{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,9]],"date-time":"2026-03-09T23:46:12Z","timestamp":1773099972368,"version":"3.50.1"},"reference-count":49,"publisher":"Oxford University Press (OUP)","issue":"10","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2017,10,1]]},"DOI":"10.1093\/jac\/dkx232","type":"journal-article","created":{"date-parts":[[2017,7,3]],"date-time":"2017-07-03T03:07:09Z","timestamp":1499051229000},"page":"2823-2830","source":"Crossref","is-referenced-by-count":43,"title":["RNA and DNA Sanger sequencing versus next-generation sequencing for HIV-1 drug resistance testing in treatment-naive patients"],"prefix":"10.1093","volume":"72","author":[{"given":"E K","family":"Alidjinou","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"J","family":"Deldalle","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"C","family":"Hallaert","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"O","family":"Robineau","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"F","family":"Ajana","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"P","family":"Choisy","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"D","family":"Hober","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"L","family":"Bocket","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2017,7,14]]},"reference":[{"key":"key\n\t\t\t\t20171107085839_dkx232-B1","doi-asserted-by":"crossref","first-page":"385","DOI":"10.1056\/NEJMoa013552","article-title":"Antiretroviral-drug resistance among patients recently infected with HIV","volume":"347","year":"2002","journal-title":"N Engl J Med"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B2","doi-asserted-by":"crossref","first-page":"363","DOI":"10.1016\/S1473-3099(11)70032-9","article-title":"Effect of transmitted drug resistance on virological and immunological response to initial combination antiretroviral therapy for HIV (EuroCoord-CHAIN joint project): a European multicohort study","volume":"11","year":"2011","journal-title":"Lancet Infect Dis"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B3","doi-asserted-by":"crossref","first-page":"410","DOI":"10.1001\/jama.2014.8722","article-title":"Antiretroviral treatment of adult HIV infection: 2014 recommendations of the International Antiviral Society-USA Panel","volume":"312","year":"2014","journal-title":"JAMA"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B4","doi-asserted-by":"crossref","first-page":"655","DOI":"10.1093\/cid\/civ963","article-title":"Transmission of HIV drug resistance and the predicted effect on current first-line regimens in Europe","volume":"62","year":"2016","journal-title":"Clin Infect Dis"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B5","doi-asserted-by":"crossref","first-page":"1147","DOI":"10.1097\/00002030-200405210-00008","article-title":"The lymphocyte HIV reservoir in patients on long-term HAART is a memory of virus evolution","volume":"18","year":"2004","journal-title":"AIDS"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B6","doi-asserted-by":"crossref","first-page":"313","DOI":"10.1016\/j.jcv.2006.12.018","article-title":"Genotypic resistance in plasma and peripheral blood lymphocytes in a group of naive HIV-1 patients","volume":"38","year":"2007","journal-title":"J Clin Virol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B7","doi-asserted-by":"crossref","first-page":"1657","DOI":"10.1086\/518287","article-title":"Use of peripheral blood DNA for genotype antiretroviral resistance testing in drug-naive HIV-infected subjects","volume":"44","year":"2007","journal-title":"Clin Infect Dis"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B8","doi-asserted-by":"crossref","first-page":"1783","DOI":"10.1128\/JCM.00056-07","article-title":"Both human immunodeficiency virus cellular DNA sequencing and plasma RNA sequencing are useful for detection of drug resistance mutations in blood samples from antiretroviral-drug-naive patients","volume":"45","year":"2007","journal-title":"J Clin Microbiol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B9","doi-asserted-by":"crossref","first-page":"184","DOI":"10.1159\/000431093","article-title":"Proviral DNA as a target for HIV-1 resistance analysis","volume":"58","year":"2015","journal-title":"Intervirology"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B10","doi-asserted-by":"crossref","first-page":"2248","DOI":"10.1093\/jac\/dkw146","article-title":"Usefulness of an HIV DNA resistance genotypic test in patients who are candidates for a switch to the rilpivirine\/emtricitabine\/tenofovir disoproxil fumarate combination","volume":"71","year":"2016","journal-title":"J Antimicrob Chemother"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B11","doi-asserted-by":"crossref","first-page":"517","DOI":"10.1111\/j.1468-1293.2012.01002.x","article-title":"Comparison of resistance mutation patterns in historical plasma HIV RNA genotypes with those in current proviral HIV DNA genotypes among extensively treated patients with suppressed replication","volume":"13","year":"2012","journal-title":"HIV Med"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B12","doi-asserted-by":"crossref","first-page":"99","DOI":"10.1038\/nature01709","article-title":"Broad antiretroviral defence by human APOBEC3G through lethal editing of nascent reverse transcripts","volume":"424","year":"2003","journal-title":"Nature"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B13","doi-asserted-by":"crossref","first-page":"1975","DOI":"10.1128\/JVI.79.3.1975-1980.2005","article-title":"G\u2013>A hypermutation in protease and reverse transcriptase regions of human immunodeficiency virus type 1 residing in resting CD4+ T cells in vivo","volume":"79","year":"2005","journal-title":"J Virol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B14","doi-asserted-by":"crossref","first-page":"671","DOI":"10.1038\/365671a0","article-title":"Quantitative detection of HIV-1 drug resistance mutations by automated DNA sequencing","volume":"365","year":"1993","journal-title":"Nature"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B15","doi-asserted-by":"crossref","first-page":"406","DOI":"10.1128\/JCM.43.1.406-413.2005","article-title":"Multiple, linked human immunodeficiency virus type 1 drug resistance mutations in treatment-experienced patients are missed by standard genotype analysis","volume":"43","year":"2005","journal-title":"J Clin Microbiol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B16","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","year":"2009","journal-title":"J Infect Dis"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B17","first-page":"662","article-title":"Pre-existing minority drug-resistant HIV-1 variants, adherence, and risk of antiretroviral treatment failure","volume":"201","year":"2010","journal-title":"J Infect Dis"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B18","first-page":"672","article-title":"Low frequency nonnucleoside reverse-transcriptase inhibitor-resistant variants contribute to failure of efavirenz-containing regimens in treatment- experienced patients","volume":"201","year":"2010","journal-title":"J Infect Dis"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B19","doi-asserted-by":"crossref","first-page":"239","DOI":"10.1086\/595703","article-title":"Minority quasispecies of drug-resistant HIV-1 that lead to early therapy failure in treatment-naive and -adherent patients","volume":"48","year":"2009","journal-title":"Clin Infect Dis"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B20","doi-asserted-by":"crossref","first-page":"e158.","DOI":"10.1371\/journal.pmed.0050158","article-title":"Minority HIV-1 drug resistance mutations are present in antiretroviral treatment-na\u00efve populations and associate with reduced treatment efficacy","volume":"5","year":"2008","journal-title":"PLoS Med"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B21","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","year":"2014","journal-title":"AIDS"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B22","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1016\/j.jviromet.2014.04.007","article-title":"An international multicenter study on HIV-1 drug resistance testing by 454 ultra-deep pyrosequencing","volume":"204","year":"2014","journal-title":"J Virol Methods"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B23","doi-asserted-by":"crossref","first-page":"582.","DOI":"10.1186\/1756-0500-5-582","article-title":"Comparison of predicted susceptibility between genotype and virtual phenotype HIV drug resistance interpretation systems among treatment-naive HIV-infected patients in Asia: TASER-M cohort analysis","volume":"5","year":"2012","journal-title":"BMC Res Notes"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B24","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1002\/jmv.21390","article-title":"LTR real-time PCR for HIV-1 DNA quantitation in blood cells for early diagnosis in infants born to seropositive mothers treated in HAART area (ANRS CO 01)","volume":"81","year":"2009","journal-title":"J Med Virol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B25","doi-asserted-by":"crossref","first-page":"400","DOI":"10.1093\/bioinformatics\/16.4.400","article-title":"Detecting hypermutations in viral sequences with an emphasis on G \u2013> A hypermutation","volume":"16","year":"2000","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B26","doi-asserted-by":"crossref","first-page":"2751","DOI":"10.1097\/QAD.0000000000000494","article-title":"Global burden of transmitted HIV drug resistance and HIV-exposure categories: a systematic review and meta-analysis","volume":"28","year":"2014","journal-title":"AIDS"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B27","first-page":"132","article-title":"2015 Update of the drug resistance mutations in HIV-1","volume":"23","year":"2015","journal-title":"Top Antivir Med"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B28","doi-asserted-by":"crossref","first-page":"e4724.","DOI":"10.1371\/journal.pone.0004724","article-title":"Drug resistance mutations for surveillance of transmitted HIV-1 drug-resistance: 2009 update","volume":"4","year":"2009","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B29","doi-asserted-by":"crossref","first-page":"258","DOI":"10.1097\/QAI.0b013e3182618f05","article-title":"Prevalence of transmitted antiretroviral drug resistance differs between acutely and chronically HIV-infected patients","volume":"61","year":"2012","journal-title":"J Acquir Immune Defic Syndr"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B30","doi-asserted-by":"crossref","first-page":"7805","DOI":"10.1128\/JVI.00280-09","article-title":"Analysis of the percentage of human immunodeficiency virus type 1 sequences that are hypermutated and markers of disease progression in a longitudinal cohort, including one individual with a partially defective Vif","volume":"83","year":"2009","journal-title":"J Virol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B31","doi-asserted-by":"crossref","first-page":"9259","DOI":"10.1128\/JVI.00888-06","article-title":"Population level analysis of human immunodeficiency virus type 1 hypermutation and its relationship with APOBEC3G and vif genetic variation","volume":"80","year":"2006","journal-title":"J Virol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B32","doi-asserted-by":"crossref","first-page":"1605","DOI":"10.1128\/JCM.00030-16","article-title":"Deep sequencing of HIV-1 RNA and DNA in newly diagnosed patients with baseline drug resistance showed no indications for hidden resistance and is biased by strong interference of hypermutation","volume":"54","year":"2016","journal-title":"J Clin Microbiol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B33","doi-asserted-by":"crossref","first-page":"1619","DOI":"10.1097\/QAD.0b013e3283560703","article-title":"E138K and M184I mutations in HIV-1 reverse transcriptase coemerge as a result of APOBEC3 editing in the absence of drug exposure","volume":"26","year":"2012","journal-title":"AIDS"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B34","doi-asserted-by":"crossref","first-page":"19752.","DOI":"10.7448\/IAS.17.4.19752","article-title":"Analysis of transmitted HIV-1 drug resistance using 454 ultra-deep-sequencing and the DeepChek(\u00ae)-HIV system","volume":"17","year":"2014","journal-title":"J Int AIDS Soc"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B35","doi-asserted-by":"crossref","first-page":"e10952.","DOI":"10.1371\/journal.pone.0010952","article-title":"Prevalence and clinical significance of HIV drug resistance mutations by ultra-deep sequencing in antiretroviral-naive subjects in the CASTLE study","volume":"5","year":"2010","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B36","doi-asserted-by":"crossref","first-page":"413","DOI":"10.1016\/j.coviro.2011.07.008","article-title":"Ultra-deep sequencing for the analysis of viral populations","volume":"1","year":"2011","journal-title":"Curr Opin Virol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B37","article-title":"High-throughput sequencing of PCR products tagged with universal primers using 454 life sciences systems","year":"2011","journal-title":"Curr Protoc Mol Biol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B38","doi-asserted-by":"crossref","first-page":"107","DOI":"10.1016\/j.jcv.2012.06.018","article-title":"Minority variants associated with resistance to HIV-1 nonnucleoside reverse transcriptase inhibitors during primary infection","volume":"55","year":"2012","journal-title":"J Clin Virol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B39","doi-asserted-by":"crossref","first-page":"566","DOI":"10.1086\/650001","article-title":"Transmission of HIV-1 drug-resistant variants: prevalence and effect on treatment outcome","volume":"50","year":"2010","journal-title":"Clin Infect Dis"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B40","doi-asserted-by":"crossref","first-page":"1417","DOI":"10.1097\/QAD.0b013e3283034953","article-title":"Transmission of HIV-1 minority-resistant variants and response to first-line antiretroviral therapy","volume":"22","year":"2008","journal-title":"AIDS"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B41","doi-asserted-by":"crossref","first-page":"1327","DOI":"10.1001\/jama.2011.375","article-title":"Low-frequency HIV-1 drug resistance mutations and risk of NNRTI-based antiretroviral treatment failure: a systematic review and pooled analysis","volume":"305","year":"2011","journal-title":"JAMA"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B42","doi-asserted-by":"crossref","first-page":"569","DOI":"10.1097\/QAI.0b013e3181ba11e8","article-title":"Low-frequency K103N strengthens the impact of transmitted drug resistance on virologic responses to first-line efavirenz or nevirapine-based highly active antiretroviral therapy","volume":"52","year":"2009","journal-title":"J Acquir Immune Defic Syndr"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B43","doi-asserted-by":"crossref","first-page":"1090","DOI":"10.1093\/jac\/dkt474","article-title":"Sensitive testing of plasma HIV-1 RNA and Sanger sequencing of cellular HIV-1 DNA for the detection of drug resistance prior to starting first-line antiretroviral therapy with etravirine or efavirenz","volume":"69","year":"2014","journal-title":"J Antimicrob Chemother"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B44","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","year":"2015","journal-title":"J Antimicrob Chemother"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B45","doi-asserted-by":"crossref","first-page":"1667","DOI":"10.1093\/cid\/cit125","article-title":"Clinical implications of HIV-1 minority variants","volume":"56","year":"2013","journal-title":"Clin Infect Dis"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B46","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","year":"2015","journal-title":"J Clin Virol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B47","doi-asserted-by":"crossref","first-page":"e36494.","DOI":"10.1371\/journal.pone.0036494","article-title":"Low-cost ultra-wide genotyping using Roche\/454 pyrosequencing for surveillance of HIV drug resistance","volume":"7","year":"2012","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B48","doi-asserted-by":"crossref","first-page":"224","DOI":"10.1016\/j.jcv.2004.06.014","article-title":"Analysis of discrepancies in the interpretation of antiretroviral drug resistance results in HIV-1 infected patients of Basque Country, Spain","volume":"33","year":"2005","journal-title":"J Clin Virol"},{"key":"key\n\t\t\t\t20171107085839_dkx232-B49","doi-asserted-by":"crossref","first-page":"239","DOI":"10.1177\/135965350300800308","article-title":"Comparison of nine resistance interpretation systems for HIV-1 genotyping","volume":"8","year":"2003","journal-title":"Antivir Ther"}],"container-title":["Journal of Antimicrobial Chemotherapy"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/jac\/article-pdf\/72\/10\/2823\/21587592\/dkx232.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,6,25]],"date-time":"2024-06-25T05:21:44Z","timestamp":1719292904000},"score":1,"resource":{"primary":{"URL":"http:\/\/academic.oup.com\/jac\/article\/72\/10\/2823\/3970869"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017,7,14]]},"references-count":49,"journal-issue":{"issue":"10","published-online":{"date-parts":[[2017,7,14]]},"published-print":{"date-parts":[[2017,10,1]]}},"URL":"https:\/\/doi.org\/10.1093\/jac\/dkx232","relation":{},"ISSN":["0305-7453","1460-2091"],"issn-type":[{"value":"0305-7453","type":"print"},{"value":"1460-2091","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2017,10]]},"published":{"date-parts":[[2017,7,14]]}}}