{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,6]],"date-time":"2026-10-06T18:04:57Z","timestamp":1791309897764,"version":"4.3.1"},"reference-count":29,"publisher":"Wiley","issue":"11","license":[{"start":{"date-parts":[[2017,7,6]],"date-time":"2017-07-06T00:00:00Z","timestamp":1499299200000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/doi.wiley.com\/10.1002\/tdm_license_1.1"},{"start":{"date-parts":[[2017,7,6]],"date-time":"2017-07-06T00:00:00Z","timestamp":1499299200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/onlinelibrary.wiley.com\/termsAndConditions#vor"}],"funder":[{"DOI":"10.13039\/501100006451","name":"Hospices Civils de Lyon","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100006451","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Laboratory quality control program (France)"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["J Med Virol"],"published-print":{"date-parts":[[2017,11]]},"DOI":"10.1002\/jmv.24872","type":"journal-article","created":{"date-parts":[[2017,6,7]],"date-time":"2017-06-07T12:00:45Z","timestamp":1496836845000},"page":"1912-1919","source":"Crossref","is-referenced-by-count":16,"title":["Comparison of HIV-1 drug-resistance genotyping by ultra-deep sequencing and sanger sequencing using clinical samples"],"prefix":"10.1002","volume":"89","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-8614-1071","authenticated-orcid":false,"given":"Mary-Anne","family":"Trabaud","sequence":"first","affiliation":[{"name":"Laboratoire de Virologie, H\u00f4pital de la Croix Rousse; Hospices Civils de Lyon; Lyon F-69004 France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vinca","family":"Icard","sequence":"additional","affiliation":[{"name":"Laboratoire de Virologie, H\u00f4pital de la Croix Rousse; Hospices Civils de Lyon; Lyon F-69004 France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christophe","family":"Rami\u00e8re","sequence":"additional","affiliation":[{"name":"Laboratoire de Virologie, H\u00f4pital de la Croix Rousse; Hospices Civils de Lyon; Lyon F-69004 France"},{"name":"Centre International de Recherche en Infectiologie (CIRI) (Inserm U1111, CNRS UMR 5308); Lyon F-69007 France"},{"name":"Ecole Normale Sup\u00e9rieure de Lyon; Lyon F-69007 France"},{"name":"Universit\u00e9 Claude Bernard Lyon 1; Villeurbanne F-69100 France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jean-Claude","family":"Tardy","sequence":"additional","affiliation":[{"name":"Laboratoire de Virologie, H\u00f4pital de la Croix Rousse; Hospices Civils de Lyon; Lyon F-69004 France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Caroline","family":"Scholtes","sequence":"additional","affiliation":[{"name":"Laboratoire de Virologie, H\u00f4pital de la Croix Rousse; Hospices Civils de Lyon; Lyon F-69004 France"},{"name":"Centre International de Recherche en Infectiologie (CIRI) (Inserm U1111, CNRS UMR 5308); Lyon F-69007 France"},{"name":"Ecole Normale Sup\u00e9rieure de Lyon; Lyon F-69007 France"},{"name":"Universit\u00e9 Claude Bernard Lyon 1; Villeurbanne F-69100 France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Patrice","family":"Andr\u00e9","sequence":"additional","affiliation":[{"name":"Laboratoire de Virologie, H\u00f4pital de la Croix Rousse; Hospices Civils de Lyon; Lyon F-69004 France"},{"name":"Centre International de Recherche en Infectiologie (CIRI) (Inserm U1111, CNRS UMR 5308); Lyon F-69007 France"},{"name":"Ecole Normale Sup\u00e9rieure de Lyon; Lyon F-69007 France"},{"name":"Universit\u00e9 Claude Bernard Lyon 1; Villeurbanne F-69100 France"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2017,7,6]]},"reference":[{"key":"10.1002\/jmv.24872-BIB0001|jmv24872-cit-0001","first-page":"266","article-title":"Antiretroviral drug resistance testing in adult HIV-1 infection: 2008 recommendations of an international AIDS society-USA panel","volume":"16","author":"Hirsch","year":"2008","journal-title":"Top HIV Med"},{"key":"10.1002\/jmv.24872-BIB0002|jmv24872-cit-0002","first-page":"77","article-title":"European recommendations for the clinical use of HIV drug resistance testing: 2011 update","volume":"13","author":"Vandamme","year":"2011","journal-title":"AIDS Rev"},{"key":"10.1002\/jmv.24872-BIB0003|jmv24872-cit-0003","first-page":"1","article-title":"A guide to HIV-1 reverse transcriptase and protease sequencing for drug resistance studies","volume":"2001","author":"Shafer","year":"2001","journal-title":"HIV Seq Compend"},{"key":"10.1002\/jmv.24872-BIB0004|jmv24872-cit-0004","doi-asserted-by":"crossref","first-page":"329","DOI":"10.3389\/fmicb.2012.00329","article-title":"Challenges and opportunities in estimating viral genetic diversity from next-generation sequencing data","volume":"3","author":"Beerenwinkel","year":"2012","journal-title":"Front Microbiol"},{"key":"10.1002\/jmv.24872-BIB0005|jmv24872-cit-0005","doi-asserted-by":"crossref","first-page":"557","DOI":"10.1093\/infdis\/jir821","article-title":"Study of genotypic and phenotypic HIV-1 dynamics of integrase mutations during raltegravir treatment: a refined analysis by ultra-deep 454 pyrosequencing","volume":"205","author":"Armenia","year":"2012","journal-title":"J Infect Dis"},{"key":"10.1002\/jmv.24872-BIB0006|jmv24872-cit-0006","doi-asserted-by":"crossref","first-page":"2090","DOI":"10.1093\/jac\/dkv048","article-title":"Highly frequent HIV-1 minority resistant variants at baseline of the ANRS 139 TRIO trial had a limited impact on virological response","volume":"70","author":"Charpentier","year":"2015","journal-title":"J Antimicrob Chemother"},{"key":"10.1002\/jmv.24872-BIB0007|jmv24872-cit-0007","doi-asserted-by":"crossref","first-page":"e19461","DOI":"10.1371\/journal.pone.0019461","article-title":"Added value of deep sequencing relative to population sequencing in heavily pre-treated HIV-1-infected subjects","volume":"6","author":"Codo\u00f1er","year":"2011","journal-title":"PLoS ONE"},{"key":"10.1002\/jmv.24872-BIB0008|jmv24872-cit-0008","doi-asserted-by":"crossref","first-page":"e6079","DOI":"10.1371\/journal.pone.0006079","article-title":"Low-abundance HIV drug-resistant viral variants in treatment-experienced persons correlate with historical antiretroviral use","volume":"4","author":"Le","year":"2009","journal-title":"PLoS ONE"},{"key":"10.1002\/jmv.24872-BIB0009|jmv24872-cit-0009","doi-asserted-by":"crossref","first-page":"6231","DOI":"10.1128\/JVI.06541-11","article-title":"Deep sequencing reveals minor protease resistance mutations in patients failing a protease inhibitor regimen","volume":"86","author":"Fisher","year":"2012","journal-title":"J Virol"},{"key":"10.1002\/jmv.24872-BIB0010|jmv24872-cit-0010","doi-asserted-by":"crossref","first-page":"930","DOI":"10.1093\/jac\/dku426","article-title":"Low-frequency drug-resistant HIV-1 and risk of virological failure to first-line NNRTI-based ART: a multicohort European case-control study using centralized ultrasensitive 454 pyrosequencing","volume":"70","author":"Cozzi-Lepri","year":"2015","journal-title":"J Antimicrob Chemother"},{"key":"10.1002\/jmv.24872-BIB0011|jmv24872-cit-0011","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1016\/j.virol.2012.01.002","article-title":"Ultra-deep sequencing of HIV-1 reverse transcriptase before start of an NNRTI-based regimen in treatment-naive patients","volume":"426","author":"Messiaen","year":"2012","journal-title":"Virology"},{"key":"10.1002\/jmv.24872-BIB0012|jmv24872-cit-0012","doi-asserted-by":"crossref","first-page":"1315","DOI":"10.1097\/QAD.0000000000000267","article-title":"Comparison of ultra-deep versus Sanger sequencing detection of minority mutations on the HIV-1 drug resistance interpretations after virological failure","volume":"28","author":"Mohamed","year":"2014","journal-title":"AIDS"},{"key":"10.1002\/jmv.24872-BIB0013|jmv24872-cit-0013","doi-asserted-by":"crossref","first-page":"20","DOI":"10.1016\/j.jcv.2014.10.020","article-title":"Minority resistant HIV-1 variants and the response to first-line NNRTI therapy","volume":"62","author":"Nicot","year":"2015","journal-title":"J Clin Virol"},{"key":"10.1002\/jmv.24872-BIB0014|jmv24872-cit-0014","doi-asserted-by":"crossref","first-page":"e36549","DOI":"10.1371\/journal.pone.0036549","article-title":"K65R in subtype C HIV-1 isolates from patients failing on a first-line regimen including d4T or AZT: comparison of Sanger and UDP sequencing data","volume":"7","author":"Recordon-Pinson","year":"2012","journal-title":"PLoS ONE"},{"key":"10.1002\/jmv.24872-BIB0015|jmv24872-cit-0015","doi-asserted-by":"crossref","first-page":"e86771","DOI":"10.1371\/journal.pone.0086771","article-title":"Prevalence and evolution of low frequency HIV drug resistance mutations detected by ultra deep sequencing in patients experiencing first line antiretroviral therapy failure","volume":"9","author":"Vandenhende","year":"2014","journal-title":"PLoS ONE"},{"key":"10.1002\/jmv.24872-BIB0016|jmv24872-cit-0016","doi-asserted-by":"crossref","first-page":"1503","DOI":"10.1093\/jac\/dku557","article-title":"Improved detection of resistance at failure to a tenofovir, emtricitabine and efavirenz regimen by ultradeep sequencing","volume":"70","author":"Todesco","year":"2015","journal-title":"J Antimicrob Chemother"},{"key":"10.1002\/jmv.24872-BIB0017|jmv24872-cit-0017","doi-asserted-by":"crossref","first-page":"21","DOI":"10.1016\/j.jcv.2012.01.010","article-title":"Development and evaluation of an assay for HIV-1 protease and reverse transcriptase drug resistance genotyping of all major group-M subtypes","volume":"54","author":"Aitken","year":"2012","journal-title":"J Clin Virol"},{"key":"10.1002\/jmv.24872-BIB0018|jmv24872-cit-0018","volume-title":"R: a language and environment for statistical computing","year":"2016"},{"key":"10.1002\/jmv.24872-BIB0019|jmv24872-cit-0019","doi-asserted-by":"crossref","first-page":"497","DOI":"10.1126\/science.6200935","article-title":"Detection, isolation, and continuous production of cytopathic retroviruses (HTLV-III) from patients with AIDS and pre-AIDS","volume":"224","author":"Popovic","year":"1984","journal-title":"Science"},{"key":"10.1002\/jmv.24872-BIB0020|jmv24872-cit-0020","doi-asserted-by":"crossref","first-page":"e74249","DOI":"10.1371\/journal.pone.0074249","article-title":"Next-generation sequencing of HIV-1 RNA genomes: determination of error rates and minimizing artificial recombination","volume":"8","author":"Di Giallonardo","year":"2013","journal-title":"PLoS ONE"},{"key":"10.1002\/jmv.24872-BIB0021|jmv24872-cit-0021","doi-asserted-by":"crossref","first-page":"309","DOI":"10.1097\/QAI.0b013e3181bca669","article-title":"Minority variants associated with transmitted and acquired HIV-1 nonnucleoside reverse transcriptase inhibitor resistance: implications for the use of second-generation nonnucleoside reverse transcriptase inhibitors","volume":"52","author":"Varghese","year":"2009","journal-title":"J Acquir Immune Defic Syndr"},{"key":"10.1002\/jmv.24872-BIB0022|jmv24872-cit-0022","doi-asserted-by":"crossref","first-page":"1473","DOI":"10.1097\/00002030-200007070-00033","article-title":"HIV-1 resistance genotyping by sequencing produces inconsistent results for mixed viral populations","volume":"14","author":"Frater","year":"2000","journal-title":"AIDS"},{"key":"10.1002\/jmv.24872-BIB0023|jmv24872-cit-0023","doi-asserted-by":"crossref","first-page":"436","DOI":"10.1128\/JCM.43.1.436-438.2005","article-title":"Evidence for preferential genotyping of a minority human immunodeficiency virus population due to primer-template mismatching during PCR-based amplification","volume":"43","author":"Martinez-Picado","year":"2005","journal-title":"J Clin Microbiol"},{"key":"10.1002\/jmv.24872-BIB0024|jmv24872-cit-0024","doi-asserted-by":"crossref","first-page":"e22741","DOI":"10.1371\/journal.pone.0022741","article-title":"Performance of ultra-deep pyrosequencing in analysis of HIV-1 pol gene variation","volume":"6","author":"Mild","year":"2011","journal-title":"PLoS ONE"},{"key":"10.1002\/jmv.24872-BIB0025|jmv24872-cit-0025","doi-asserted-by":"crossref","first-page":"3265","DOI":"10.1128\/JCM.41.7.3265-3272.2003","article-title":"Evaluation of the editing process in human immunodeficiency virus type 1 genotyping","volume":"41","author":"Huang","year":"2003","journal-title":"J Clin Microbiol"},{"key":"10.1002\/jmv.24872-BIB0026|jmv24872-cit-0026","doi-asserted-by":"crossref","first-page":"401","DOI":"10.1016\/j.jcv.2008.08.021","article-title":"HIV-1 drug resistance genotyping quality assessment: results of the ENVA7 Genotyping Proficiency Programme","volume":"43","author":"Pandit","year":"2008","journal-title":"J Clin Virol"},{"key":"10.1002\/jmv.24872-BIB0027|jmv24872-cit-0027","doi-asserted-by":"crossref","first-page":"1936","DOI":"10.1128\/JCM.06689-11","article-title":"Automating HIV drug resistance genotyping with RECall, a freely accessible sequence analysis tool","volume":"50","author":"Woods","year":"2012","journal-title":"J Clin Microbiol"},{"key":"10.1002\/jmv.24872-BIB0028|jmv24872-cit-0028","doi-asserted-by":"crossref","first-page":"1522","DOI":"10.1128\/JCM.39.4.1522-1529.2001","article-title":"High degree of interlaboratory reproducibility of human immunodeficiency virus type 1 protease and reverse transcriptase sequencing of plasma samples from heavily treated patients","volume":"39","author":"Shafer","year":"2001b","journal-title":"J Clin Microbiol"},{"key":"10.1002\/jmv.24872-BIB0029|jmv24872-cit-0029","doi-asserted-by":"crossref","first-page":"693","DOI":"10.1086\/596736","article-title":"Low-abundance drug-resistant viral variants in chronically HIV-infected, antiretroviral treatment-naive patients significantly impact treatment outcomes","volume":"199","author":"Simen","year":"2009","journal-title":"J Infect Dis"}],"container-title":["Journal of Medical Virology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.wiley.com\/onlinelibrary\/tdm\/v1\/articles\/10.1002%2Fjmv.24872","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/full\/10.1002\/jmv.24872","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,7,29]],"date-time":"2022-07-29T06:44:42Z","timestamp":1659077082000},"score":1,"resource":{"primary":{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/10.1002\/jmv.24872"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017,7,6]]},"references-count":29,"journal-issue":{"issue":"11","published-print":{"date-parts":[[2017,11]]}},"URL":"https:\/\/doi.org\/10.1002\/jmv.24872","archive":["Portico"],"relation":{},"ISSN":["0146-6615"],"issn-type":[{"value":"0146-6615","type":"print"}],"subject":[],"published":{"date-parts":[[2017,7,6]]}}}