A genome-to-genome analysis of associations between human genetic variation, HIV-1 sequence diversity, and viral control
- Bartha, Istvan
- Carlson, Jonathan M.
- Brumme, Chanson J.
- Mclaren, Paul J.
- Brumme, Zabrina L.
- John, Mina
- Haas, David W.
- Martinez-Picado, Javier
- Dalmau, Judith
- Lopez-Galindez, Cecilio
- Casado, Concepcion
- Rauch, Andri
- Guenthard, Huldrych F.
- Bernasconi, Enos
- Vernazza, Pietro
- Klimkait, Thomas
- Yerly, Sabine
- O'Brien, Stephen J.
- Listgarten, Jennifer
- Pfeifer, Nico
- Lippert, Christoph
- Fusi, Nicolo
- Kutalik, Zoltan
- Allen, Todd M.
- Mueller, Viktor
- Harrigan, P. Richard
- Heckerman, David
- Telenti, Amalio
- Fellay, Jacques
DOIAbstract
HIV-1 sequence diversity is affected by selection pressures arising from host genomic factors. Using paired human and viral data from 1071 individuals, we ran >3000 genome-wide scans, testing for associations between host DNA polymorphisms, HIV-1 sequence variation and plasma viral load (VL), while considering human and viral population structure. We observed significant human SNP associations to a total of 48 HIV-1 amino acid variants (p<2.4 x 10(-12)). All associated SNPs mapped to the HLA class I region. Clinical relevance of host and pathogen variation was assessed using VL results. We identified two critical advantages to the use of viral variation for identifying host factors: (1) association signals are much stronger for HIV-1 sequen...
Add to ORKG