Table 4.
Replication of SNPs detected in a GWAS of German alcoholics
| Treutlein et al. | COGA RESULTS - EA |
COGA RESULTS - AA | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SNP | Chr | Location (bp) |
Gene | Risk allele |
P-value | Dependence (p-value) |
OR | Risk allele |
Early onset p-value |
OR | MAF | Dependence (p-value) |
OR | MAF | Gene name |
| rs420033 | 1 | 111,097,197 | KCNA3 | A | 2.7E-05 | 9.6E-03 | 0.8 | G | 7.7E-03 | 0.7 | 0.26 | 6.6E-01 | 1.2 | 0.06 | potassium voltage-gated channel, shaker-related subfamily, member 3 |
| rs343802 | 1 | 111,118,652 | CD53 | T | 9.0E-05 | 1.8E-03 | 0.7 | C | 1.4E-03 | 0.7 | 0.24 | 7.9E-01 | 1.1 | 0.06 | CD53 molecule |
| rs17799872 | 2 | 24,898,461 | ADCY3 | A | 2.1E-03 | 4.4E-02 | 1.4 | A | 1.9E-02 | 1.5 | 0.08 | 3.1E-03 | 3.1 | 0.07 | adenylate cyclase 3 |
| rs11706542 | 3 | 28,303,587 | CMC1 | T | 4.3E-05 | 2.0E-02 | 0.8 | C | 4.1E-02 | 0.8 | 0.28 | 6.8E-01 | 0.9 | 0.12 | COX assembly mitochondrial protein homolog |
| rs1606388 | 3 | 28,309,831 | CMC1 | T | 5.2E-05 | 1.5E-02 | 0.8 | G | 3.2E-02 | 0.8 | 0.28 | 2.0E-01 | 0.7 | 0.08 | COX assembly mitochondrial protein homolog |
| rs4680758 | 3 | 28,576,547 | ZCWPW2 | A | 4.7E-05 | 2.5E-02 | 0.8 | C | 6.0E-02 | 0.8 | 0.25 | 5.1E-01 | 0.9 | 0.10 | |
| rs6549184 | 3 | 69,232,967 | ARL6IP5 | A | 7.6E-05 | 1.6E-02 | 1.7 | A | 6.4E-02 | 1.6 | 0.04 | 1.1E-04 | 2.1 | 0.25 | ADP-ribosylation-like factor 6 interacting protein 5 |
| rs12527834 | 6 | 19,929,760 | ID4 | G | 3.7E-05 | 2.1E-02 | 1.4 | G | 7.7E-02 | 1.4 | 0.10 | 2.7E-01 | 1.5 | 0.04 | inhibitor of DNA binding 4, dominant negative helix- loop-helix protein |
| rs214959 | 6 | 152,744,514 | SYNE1 | A | 4.7E-05 | 2.8E-02 | 1.2 | A | 1.8E-02 | 1.3 | 0.50 | 9.3E-01 | 1.0 | 0.12 | spectrin repeat containing, nuclear envelope 1 |
| rs2188594 | 7 | 20,645,811 | ABCB5 | A | 9.3E-05 | 6.9E-03 | 0.7 | G | 2.2E-02 | 0.7 | 0.18 | 4.6E-01 | 0.9 | 0.49 | ATP-binding cassette, sub-family B (MDR/TAP), member 5 |
| rs6958596 | 7 | 20,661,260 | ABCB5 | T | 1.4E-03 | 4.6E-03 | 0.7 | C | 1.7E-02 | 0.7 | 0.16 | 2.6E-01 | 0.8 | 0.21 | ATP-binding cassette, sub-family B (MDR/TAP), member 5 |
|
rs13273672 * |
8 | 11,649,790 | GATA4 | C | 2.2E-03 | 2.2E-02 | 1.2 | C | 1.6E-03 | 1.4 | 0.31 | 2.9E-01 | 0.8 | 0.35 | GATA binding protein 4 |
| rs753708 | 13 | 100,219,370 | TMTC4 | C | 7.9E-05 | 3.1E-02 | 0.7 | A | 2.5E-02 | 0.6 | 0.07 | 3.2E-01 | 1.3 | 0.12 | transmembrane and tetratricopeptide repeat containing 4 |
| rs12603061 | 17 | 62,242,660 | PRKCA | A | 7.8E-05 | 1.2E-01 | 1.1 | A | 4.7E-02 | 1.2 | 0.48 | 3.3E-02 | 0.7 | 0.46 | protein kinase C, alpha |
| rs8082983 | 18 | 55,306,698 | CCBE1 | G | 9.0E-05 | 1.7E-02 | 0.8 | A | 2.3E-02 | 0.8 | 0.35 | 2.1E-01 | 0.8 | 0.49 | collagen and calcium binding EGF domains 1 |
| rs11702690 | 21 | 42,280,737 | ZNF295 | G | 2.0E-05 | 7.8E-02 | 1.3 | G | 4.6E-02 | 1.4 | 0.08 | 8.6E-01 | 0.9 | 0.02 | zinc finger protein 295 |
SNPs from Treutlein et al. (Treutlein et al., 2009) that provided evidence for association (p≤0.05) in the present GWAS. Results from Treutlein are shown for comparison with the present GWAS in EA and AA. OR = odds ratio. MAF = minor allele frequency. Bold SNPs have the same risk allele.