Table 2.
Association tests of twelve candidate SNPs with P < 5 × 10−5 in the GWAS.
| Marker Information | GWAS stage | Validation stage | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Statistics | MAF | Statistics | MAF | |||||||||
| rs ID | Chr | Position (hg19) | Nearest Gene | Minor allele | P value | OR | Jaundice-stage (n = 150) | Early-stage (n = 975) | P value | OR | Jaundice-stage (n = 173) | Early-stage (n = 1,202) |
| rs1600683 | 4 | 35175065 | ARAP2 | C | 1.83E-05 | 1.71 | 0.460 | 0.333 | 2.66E-05 | 1.65 | 0.457 | 0.337 |
| rs9322354 | 6 | 152382014 | ESR1 | G | 4.63E-06 | 1.78 | 0.427 | 0.295 | 6.97E-05 | 1.62 | 0.407 | 0.298 |
| rs1122661 | 7 | 35441980 | HERPUD2 | C | 3.70E-05 | 1.95 | 0.197 | 0.111 | 3.68E-04 | 1.75 | 0.188 | 0.117 |
| rs13298004 | 9 | 90234456 | DAPK1 | T | 9.44E-06 | 1.79 | 0.353 | 0.234 | 2.65E-05 | 1.69 | 0.349 | 0.241 |
| rs985079 | 10 | 29370208 | LYZL1 | G | 2.51E-05 | 1.75 | 0.330 | 0.219 | 1.77E-04 | 1.62 | 0.315 | 0.221 |
| rs9530012 | 13 | 73037479 | MZT1 | A | 2.29E-05 | 1.76 | 0.327 | 0.216 | 1.92E-04 | 1.62 | 0.315 | 0.221 |
| rs1958976 | 14 | 40242642 | LRFN5 | A | 4.95E-06 | 2.74 | 0.099 | 0.039 | 2.10E-04 | 2.22 | 0.092 | 0.044 |
| rs6498342 | 16 | 12707035 | CPPED1 | C | 1.69E-05 | 0.44 | 0.104 | 0.210 | 2.66E-04 | 0.52 | 0.118 | 0.204 |
| rs12953610 | 18 | 5288695 | ZFP161 | G | 3.16E-05 | 2.05 | 0.164 | 0.088 | 2.96E-05 | 2.02 | 0.155 | 0.084 |
| rs12479566 | 20 | 57564448 | NELFCD | T | 1.22E-06 | 2.13 | 0.211 | 0.112 | 1.31E-06 | 2.07 | 0.205 | 0.111 |
| rs13720 | 20 | 57570568 | CTSZ | G | 7.62E-07 | 2.15 | 0.213 | 0.112 | 1.36E-07 | 2.15 | 0.211 | 0.110 |
| rs9760 | 20 | 57571763 | CTSZ | A | 1.01E-06 | 1.98 | 0.283 | 0.166 | 1.02E-06 | 0.53 | 0.282 | 0.172 |
P values were calculated using a chi-square test for allele frequencies in the GWAS samples and all 1,375 samples.MAF: minor allele frequency.
P value of Pearson’s chi-square test for the allelic model.
Odds ratio (OR) of minor allele from two-by-two allele frequency table.