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Title: Comparison of genotypic and virtual phenotypic drug resistance interpretations with laboratory-based phenotypes among CRF01_AE and subtype B HIV-infected individuals
Authors: Awachana Jiamsakul
Romanee Chaiwarith
Nicolas Durier
Sunee Sirivichayakul
Sasisopin Kiertiburanakul
Peter Van Den Eede
Rossana Ditangco
Adeeba Kamarulzaman
Patrick Ck Li
Winai Ratanasuwan
Thira Sirisanthana
P. C.K. Li
M. P. Lee
N. Kumarasamy
S. Saghayam
S. Pujari
K. Joshi
T. P. Merati
F. Yuliana
C. K.C. Lee
B. L.H. Sim
L. Y. Ong
M. Mustafa
N. Nordin
R. O. Bantique
Y. M.A. Chen
Y. T. Lin
P. Phanuphak
S. Sirivichayakul
S. Sungkanuparph
L. Chumla
N. Sanmeema
J. Praparattanapan
P. Kantipong
P. Kambua
R. Sriondee
R. Kantor
A. H. Sohn
T. Singtoroj
D. A. Cooper
M. G. Law
D. C. Boettiger
University of New South Wales (UNSW) Australia
Chiang Mai University
amfAR - The Foundation for AIDS Research
Chulalongkorn University
Mahidol University
Janssen Diagnostics
University of Malaya Medical Centre
Queen Elizabeth Hospital Hong Kong
VHS Medical Centre India
Institute of Infectious Diseases
Universitas Udayana
Hospital Sungai Buloh
Hospital Raja Perempuan Zainab II
Kaohsiung Medical University
The HIV Netherlands Australia Thailand Research Collaboration
Chiangrai Prachanukroh Hospital
Brown University
Keywords: Immunology and Microbiology
Issue Date: 1-Feb-2016
Citation: Journal of Medical Virology. Vol.88, No.2 (2016), 234-243
Abstract: © 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 vircoTypeTMHIV-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.
ISSN: 10969071
Appears in Collections:Scopus 2016-2017

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