Table 1.
The top genes in the European-American and African-American samples: the top 5% genes were identified based on top performing SNPs located either in a gene or within 100kb of genes. Permutations were conducted to calculate empirical p-values. The uncorrected p-values for the top SNPs are shown. Although individual SNPs in the genes do not show experiment-wise significance, several genes produced empirically significant values. 3 genes in the EA and 1 gene in the AA sample meet a Bonferroni-like experiment-wide correction. Six genes in the EA and 5 genes in the AA sample show gene-wise significance.
| GENE ID | CHR | Permuted p-value | top SNP | position_bp, HapMap | uncorrected p-value |
|---|---|---|---|---|---|
| European-American | |||||
| PITRM1 | 10 | 0.0004 | rs2279216 | 3170951 | 3.77E-05 |
| PIGG | 4 | 0.0005 | rs11730410 | 531595 | 1.83E-05 |
| AKAP9 | 7 | 0.0005 | rs10281556 | 91497989 | 6.18E-05 |
| PFKP | 10 | 0.0014 | rs1053000 | 3168881 | 7.71E-05 |
| KRIT1 | 7 | 0.0018 | rs2040499 | 91647593 | 5.15E-05 |
| AOX1 | 2 | 0.0055 | rs2241080 | 201235484 | 3.95E-05 |
| AHNAK2 | 14 | 0.0055 | rs2033932 | 104518120 | 7.68E-05 |
| KCNMA1 | 10 | 0.0166 | rs717207 | 78713370 | 2.17E-05 |
| IGFBP1 | 7 | 0.0363 | rs2854843 | 45897660 | 5.38E-03 |
| DOCK2 | 5 | 0.1081 | rs1316638 | 169409589 | 2.66E-05 |
| PLA2G4A | 1 | 0.1377 | rs761516 | 185227949 | 5.15E-05 |
| TRPC4 | 13 | 0.1453 | rs4943543 | 37372387 | 6.18E-05 |
| DAB1 | 1 | 0.2211 | rs10159302 | 57578138 | 7.85E-05 |
| CGNL1 | 1 | 0.3178 | rs12440459 | 55482230 | 6.76E-05 |
| CNTNAP2 | 7 | 0.7155 | rs10279700 | 146599228 | 4.08E-05 |
| African-American | |||||
| KCNQ5 | 6 | 0.0002 | rs3799285 | 73947782 | 2.00E-05 |
| MGLL | 3 | 0.0012 | rs11716997 | 129034320 | 5.11E-05 |
| SLC35B4 | 7 | 0.0015 | rs2544208 | 133620656 | 9.08E-06 |
| MORC1 | 3 | 0.0066 | rs2197741 | 110214799 | 3.10E-05 |
| IL8 | 4 | 0.0081 | rs2886920 | 74845809 | 2.52E-05 |
| CEACAM6 | 19 | 0.0236 | rs2701 | 46966939 | 1.05E-05 |
| GSTA3 | 6 | 0.0613 | rs588565 | 52900813 | 1.72E-03 |
| PTPLAD2 | 9 | 0.0676 | rs11789272 | 21020851 | 5.42E-05 |
| GRIN2A | 16 | 0.1320 | rs7206714 | 10085496 | 1.69E-05 |