Table 2.
Summary of results for meta-analysis of COGA and SAGE datasets (p ≤ 1.00 × 10−5)
| SNP | CHRa | BPb | Gene | A1 | A2 | MAFc | COGA p | SAGE p | Meta p |
|---|---|---|---|---|---|---|---|---|---|
| rs1229984D | 4 | 100239319 | ADH1B | T | C | 0.03 | 1.20E-02 | 4.32E-07 | 2.04E-08 |
| rs4758317 | 11 | 8250811 | LMO1 | C | A | 0.42 | 2.85E-02G | 5.97E-06 | 7.20E-07 |
| rs59677118 | 9 | 14441677 | NA | A | G | 0.06 | 7.83E-03 | 4.70E-05 | 1.16E-06 |
| rs55731057 | 4 | 38798935 | NA | T | C | 0.25 | 6.69E-02 | 1.17E-05 | 3.31E-06 |
| rs67031482 | 2 | 198911166 | PLCL1 | C | T | 0.48 | 1.06E-02 | 1.22E-04 | 4.07E-06 |
| rs5743604 | 4 | 38801285 | TLR1 | G | A | 0.24 | 6.27E-02 | 1.63E-05 | 4.09E-06 |
| rs1353899 | 3 | 177228979 | NA | G | T | 0.22 | 4.22E-02G | 2.45E-05 | 4.21E-06 |
| rs745899 | 2 | 198908040 | PLCL1 | A | T | 0.48 | 1.06E-02 | 1.34E-04 | 4.24E-06 |
| rs10497813 | 2 | 198914072 | PLCL1 | G | T | 0.48 | 1.04E-02 | 1.42E-04G | 4.36E-06 |
| rs2117339 | 2 | 198915734 | PLCL1 | C | T | 0.48 | 1.02E-02 | 1.41E-04 | 4.40E-06 |
| rs7144649 | 14 | 57822216 | NA | G | A | 0.23 | 1.15E-01G | 5.76E-06G | 4.40E-06 |
| rs12329164 | 2 | 198905224 | PLCL1 | C | G | 0.48 | 1.06E-02 | 1.39E-04 | 4.49E-06 |
| rs10206714 | 2 | 198906481 | PLCL1 | C | T | 0.48 | 1.06E-02 | 1.37E-04 | 4.50E-06 |
| rs6732340 | 2 | 198912952 | PLCL1 | C | G | 0.48 | 1.09E-02 | 1.41E-04 | 4.63E-06 |
| rs1392219 | 3 | 177222429 | NA | T | C | 0.22 | 3.68E-02 | 3.72E-05G | 5.00E-06 |
| rs59972978 | 20 | 56058355 | NA | T | A | 0.20 | 1.32E-03 | 1.02E-03 | 5.21E-06 |
| rs2196174 | 2 | 198905172 | PLCL1 | A | G | 0.48 | 1.06E-02 | 1.73E-04 | 5.49E-06 |
| rs4833095 | 4 | 38799710 | TLR1 | C | T | 0.26 | 8.11E-02G | 1.50E-05G | 5.55E-06 |
| rs1371664 | 2 | 198904465 | PLCL1 | T | A | 0.48 | 1.06E-02 | 1.80E-04 | 5.61E-06 |
| rs9712275 | 2 | 198907143 | PLCL1 | C | T | 0.48 | 1.42E-02 | 1.31E-04 | 5.77E-06 |
| rs11690205 | 2 | 198933948 | PLCL1 | C | T | 0.48 | 8.26E-03 | 2.44E-04 | 5.87E-06 |
| rs10497811 | 2 | 198902909 | PLCL1 | A | C | 0.48 | 1.06E-02 | 1.80E-04 | 5.94E-06 |
| rs7587251 | 2 | 198930197 | PLCL1 | T | G | 0.48 | 8.26E-03 | 2.41E-04 | 6.06E-06 |
| rs962210 | 2 | 198902230 | PLCL1 | A | T | 0.48 | 1.09E-02 | 1.83E-04 | 6.11E-06 |
| rs35062652 | 2 | 198927927 | PLCL1 | C | T | 0.47 | 9.29E-03 | 2.29E-04 | 6.13E-06 |
| rs11690149 | 2 | 198933804 | PLCL1 | C | T | 0.48 | 8.26E-03 | 2.49E-04 | 6.18E-06 |
| rs16985179 | 22 | 28029538 | NA | T | C | 0.11 | 2.57E-04G | 3.37E-03G | 6.23E-06 |
| rs17616434 | 4 | 38812876 | NA | C | T | 0.26 | 7.17E-02G | 2.17E-05G | 6.71E-06 |
| chr2:198911426 | 2 | 198911426 | PLCL1 | G | A | 0.48 | 1.06E-02 | 2.13E-04 | 6.73E-06 |
| rs36061340 | 8 | 101807230 | NA | T | C | 0.05 | 4.43E-02 | 5.00E-05 | 6.81E-06 |
| rs7572733 | 2 | 198929806 | PLCL1 | C | T | 0.48 | 7.23E-03 | 3.25E-04G | 6.97E-06 |
| rs2196175 | 2 | 198905073 | PLCL1 | T | A | 0.48 | 1.06E-02 | 2.18E-04 | 6.98E-06 |
| rs7553212 | 1 | 216738788 | ESRRG | G | A | 0.32 | 7.25E-02G | 2.32E-05G | 7.14E-06 |
| rs1583792 | 2 | 198900288 | PLCL1 | C | T | 0.48 | 1.43E-02 | 1.70E-04 | 7.26E-06 |
| rs1866666 | 2 | 198940607 | PLCL1 | T | C | 0.48 | 1.05E-02 | 2.47E-04 | 7.79E-06 |
| rs6834581 | 4 | 38788234 | NA | C | T | 0.25 | 3.79E-02 | 6.67E-05 | 8.18E-06 |
| rs9973400 | 2 | 198941578 | PLCL1 | T | C | 0.48 | 9.95E-03 | 2.82E-04 | 8.29E-06 |
| chr7:20089751 | 7 | 20089751 | NA | A | G | 0.09 | 5.93E-03 | 4.71E-04 | 8.54E-06 |
| rs62202398 | 20 | 46801224 | NA | A | G | 0.06 | 3.81E-01 | 1.69E-06 | 8.62E-06 |
| rs11851015 | 14 | 57669533 | EXOC5 | G | A | 0.15 | 3.01E-03G | 8.55E-04 | 8.64E-06 |
| rs4543123 | 4 | 38792524 | NA | G | A | 0.24 | 3.34E-02 | 8.26E-05G | 8.75E-06 |
| rs2188561 | 7 | 107336058 | SLC26A4 | A | C | 0.21 | 1.47E-01 | 9.17E-06 | 9.23E-06 |
| chr14:101189019 | 14 | 101189019 | NA | T | C | 0.16 | 1.83E-02 | 1.79E-04 | 9.61E-06 |
a
Chromosome;
b
Chromosomal position (base pairs) based on human genome build 19, dbSNP 137
c
Minor allele frequency estimated on founders of COGA dataset;
D
ADH1B variant with MAF < 0.05 genotyped in COGA and SAGE datasets;
G
genotyped SNPs