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 | Zendy

Eduardo Seclén | Zendy; Vincent Soriano | Zendy; María M. González | Zendy; Sagrario Gómez | Zendy; Alexander Thielen | Zendy; Eva Poveda | Zendy

Open Access

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

Author(s) -

Eduardo Seclén,

Vincent Soriano,

María M. González,

Sagrario Gómez,

Alexander Thielen,

Eva Poveda

Publication year - 2011

Publication title -

journal of clinical microbiology

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 2.349

H-Index - 255

eISSN - 1070-633X

pISSN - 0095-1137

DOI - 10.1128/jcm.00908-11

Subject(s) - tropism , concordance , biology , genotype , interpretation (philosophy) , tissue tropism , algorithm , human immunodeficiency virus (hiv) , position (finance) , predictability , computational biology , virology , bioinformatics , combinatorics , genetics , mathematics , computer science , statistics , virus , gene , programming language , finance , economics

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.

The content you want is available to Zendy users.

Already have an account? Click here to sign in.

Having issues? You can contact us here

Accelerating Research