Comparison of HIV-1 genotypic resistance test interpretation systems in predicting virological outcomes over time.
<h4>Background</h4>Several decision support systems have been developed to interpret HIV-1 drug resistance genotyping results. This study compares the ability of the most commonly used systems (ANRS, Rega, and Stanford's HIVdb) to predict virological outcome at 12, 24, and 48 weeks....
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oai:doaj.org-article:81137cf7785e421abdee0fc6262d278e2021-12-02T20:20:12ZComparison of HIV-1 genotypic resistance test interpretation systems in predicting virological outcomes over time.1932-620310.1371/journal.pone.0011505https://doaj.org/article/81137cf7785e421abdee0fc6262d278e2010-07-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/20634893/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>Several decision support systems have been developed to interpret HIV-1 drug resistance genotyping results. This study compares the ability of the most commonly used systems (ANRS, Rega, and Stanford's HIVdb) to predict virological outcome at 12, 24, and 48 weeks.<h4>Methodology/principal findings</h4>Included were 3763 treatment-change episodes (TCEs) for which a HIV-1 genotype was available at the time of changing treatment with at least one follow-up viral load measurement. Genotypic susceptibility scores for the active regimens were calculated using scores defined by each interpretation system. Using logistic regression, we determined the association between the genotypic susceptibility score and proportion of TCEs having an undetectable viral load (<50 copies/ml) at 12 (8-16) weeks (2152 TCEs), 24 (16-32) weeks (2570 TCEs), and 48 (44-52) weeks (1083 TCEs). The Area under the ROC curve was calculated using a 10-fold cross-validation to compare the different interpretation systems regarding the sensitivity and specificity for predicting undetectable viral load. The mean genotypic susceptibility score of the systems was slightly smaller for HIVdb, with 1.92+/-1.17, compared to Rega and ANRS, with 2.22+/-1.09 and 2.23+/-1.05, respectively. However, similar odds ratio's were found for the association between each-unit increase in genotypic susceptibility score and undetectable viral load at week 12; 1.6 [95% confidence interval 1.5-1.7] for HIVdb, 1.7 [1.5-1.8] for ANRS, and 1.7 [1.9-1.6] for Rega. Odds ratio's increased over time, but remained comparable (odds ratio's ranging between 1.9-2.1 at 24 weeks and 1.9-2.2 at 48 weeks). The Area under the curve of the ROC did not differ between the systems at all time points; p = 0.60 at week 12, p = 0.71 at week 24, and p = 0.97 at week 48.<h4>Conclusions/significance</h4>Three commonly used HIV drug resistance interpretation systems ANRS, Rega and HIVdb predict virological response at 12, 24, and 48 weeks, after change of treatment to the same extent.Dineke FrentzCharles A B BoucherMatthias AsselAndrea De LucaMassimiliano FabbianiFrancesca IncardonaPieter LibinNino MancaViktor MüllerBreanndán O NualláinRoger ParedesMattia ProsperiEugenia Quiros-RoldanLidia RuizPeter M A SlootCarlo TortiAnne-Mieke VandammeAnne-Mieke VandammeKristel Van LaethemMaurizio ZazziDavid A M C van de VijverPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 5, Iss 7, p e11505 (2010) |
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Medicine R Science Q |
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Medicine R Science Q Dineke Frentz Charles A B Boucher Matthias Assel Andrea De Luca Massimiliano Fabbiani Francesca Incardona Pieter Libin Nino Manca Viktor Müller Breanndán O Nualláin Roger Paredes Mattia Prosperi Eugenia Quiros-Roldan Lidia Ruiz Peter M A Sloot Carlo Torti Anne-Mieke Vandamme Anne-Mieke Vandamme Kristel Van Laethem Maurizio Zazzi David A M C van de Vijver Comparison of HIV-1 genotypic resistance test interpretation systems in predicting virological outcomes over time. |
| description |
<h4>Background</h4>Several decision support systems have been developed to interpret HIV-1 drug resistance genotyping results. This study compares the ability of the most commonly used systems (ANRS, Rega, and Stanford's HIVdb) to predict virological outcome at 12, 24, and 48 weeks.<h4>Methodology/principal findings</h4>Included were 3763 treatment-change episodes (TCEs) for which a HIV-1 genotype was available at the time of changing treatment with at least one follow-up viral load measurement. Genotypic susceptibility scores for the active regimens were calculated using scores defined by each interpretation system. Using logistic regression, we determined the association between the genotypic susceptibility score and proportion of TCEs having an undetectable viral load (<50 copies/ml) at 12 (8-16) weeks (2152 TCEs), 24 (16-32) weeks (2570 TCEs), and 48 (44-52) weeks (1083 TCEs). The Area under the ROC curve was calculated using a 10-fold cross-validation to compare the different interpretation systems regarding the sensitivity and specificity for predicting undetectable viral load. The mean genotypic susceptibility score of the systems was slightly smaller for HIVdb, with 1.92+/-1.17, compared to Rega and ANRS, with 2.22+/-1.09 and 2.23+/-1.05, respectively. However, similar odds ratio's were found for the association between each-unit increase in genotypic susceptibility score and undetectable viral load at week 12; 1.6 [95% confidence interval 1.5-1.7] for HIVdb, 1.7 [1.5-1.8] for ANRS, and 1.7 [1.9-1.6] for Rega. Odds ratio's increased over time, but remained comparable (odds ratio's ranging between 1.9-2.1 at 24 weeks and 1.9-2.2 at 48 weeks). The Area under the curve of the ROC did not differ between the systems at all time points; p = 0.60 at week 12, p = 0.71 at week 24, and p = 0.97 at week 48.<h4>Conclusions/significance</h4>Three commonly used HIV drug resistance interpretation systems ANRS, Rega and HIVdb predict virological response at 12, 24, and 48 weeks, after change of treatment to the same extent. |
| format |
article |
| author |
Dineke Frentz Charles A B Boucher Matthias Assel Andrea De Luca Massimiliano Fabbiani Francesca Incardona Pieter Libin Nino Manca Viktor Müller Breanndán O Nualláin Roger Paredes Mattia Prosperi Eugenia Quiros-Roldan Lidia Ruiz Peter M A Sloot Carlo Torti Anne-Mieke Vandamme Anne-Mieke Vandamme Kristel Van Laethem Maurizio Zazzi David A M C van de Vijver |
| author_facet |
Dineke Frentz Charles A B Boucher Matthias Assel Andrea De Luca Massimiliano Fabbiani Francesca Incardona Pieter Libin Nino Manca Viktor Müller Breanndán O Nualláin Roger Paredes Mattia Prosperi Eugenia Quiros-Roldan Lidia Ruiz Peter M A Sloot Carlo Torti Anne-Mieke Vandamme Anne-Mieke Vandamme Kristel Van Laethem Maurizio Zazzi David A M C van de Vijver |
| author_sort |
Dineke Frentz |
| title |
Comparison of HIV-1 genotypic resistance test interpretation systems in predicting virological outcomes over time. |
| title_short |
Comparison of HIV-1 genotypic resistance test interpretation systems in predicting virological outcomes over time. |
| title_full |
Comparison of HIV-1 genotypic resistance test interpretation systems in predicting virological outcomes over time. |
| title_fullStr |
Comparison of HIV-1 genotypic resistance test interpretation systems in predicting virological outcomes over time. |
| title_full_unstemmed |
Comparison of HIV-1 genotypic resistance test interpretation systems in predicting virological outcomes over time. |
| title_sort |
comparison of hiv-1 genotypic resistance test interpretation systems in predicting virological outcomes over time. |
| publisher |
Public Library of Science (PLoS) |
| publishDate |
2010 |
| url |
https://doaj.org/article/81137cf7785e421abdee0fc6262d278e |
| work_keys_str_mv |
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