Abstract #302206

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JSM 2003 Abstract #302206
Activity Number: 371
Type: Contributed
Date/Time: Wednesday, August 6, 2003 : 10:30 AM to 12:20 PM
Sponsor: Biometrics Section
Abstract - #302206
Title: Tree-Structured Vector Quantization of HIV Amino Acid Data
Author(s): Adam B. Olshen*+ and Pamela Cosman and Peter J. Bickel and Allen Rodrigo and Richard A. Olshen
Companies: Memorial Sloan-Kettering Cancer Center and University of California, San Diego and University of California, Berkeley and University of Auckland and Stanford University
Address: 207 West 106th St., New York, NY, 10025-3620,
Keywords: V3 loop ; tree-structured vector quantization ; HIV
Abstract:

We present a technique for clustering sequences such as nucleic or amino acids. Our application is to defining viral subtypes of HIV on the basis of similarities of amino acids in the V3 loop region of the envelope (env) gene. The techniques introduced involve adaptation of tree-structured vector quantization (TSVQ), that is, rooted, binary tree-structured clustering, combined with the gap statistic. What we propose could be applied with virtually no change to other HIV genes as well as to other data, not necessarily of viral origin.

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