Table 3.
African-American and European-American SNPs with empirical p-values < 0.01
| AFRICAN-AMERICAN | |||||
|---|---|---|---|---|---|
| SNP | Odds Ratio | Empirical p-value |
# LD | Gene Region Tested | Genes Containing SNPs |
| rs6880589 | 0.41 | 0.0007 | 0 | HAVCR1 | |
| rs2295977 | 057 | 0.0009 | 0 | IRF9 | IPO4 |
| rs723858 | 2.74 | 0.002 | 0 | TNFSF18 | |
| rs1168773 | 0.58 | 0.003 | 0 | IRAK3 | |
| rs7586242 | 0.59 | 0.003 | 4 | TANK | |
| rs2715268 | 2.25 | 0.004 | 1 | CD86 | |
| rs7011101 | 0.55 | 0.005 | 1 | TRAM1 | |
| rs3750912 | 2.44 | 0.005 | 0 | IL18BP | NUMA1 |
| rs1424860 | 1.92 | 0.005 | 1 | IFNB1 | |
| rs7851560 | 0.62 | 0.009 | 1 | DDX58 | TOPORS |
| EUROPEAN-AMERICAN | |||||
| SNP | Odds Ratio | Empirical p-value |
# LD |
Gene Region Tested | Genes Containing SNPs |
| rs919178 | 1.72 | 0.0002 | 4 | SP110 | |
| rs1267059 | 0.51 | 0.0008 | 4 | TANK | |
| rs2298455 | 1.85 | 0.003 | 0 | IL18BP | |
| rs12104272 | 0.64 | 0.003 | 1 | IRF3 | SCAF1,IRF3,BCL2L12 |
| rs2236876 | 1.58 | 0.004 | 2 | TNFSF18 | |
| rs4571051 | 1.53 | 0.005 | 0 | INPP5D | |
| rs7303577 | 0.48 | 0.006 | 1 | TBK1 | |
| rs953569 | 0.68 | 0.007 | 0 | HAVCR1 | |
Allelic association analysis with 25,000 permutations was performed on AA and EA data separately. Headings indicate the following information: SNP, top scoring SNP in each LD cluster; Odds-Ratio (OR), odds ratio of the minor allele of the top scoring SNP being associated with clearance. OR>1, minor allele is associated with viral clearance. OR<1, minor allele is associated with viral persistence; Empirical p-value, empirical p-value of the top scoring snp; #LD, number of SNPs with empirical p-value < 0.01 and in linkage disequilibrium with the top scoring SN;. Gene Region Tested, region tested including the candidate gene and 20kb of flanking sequence 3’ and 5’; Genes Containing SNPs, The gene containing the significant SNPs, which may or may not be the candidate gene tested.