequence database.

R W Shafer1, D R Jung, B J Betts

  • 1Department of Medicine, Stanford University, Stanford, CA 94305, USA. rshafer@cmgm.stanford.edu

Nucleic Acids Research
|December 11, 1999
PubMed
Summary
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The HIV Sequence Database tracks human immunodeficiency virus (HIV) reverse transcriptase (RT) and protease genetic changes. This resource aids in understanding HIV evolution and drug resistance patterns.

Area of Science:

  • Virology
  • Bioinformatics
  • Genetics

Background:

  • The human immunodeficiency virus (HIV) exhibits significant genetic variation, particularly in its reverse transcriptase (RT) and protease enzymes.
  • Understanding this variation is crucial for developing effective antiretroviral therapies and managing drug resistance.

Purpose of the Study:

  • To present the HIV RT and Protease Sequence Database, a comprehensive online resource for cataloging HIV sequence variation.
  • To link sequence data with clinical information, including antiretroviral drug treatment history.

Main Methods:

  • Compilation of published HIV RT and protease sequences from various sources, including GenBank and journal articles.
  • Curation and annotation of sequences with data from over 230 literature references.

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  • Linking sequences to information on the source sample and patient treatment history.

    • Main Results:

    • The database contains a near-complete collection of published HIV RT and protease sequences.
    • Sequences are annotated with detailed information, enabling users to retrieve specific data sets.
    • Users can view alignments of sequences based on criteria such as treatment history, subtype, and mutations.

    Conclusions:

    • The HIV RT and Protease Sequence Database serves as a valuable resource for researchers studying HIV evolution and drug resistance.
    • The integrated data facilitates analysis of genotype-phenotype correlations and informs therapeutic strategies.