Abstract
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.
Publication types
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Evaluation Study
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Research Support, Non-U.S. Gov't
MeSH terms
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Algorithms
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Genotype
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HIV Infections / virology
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HIV-1 / genetics*
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HIV-1 / pathogenicity*
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Humans
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Molecular Sequence Data
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Position-Specific Scoring Matrices
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Sequence Analysis, DNA
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Viral Tropism*
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Virology / methods*
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env Gene Products, Human Immunodeficiency Virus / classification*
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env Gene Products, Human Immunodeficiency Virus / genetics*
Substances
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env Gene Products, Human Immunodeficiency Virus