Comparison of genotypic and virtual phenotypic drug resistance interpretations with laboratory-based phenotypes among CRF01_AE and subtype B HIV-infected individuals

© 2016 Wiley Periodicals, Inc. HIV drug resistance assessments and interpretations can be obtained from genotyping (GT), virtual phenotyping (VP) and laboratory-based phenotyping (PT). We compared resistance calls obtained from GT and VP with those from PT (GT-PT and VP-PT) among CRF01_AE and subtyp...

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Main Authors: Jiamsakul A., Chaiwarith R., Durier N., Sirivichayakul S., Kiertiburanakul S., Van Den Eede P., Ditangco R., Kamarulzaman A., Li P., Ratanasuwan W., Sirisanthana T., Lee M., Kumarasamy N., Saghayam S., Pujari S., Joshi K., Merati T., Yuliana F., Lee C., Sim B., Ong L., Mustafa M., Nordin N., Bantique R., Chen Y., Lin Y., Phanuphak P., Sungkanuparph S., Chumla L., Sanmeema N., Praparattanapan J., Kantipong P., Kambua P., Sriondee R., Kantor R., Sohn A., Singtoroj T., Cooper D., Law M., Boettiger D.
Format: Journal
Published: 2017
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spelling th-cmuir.6653943832-421332017-09-28T04:25:26Z Comparison of genotypic and virtual phenotypic drug resistance interpretations with laboratory-based phenotypes among CRF01_AE and subtype B HIV-infected individuals Jiamsakul A. Chaiwarith R. Durier N. Sirivichayakul S. Kiertiburanakul S. Van Den Eede P. Ditangco R. Kamarulzaman A. Li P. Ratanasuwan W. Sirisanthana T. Li P. Lee M. Kumarasamy N. Saghayam S. Pujari S. Joshi K. Merati T. Yuliana F. Lee C. Sim B. Kamarulzaman A. Ong L. Mustafa M. Nordin N. Ditangco R. Bantique R. Chen Y. Lin Y. Phanuphak P. Sirivichayakul S. Sungkanuparph S. Kiertiburanakul S. Chumla L. Sanmeema N. Sirisanthana T. Praparattanapan J. Kantipong P. Kambua P. Ratanasuwan W. Sriondee R. Kantor R. Sohn A. Durier N. Singtoroj T. Cooper D. Law M. Boettiger D. © 2016 Wiley Periodicals, Inc. HIV drug resistance assessments and interpretations can be obtained from genotyping (GT), virtual phenotyping (VP) and laboratory-based phenotyping (PT). We compared resistance calls obtained from GT and VP with those from PT (GT-PT and VP-PT) among CRF01_AE and subtype B HIV-1 infected patients. GT predictions were obtained from the Stanford HIV database. VP and PT were obtained from Janssen Diagnostics BVBA's vircoType TM HIV-1 and Antivirogram®, respectively. With PT assumed as the "gold standard," the area under the curve (AUC) and the Bland-Altman plot were used to assess the level of agreement in resistance interpretations. A total of 80 CRF01_AE samples from Asia and 100 subtype B from Janssen Diagnostics BVBA's database were analysed. CRF01_AE showed discordances ranging from 3 to 27 samples for GT-PT and 1 to 20 samples for VP-PT. The GT-PT and VP-PT AUCs were 0.76-0.97 and 0.81-0.99, respectively. Subtype B showed 3-61 discordances for GT-PT and 2-75 discordances for VP-PT. The AUCs ranged from 0.55 to 0.95 for GT-PT and 0.55 to 0.97 for VP-PT. Didanosine had the highest proportion of discordances and/or AUC in all comparisons. The patient with the largest didanosine FC difference in each subtype harboured Q151M mutation. Overall, GT and VP predictions for CRF01_AE performed significantly better than subtype B for three NRTIs. Although discrepancies exist, GT and VP resistance interpretations in HIV-1 CRF01_AE strains were highly robust in comparison with the gold-standard PT. © 2015 Wiley Periodicals, Inc. 2017-09-28T04:25:26Z 2017-09-28T04:25:26Z 2016-02-01 Journal 01466615 2-s2.0-84954399287 10.1002/jmv.24320 https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84954399287&origin=inward http://cmuir.cmu.ac.th/jspui/handle/6653943832/42133
institution Chiang Mai University
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description © 2016 Wiley Periodicals, Inc. HIV drug resistance assessments and interpretations can be obtained from genotyping (GT), virtual phenotyping (VP) and laboratory-based phenotyping (PT). We compared resistance calls obtained from GT and VP with those from PT (GT-PT and VP-PT) among CRF01_AE and subtype B HIV-1 infected patients. GT predictions were obtained from the Stanford HIV database. VP and PT were obtained from Janssen Diagnostics BVBA's vircoType TM HIV-1 and Antivirogram®, respectively. With PT assumed as the "gold standard," the area under the curve (AUC) and the Bland-Altman plot were used to assess the level of agreement in resistance interpretations. A total of 80 CRF01_AE samples from Asia and 100 subtype B from Janssen Diagnostics BVBA's database were analysed. CRF01_AE showed discordances ranging from 3 to 27 samples for GT-PT and 1 to 20 samples for VP-PT. The GT-PT and VP-PT AUCs were 0.76-0.97 and 0.81-0.99, respectively. Subtype B showed 3-61 discordances for GT-PT and 2-75 discordances for VP-PT. The AUCs ranged from 0.55 to 0.95 for GT-PT and 0.55 to 0.97 for VP-PT. Didanosine had the highest proportion of discordances and/or AUC in all comparisons. The patient with the largest didanosine FC difference in each subtype harboured Q151M mutation. Overall, GT and VP predictions for CRF01_AE performed significantly better than subtype B for three NRTIs. Although discrepancies exist, GT and VP resistance interpretations in HIV-1 CRF01_AE strains were highly robust in comparison with the gold-standard PT. © 2015 Wiley Periodicals, Inc.
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author Jiamsakul A.
Chaiwarith R.
Durier N.
Sirivichayakul S.
Kiertiburanakul S.
Van Den Eede P.
Ditangco R.
Kamarulzaman A.
Li P.
Ratanasuwan W.
Sirisanthana T.
Li P.
Lee M.
Kumarasamy N.
Saghayam S.
Pujari S.
Joshi K.
Merati T.
Yuliana F.
Lee C.
Sim B.
Kamarulzaman A.
Ong L.
Mustafa M.
Nordin N.
Ditangco R.
Bantique R.
Chen Y.
Lin Y.
Phanuphak P.
Sirivichayakul S.
Sungkanuparph S.
Kiertiburanakul S.
Chumla L.
Sanmeema N.
Sirisanthana T.
Praparattanapan J.
Kantipong P.
Kambua P.
Ratanasuwan W.
Sriondee R.
Kantor R.
Sohn A.
Durier N.
Singtoroj T.
Cooper D.
Law M.
Boettiger D.
spellingShingle Jiamsakul A.
Chaiwarith R.
Durier N.
Sirivichayakul S.
Kiertiburanakul S.
Van Den Eede P.
Ditangco R.
Kamarulzaman A.
Li P.
Ratanasuwan W.
Sirisanthana T.
Li P.
Lee M.
Kumarasamy N.
Saghayam S.
Pujari S.
Joshi K.
Merati T.
Yuliana F.
Lee C.
Sim B.
Kamarulzaman A.
Ong L.
Mustafa M.
Nordin N.
Ditangco R.
Bantique R.
Chen Y.
Lin Y.
Phanuphak P.
Sirivichayakul S.
Sungkanuparph S.
Kiertiburanakul S.
Chumla L.
Sanmeema N.
Sirisanthana T.
Praparattanapan J.
Kantipong P.
Kambua P.
Ratanasuwan W.
Sriondee R.
Kantor R.
Sohn A.
Durier N.
Singtoroj T.
Cooper D.
Law M.
Boettiger D.
Comparison of genotypic and virtual phenotypic drug resistance interpretations with laboratory-based phenotypes among CRF01_AE and subtype B HIV-infected individuals
author_facet Jiamsakul A.
Chaiwarith R.
Durier N.
Sirivichayakul S.
Kiertiburanakul S.
Van Den Eede P.
Ditangco R.
Kamarulzaman A.
Li P.
Ratanasuwan W.
Sirisanthana T.
Li P.
Lee M.
Kumarasamy N.
Saghayam S.
Pujari S.
Joshi K.
Merati T.
Yuliana F.
Lee C.
Sim B.
Kamarulzaman A.
Ong L.
Mustafa M.
Nordin N.
Ditangco R.
Bantique R.
Chen Y.
Lin Y.
Phanuphak P.
Sirivichayakul S.
Sungkanuparph S.
Kiertiburanakul S.
Chumla L.
Sanmeema N.
Sirisanthana T.
Praparattanapan J.
Kantipong P.
Kambua P.
Ratanasuwan W.
Sriondee R.
Kantor R.
Sohn A.
Durier N.
Singtoroj T.
Cooper D.
Law M.
Boettiger D.
author_sort Jiamsakul A.
title Comparison of genotypic and virtual phenotypic drug resistance interpretations with laboratory-based phenotypes among CRF01_AE and subtype B HIV-infected individuals
title_short Comparison of genotypic and virtual phenotypic drug resistance interpretations with laboratory-based phenotypes among CRF01_AE and subtype B HIV-infected individuals
title_full Comparison of genotypic and virtual phenotypic drug resistance interpretations with laboratory-based phenotypes among CRF01_AE and subtype B HIV-infected individuals
title_fullStr Comparison of genotypic and virtual phenotypic drug resistance interpretations with laboratory-based phenotypes among CRF01_AE and subtype B HIV-infected individuals
title_full_unstemmed Comparison of genotypic and virtual phenotypic drug resistance interpretations with laboratory-based phenotypes among CRF01_AE and subtype B HIV-infected individuals
title_sort comparison of genotypic and virtual phenotypic drug resistance interpretations with laboratory-based phenotypes among crf01_ae and subtype b hiv-infected individuals
publishDate 2017
url https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84954399287&origin=inward
http://cmuir.cmu.ac.th/jspui/handle/6653943832/42133
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