High concordance between the position-specific scoring matrix and geno2pheno algorithms for genotypic interpretation of HIV-1 tropism: V3 length as the major cause of disagreement.
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ABSTRACT:
SUBMITTER: Seclen E
PROVIDER: S-EPMC3165608 | biostudies-literature | 2011 Sep
REPOSITORIES: biostudies-literature
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High concordance between the position-specific scoring matrix and geno2pheno algorithms for genotypic interpretation of HIV-1 tropism: V3 length as the major cause of disagreement.
Seclén Eduardo E Soriano Vicente V González María M MM Gómez Sagrario S Thielen Alexander A Poveda Eva E
Journal of clinical microbiology 20110706 9
The agreement between the position-specific scoring matrix (PSSM) and geno2pheno as tools for genotypic interpretation of HIV-1 tropism using 800 clinical specimens was assessed. There was an overall concordance of 88%. Disagreement was found mostly in specimens with short V3 lengths (<35 amino acids). Thus, consideration of V3 lengths should improve the predictability of HIV-1 tropism using genotypic algorithms. ...[more]
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