Literature DB >> 17589199

Correlation between a phenotypic assay and three bioinformatic tools for determining HIV co-receptor use.

Eva Poveda1, Verónica Briz, Vanessa Roulet, María Del Mar González, Jean-Louis Faudon, Katharina Skrabal, Vincent Soriano.   

Abstract

The predictive value of three genotypic methods to determine HIV-1 co-receptor usage was assessed in 83 plasma specimens taking as reference the results obtained using a recombinant phenotypic assay (Phenoscript). The best concordance was found for webPSSM, followed by geno2pheno and wetcat (85.9, 71.8 and 70.5%, respectively). Less than 5.1% of phenotypic X4 viruses were missed by genotypic tools. The genotypic prediction of HIV-1 co-receptor usage can thus assist therapeutic decisions for using CCR5 antagonists.

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Year:  2007        PMID： 17589199     DOI： 10.1097/QAD.0b013e32826fb741

Source DB:  PubMed          Journal:  AIDS        ISSN： 0269-9370            Impact factor:   4.177


  11 in total

1.  Extreme genetic divergence is required for coreceptor switching in HIV-1 subtype C.

Authors:  Mia Coetzer; Rebecca Nedellec; Tonie Cilliers; Tammy Meyers; Lynn Morris; Donald E Mosier
Journal:  J Acquir Immune Defic Syndr       Date:  2011-01-01       Impact factor: 3.731

2.  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.

Authors:  Eduardo Seclén; Vicente Soriano; María M González; Sagrario Gómez; Alexander Thielen; Eva Poveda
Journal:  J Clin Microbiol       Date:  2011-07-06       Impact factor: 5.948

Review 3.  Bioinformatic analysis of HIV-1 entry and pathogenesis.

Authors:  Benjamas Aiamkitsumrit; Will Dampier; Gregory Antell; Nina Rivera; Julio Martin-Garcia; Vanessa Pirrone; Michael R Nonnemacher; Brian Wigdahl
Journal:  Curr HIV Res       Date:  2014       Impact factor: 1.581

4.  On the Physicochemical and Structural Modifications Associated with HIV-1 Subtype B Tropism Transition.

Authors:  Susanna L Lamers; Gary B Fogel; Enoch S Liu; Marco Salemi; Michael S McGrath
Journal:  AIDS Res Hum Retroviruses       Date:  2016-06-01       Impact factor: 2.205

5.  Performance of genotypic algorithms for predicting HIV-1 tropism measured against the enhanced-sensitivity Trofile coreceptor tropism assay.

Authors:  Victoria Sánchez; Mar Masiá; Catalina Robledano; Sergio Padilla; José Manuel Ramos; Félix Gutiérrez
Journal:  J Clin Microbiol       Date:  2010-09-22       Impact factor: 5.948

6.  Pace of Coreceptor Tropism Switch in HIV-1-Infected Individuals after Recent Infection.

Authors:  Muhammad Shoaib Arif; James Hunter; Ana Rachel Léda; Jean Paulo Lopes Zukurov; Sadia Samer; Michelle Camargo; Juliana Galinskas; Esper Georges Kallás; Shirley Vasconcelos Komninakis; Luiz Mario Janini; Maria Cecilia Sucupira; Ricardo Sobhie Diaz
Journal:  J Virol       Date:  2017-09-12       Impact factor: 5.103

7.  Identification of dual-tropic HIV-1 using evolved neural networks.

Authors:  Gary B Fogel; Susanna L Lamers; Enoch S Liu; Marco Salemi; Michael S McGrath
Journal:  Biosystems       Date:  2015-09-28       Impact factor: 1.973

8.  Evaluation of eight different bioinformatics tools to predict viral tropism in different human immunodeficiency virus type 1 subtypes.

Authors:  Carolina Garrido; Vanessa Roulet; Natalia Chueca; Eva Poveda; Antonio Aguilera; Katharina Skrabal; Natalia Zahonero; Silvia Carlos; Federico García; Jean Louis Faudon; Vincent Soriano; Carmen de Mendoza
Journal:  J Clin Microbiol       Date:  2008-01-16       Impact factor: 5.948

9.  Optimizing management of treatment-naïve and treatment-experienced HIV+ patients: the role of maraviroc.

Authors:  Eva Poveda; Vincent Soriano
Journal:  HIV AIDS (Auckl)       Date:  2010-03-19

10.  HIV-1 tropism determination using a phenotypic Env recombinant viral assay highlights overestimation of CXCR4-usage by genotypic prediction algorithms for CRF01_AE and CRF02_AG [corrected].

Authors:  Martin Mulinge; Morgane Lemaire; Jean-Yves Servais; Arkadiusz Rybicki; Daniel Struck; Eveline Santos da Silva; Chris Verhofstede; Yolanda Lie; Carole Seguin-Devaux; Jean-Claude Schmit; Danielle Perez Bercoff
Journal:  PLoS One       Date:  2013-05-08       Impact factor: 3.240
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