Table 2.
Top 20 SNPs, their chromosomal locations, associated genes, major and minor alleles, minor allele frequency of cases and controls, p-value and odds ratio and 95% confidence interval.
| db SNP ID | Chr | Position (hg19) | Nearby genes | Variant location | Major/minor alleles | Case MAF* | control MAF | P-value | Odds ratio (95% CI) |
|---|---|---|---|---|---|---|---|---|---|
| rs2455012 | 1 | 66520998 | PDE4B | Intron | C/T | 0.090615 | 0.045190 | 6.68E-07 | 2.17 (1.59, 2.93) |
| rs7152530 | 14 | 98641215 | VRK1, BCL11B | Intergenic | G/A | 0.270227 | 0.366746 | 8.47E-07 | 0.62 (0.51, 0.75) |
| rs3804047 | 22 | 19879637 | TXNRD2 | Intron | T/C | 0.368932 | 0.281143 | 3.32E-06 | 1.52 (1.27, 1.81) |
| rs470093 | 22 | 44276171 | PNPLA5 | 3' UTR | G/T | 0.211974 | 0.146838 | 7.19E-06 | 1.63 (1.31, 2.02) |
| rs1381281 | 14 | 98615771 | VRK1, BCL11B | Intergenic | A/G | 0.322006 | 0.410024 | 1.07E-05 | 0.67 (0.56, 0.80) |
| rs13107325 | 4 | 103188709 | SLC39A8 | Exon 8 | G/A | 0.113269 | 0.065299 | 1.09E-05 | 1.88 (1.41, 2.47) |
| rs1892234 | 14 | 98720904 | VRK1, BCL11B | Intergenic | T/C | 0.364078 | 0.455897 | 1.38E-05 | 0.68 (0.57, 0.81) |
| rs6948646 | 7 | 152945284 | ACTR3B, DPP6 | Intergenic | G/A | 0.444984 | 0.362393 | 1.41E-05 | 1.46 (1.23, 1.73) |
| rs1012203 | 9 | 104626708 | GRIN3A, CYLC2 | Intergenic | A/G | 0.048544 | 0.104103 | 1.59E-05 | 0.44 (0.29, 0.62) |
| rs987514 | 14 | 98628943 | VRK1, BCL11B | Intergenic | C/T | 0.330097 | 0.415356 | 1.95E-05 | 0.68 (0.56, 0.81) |
| rs11950651 | 5 | 103009768 | NUDT12, EFNA5 | Intergenic | C/T | 0.032362 | 0.079829 | 2.09E-05 | 0.37 (0.22, 0.57) |
| rs12160908 | 22 | 25928620 | LRP5L, ADRBK2 | Intergenic | C/T | 0.067961 | 0.127401 | 2.13E-05 | 0.49 (0.35, 0.67) |
| rs12696090 | 3 | 158669688 | MFSD1, IQCJ-SCHIP1 | Intergenic | G/T | 0.150485 | 0.226635 | 2.72E-05 | 0.61 (0.48, 0.76) |
| rs9614174 | 22 | 44082454 | EFCAB6 | Intron | A/C | 0.215210 | 0.151795 | 2.78E-05 | 1.56 (1.26, 1.92) |
| rs7255123 | 19 | 3958397 | DAPK3 | 3' near gene | G/A | 0.263754 | 0.198632 | 4.11E-05 | 1.51 (1.24, 1.84) |
| rs6135407 | 20 | 15397676 | MACROD2 | Intron | C/T | 0.220065 | 0.158858 | 4.91E-05 | 1.54 (1.25, 1.90) |
| rs4807532 | 19 | 3928369 | ATCAY | 3' near gene | G/A | 0.461165 | 0.375897 | 5.32E-05 | 1.42 (1.20, 1.69) |
| rs7643377 | 3 | 142114694 | XRN1 | Intron | C/T | 0.483819 | 0.400342 | 5.70E-05 | 1.41 (1.19, 1.67) |
| rs2535368 | 7 | 83157207 | SEMA3E | Intron | G/A | 0.202265 | 0.144494 | 5.90E-05 | 1.56 (1.25, 1.93) |
| rs9867210 | 3 | 142132749 | XRN1 | Intron | TIC | 0.495146 | 0.411453 | 6.17E-05 | 1.41 (1.19, 1.67) |
*
Minor allele frequency.