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AIDS Res Hum Retroviruses. 2003 Feb;19(2):145-9.

A new perspective on V3 phenotype prediction.

Author information

1
University of California, San Diego, La Jolla, California 92093, USA. satish@biomail.ucsd.edu

Erratum in

  • AIDS Res Hum Retroviruses. 2003 Apr;19(4):347.

Abstract

The particular coreceptor used by a strain of HIV-1 to enter a host cell is highly indicative of its pathology. HIV-1 coreceptor usage is primarily determined by the amino add sequences of the V3 loop region of the viral envelope glycoprotein. The canonical approach to sequence-based prediction of coreceptor usage was derived via statistical analysis of a less reliable and significantly smaller data set than is presently available. We aimed to produce a superior phenotypic classifier by applying modern machine learning (ML) techniques to the current database of V3 loop sequences with known phenotype. The trained classifiers along with the sequence data are available for public use at the supplementary website: http://genomiac2.ucsd.edu:8080/wetcat/v3.html and http://www.cs.waikato.ac.nz/ml/weka[corrected].

PMID:
12643277
DOI:
10.1089/088922203762688658
[Indexed for MEDLINE]

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