Table 3.
a. Results including replications samples: ordinal results
| Chr | BP | SNP | a1 | a2 | SNP Type | Gene | Discovery
|
Replication
|
Total
|
||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Meta AA P | Meta EA P | Rep AA P | Rep EA P | Meta AA P | Meta EA P | Combined Meta P | |||||||
| 4 | 100043933 | rs28542574 | A | G | INT | LOC100507053 | 3.62E-11 | a | a | a | 3.62E-11 | a | 3.62E-11 |
| 4 | 100071924 | rs17028615 | G | A | INT | LOC100507053 | 3.25E-08 | a | 5.32E-04 | 9.02E-01 | 1.33E-10 | a | 2.88E-08 |
| 4 | 100214164 | rs904092 | A | G | INT | LOC100507053 | 8.73E-09 | 7.16E-01 | 3.85E-04 | 5.14E-01 | 2.63E-11 | 9.96E-01 | 9.02E-06 |
| 4 | 100225992 | rs1693458 | T | C | NA | NA | 1.09E-09 | 7.42E-01 | a | a | 1.09E-09 | 7.42E-01 | 7.52E-05 |
| 4 | 100229017 | rs2066702 | A | G | NSM | ADH1B | 2.24E-13 | a | 3.20E-05 | 8.57E-01 | 6.33E-17 | a | 1.50E-13 |
| 4 | 100235053 | rs1789882 | A | G | SYN | ADH1B | 1.39E-09 | 7.33E-01 | 1.99E-04 | 8.08E-01 | 2.37E-12 | 8.60E-01 | 5.93E-06 |
| 4 | 100236762 | rs1693457 | C | T | INT | ADH1B | 1.51E-09 | 7.97E-01 | 2.65E-04 | 7.28E-01 | 3.15E-12 | 9.60E-01 | 4.32E-06 |
| 4 | 100239319 | rs1229984 | T | C | NSM | ADH1B | a | 2.91E-18 | 3.38E-01 | 1.14E-06 | a | 1.85E-23 | 1.52E-22 |
| 4 | 100249210 | rs2213042 | C | T | NA | NA | 1.49E-08 | 8.98E-01 | a | a | 1.49E-08 | 8.98E-01 | 6.54E-05 |
| 4 | 100250970 | rs2173201 | A | C | NA | NA | 2.39E-09 | a | 1.47E-02 | 2.30E-01 | 1.13E-10 | 7.42E-01 | 5.21E-06 |
| 4 | 100258155 | rs1614972 | T | C | INT | ADH1C | 2.70E-08 | 8.40E-01 | 3.37E-02 | 7.40E-01 | 2.68E-09 | 9.92E-01 | 7.40E-05 |
| 4 | 100266133 | rs2241894 | C | T | SYN | ADH1C | 9.79E-09 | a | 1.58E-02 | 2.07E-01 | 4.94E-10 | 7.65E-01 | 1.02E-05 |
| 4 | 100267372 | rs12639833 | T | C | INT | ADH1C | 8.59E-09 | a | 8.88E-03 | 2.42E-01 | 2.66E-10 | 8.02E-01 | 6.44E-06 |
| 4 | 100272147 | rs6846835 | C | T | INT | ADH1C | 9.51E-09 | 8.57E-01 | a | a | 9.51E-09 | 8.57E-01 | 1.32E-04 |
| 4 | 100281893 | rs10031168 | C | T | NA | NA | 4.57E-09 | 9.94E-01 | a | a | 4.57E-09 | 9.94E-01 | 5.28E-05 |
|
b. Results including replications samples: case–control results
| |||||||||||
| Chr | BP | SNP | Gene |
P-value
|
|||||||
| Discovery
|
Replication
|
Total
|
|||||||||
| AA | EA | AA | EA | German | Total AA | Total EA | All data sets | ||||
|
| |||||||||||
| 2 | 55505456 | rs1437396 | NA | 3.82E-06 | 1.43E-02 | 2.02E-01 | 1.63E-01 | 1.71E-04 | 1.81E-06 | 6.44E-06 | 1.17E-10 |
| 4 | 100071924 | rs17028615 | LOC100507053 | 3.55E-06 | a | 2.06E-03 | 2.36E-01 | a | 5.62E-08 | a | 2.23E-05 |
| 4 | 100214164 | rs904092 | LOC100507053 | 7.89E-07 | 4.04E-01 | 5.98E-04 | 6.21E-01 | 7.44E-01 | 5.29E-09 | 5.50E-01 | 4.10E-03 |
| 4 | 100225992 | rs1693458 | NA | 3.88E-07 | 3.80E-01 | a | a | a | 3.88E-07 | 3.80E-01 | 4.44E-03 |
| 4 | 100229017 | rs2066702 | ADH1B | 9.49E-09 | a | 4.49E-04 | 3.13E-01 | a | 3.72E-11 | a | 7.88E-08 |
| 4 | 100235053 | rs1789882 | ADH1B | 3.89E-07 | 3.68E-01 | 3.64E-04 | 6.59E-01 | a | 1.83E-09 | 5.59E-01 | 3.68E-04 |
| 4 | 100236762 | rs1693457 | ADH1B | 4.68E-07 | 4.42E-01 | 3.36E-04 | 5.51E-01 | 9.14E-01 | 2.13E-09 | 7.04E-01 | 1.70E-03 |
| 4 | 100239319 | rs1229984 | ADH1B | a | 1.63E-13 | 6.20E-01 | 3.67E-04 | 1.08E-17 | a | 1.17E-31 | 1.81E-30 |
| 4 | 100249210 | rs2213042 | NA | 3.70E-07 | 9.90E-01 | a | a | a | 3.70E-07 | 9.90E-01 | 5.00E-04 |
| 4 | 100250970 | rs2173201 | NA | 2.37E-07 | 5.55E-01 | 2.09E-01 | 6.83E-01 | 2.33E-03 | 1.32E-07 | 3.40E-02 | 1.83E-06 |
| 4 | 100258155 | rs1614972 | ADH1C | 4.18E-07 | 9.02E-01 | 3.42E-01 | 9.27E-01 | a | 4.06E-07 | 8.79E-01 | 4.96E-04 |
| 4 | 100266133 | rs2241894 | ADH1C | 1.51E-06 | 6.20E-01 | 2.07E-01 | 7.20E-01 | a | 7.66E-07 | 7.88E-01 | 4.81E-04 |
| 4 | 100267372 | rs12639833 | ADH1C | 1.84E-06 | 6.45E-01 | 1.58E-01 | 6.56E-01 | a | 7.04E-07 | 8.45E-01 | 5.72E-04 |
| 4 | 100278697 | rs4699741 | NA | 6.04E-01 | 2.33E-04 | 9.64E-01 | 1.10E-01 | 2.12E-04 | 6.40E-01 | 6.11E-08 | 3.69E-05 |
Abbreviations: BP, base pairs; beta, beta coefficient for the DSM-IV alcohol dependence symptom count; EAF, effect allele frequency; SNP type: INT, intronic; NA, other; NSM, non-synonymous; SYN, synonymous. Only the latter includes the German samples because ordinal phenotype data were not available.
a
Not tested because of low minor allele frequency, poor imputation quality, model convergence error or not genotyped. Bold and italic indicates genomewide significance, discovery and meta-analysis phases; nominal significance, replication phases.