title: 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.
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.
authors: Department of Infectious Diseases, Hospital Carlos III, Madrid, Spain.
authors: Eduardo
authors: E
authors: Seclén
authors: Vicente
authors: V
authors: Soriano
authors: María M
authors: MM
authors: González
authors: Sagrario
authors: S
authors: Gómez
authors: Alexander
authors: A
authors: Thielen
authors: Eva
authors: E
authors: Poveda
mesh_terms: D000465:Algorithms; D005838:Genotype; D015658:HIV Infections / Q000821:virology; D015497:HIV-1 / Q000235:genetics* / Q000472:pathogenicity*; D006801:Humans; D008969:Molecular Sequence Data; D056510:Position-Specific Scoring Matrices; D017422:Sequence Analysis, DNA; D056189:Viral Tropism; D014773:Virology / Q000379:methods*; D054299:env Gene Products, Human Immunodeficiency Virus / Q000145:classification* / Q000235:genetics*
chemical_list: D054299:env Gene Products, Human Immunodeficiency Virus