Table 1 Description of GWAS on HIV infection and the most interesting signals discovered
From: Genome-wide association studies on HIV susceptibility, pathogenesis and pharmacogenomics
cohort | year | Phenotype | Most important association | P-value | Validation | ethnicity | ref |
|---|---|---|---|---|---|---|---|
CHAVI | 2007 | RNA VL setpoint | HCP5 (rs2395029) | 9.4E-12 | Significant, confirmed | Caucasian | [27] |
−35 HLA-C (rs9264942) | 3.8E-09 | Significant, confirmed | |||||
CD4 T cell decline | ZNRD1 (rs9261174) | 3.9E-07 | Confirmed | ||||
ANRS PRIMO | 2008 | plasma HIV RNA primary infection | HCP5 (rs2395029) | 9.3E-07 | Significant, confirmed | Caucasian | [31] |
cellular HIV DNA primary infection | HCP5 (rs2395029) | 6.7E-07 | Significant, confirmed | ||||
GRIV | 2009 | long-term nonprogression | HCP5 (rs2395029) | 6.8E-10 | Significant, confirmed | Caucasian | [32] |
C6orf48 (rs9368699) | 5.3E-07 | Putative | |||||
Euro-CHAVI, MACS | 2009 | RNA VL setpoint | HCP5 (rs2395029) | 4.5E-35 | Significant, confirmed | Caucasian | [33] |
−35 HLA-C (rs9264942) | 5.9E-32 | Significant, confirmed | |||||
GRIV | 2009 | rapid progression | PRMT6 (rs4118325) | 6.1E-07 | Putative | Caucasian | [34] |
SOX5 (rs1522232) | 1.8E-06 | Putative | |||||
International HIV controllers study | 2010 | VL controllers | >300 SNPs in MHC | <5.0E-08 | Significant | Caucasian, African, Hispanic | [35] |
−35 HLA-C (rs9264942) | 2.8E-35 | Significant, confirmed | |||||
HCP5 (rs2395029) | 9.7E-26 | Significant, confirmed | |||||
MICA (rs4418214) | 1.4E-34 | Significant | |||||
PSORSIC3 (rs3131018) | 4.2E-16 | Significant | |||||
Queen Elizabeth Central Hospital, Malawi | 2010 | mother-to-child transmission | HS3ST3A1 (rs8069770) | 3.8E-05 | Putative | African | [36] |
MACS | 2010 | progression to AIDS | PROX1 (rs17762192) | 6.2E-07 | Confirmed | Caucasian | [37] |
DoD HIV NHS and MACS | 2010 | RNA VL setpoint | HLA-B*5703 | 5.6E-10 | Significant, confirmed | African | [38] |
GRIV, MACS, ACS | 2010 | long-term nonprogression (VL > 100 cp/ml) | CXCR6 (rs2234358) | 9.7E-10 | Significant, confirmed | Caucasian | [39] |
CHAVI, Malawi | 2011 | HIV acquisition | African | [40] | |||
MACS | 2011 | progression to AIDS 1987 | PARD3B (rs11884476) | 3.4E-09 | Significant, confirmed | Caucasian, African | [41] |
blood donors, Sanquin Amsterdam | 2011 | in vitro HIV-1 replication in macrophages | DYRK1A (rs12483205) | 2.2E-05 | Putative | Caucasian | [42] |
ACS | 2011 | progression to AIDS, or AIDS-related death | AGR3 (rs152363) | 3.5E-06 | Putative | Caucasian | [43] |
Thailand | 2011 | Nevaripine tolerance | CCHCR1 (rs1265112) | 1.2E-08 | Significant | Asian | [44] |
African serodiscordant couples cohort | 2011 | HIV acquisition | African | [45] |