期刊
OPEN FORUM INFECTIOUS DISEASES
卷 2, 期 1, 页码 -出版社
OXFORD UNIV PRESS INC
DOI: 10.1093/ofid/ofu113
关键词
antiretroviral therapy; clinical trials; HIV-1; pharmacogenomics; PheWAS
资金
- National Institute of Allergy and Infectious Diseases ([NIAID]) [U01AI068636]
- National Institute of Mental Health
- National Institute of Dental and Craniofacial Research
- National Human Genome Research Institute [HG006385]
- National Heart, Lung, and Blood Institute [HL065962]
- National Institutes of Health (NIH) NIAID [AI069439, AI069532, AI069484, AI069432, AI069450, AI069495, AI069434, AI069424, AI069467, AI069423, AI069513, AI0 69477, AI069465, AI069419, AI069502, AI069474, AI069472, AI069501, AI069418, AI069494, AI069471, AI069511, AI069452, AI069428, AI069 556, AI069415, AI032782, AI046376, AI046370, AI038858, AI034853, AI027661, AI025859, AI069470, AI027675, AI073961, AI050410, AI0 45008, AI050409, AI072626, AI069447, AI027658, AI027666, AI058740, AI025868]
- NIH National Center for Research Resources [RR000046, RR000425, RR025747, RR025777, RR025 780, RR024996, RR024160, RR023561, RR024156]
- [TR000124]
- [AI064086]
- [AI36214]
- [AI077505]
- [TR000445]
Background. Phenome-Wide Association Studies (PheWAS) identify genetic associations across multiple phenotypes. Clinical trials offer opportunities for PheWAS to identify pharmacogenomic associations. We describe the first PheWAS to use genome-wide genotypic data and to utilize human immunodeficiency virus (HIV) clinical trials data. As proof-of-concept, we focused on baseline laboratory phenotypes from antiretroviral therapy-naive individuals. Methods. Data from 4 AIDS Clinical Trials Group (ACTG) studies were split into 2 datasets: Dataset I (1181 individuals from protocol A5202) and Dataset II (1366 from protocols A5095, ACTG 384, and A5142). Final analyses involved 2547 individuals and 5 954 294 imputed polymorphisms. We calculated comprehensive associations between these polymorphisms and 27 baseline laboratory phenotypes. Results. A total of 10 584 (0.17%) polymorphisms had associations with P < .01 in both datasets and with the same direction of association. Twenty polymorphisms replicated associations with identical or related phenotypes reported in the Catalog of Published Genome-Wide Association Studies, including several not previously reported in HIV-positive cohorts. We also identified several possibly novel associations. Conclusions. These analyses define PheWAS properties and principles with baseline laboratory data from HIV clinical trials. This approach may be useful for evaluating on-treatment HIV clinical trials data for associations with various clinical phenotypes.
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