Table 2.

The top SNPs for alcohol case-control GWAS

SNP	Chr	Pos (hg19)	A1	A2	Gene	Discovery stage								Replication stage				Meta-analysis
						Cases vs. all controls				Cases vs. male controls
						MAFa	OR	SE	P	MAFa	OR	SE	P	MAFa	OR	SE	P	P
rs2075633	4	100238998	C	T	ADH1B	0.43/0.23	0.397	0.070	6.37 × 10−15	0.43/0.24	0.411	0.073	1.22 × 10−17	0.59/0.25	0.224	0.229	5.88 × 10−11	4.79 × 10−21
rs1229984	4	100239319	C	T	ADH1B	0.51/0.31	2.313	0.068	1.03 × 10−12	0.49/0.30	2.250	0.071	1.13 × 10−15	0.23/0.70	6.106	0.229	2.42 × 10−15	3.59 × 10−20
rs11066001	12	112119171	C	T	BRAP	0.05/0.19	0.210	0.149	1.28 × 10−8	0.05/0.19	0.246	0.142	1.72 × 10−9	0.04/0.21	0.158	0.392	2.42 × 10−6	7.15 × 10−12
rs671	12	112241766	A	G	ALDH2	0.05/0.19	0.202	0.152	3.98 × 10−8	0.05/0.18	0.219	0.151	1.38 × 10−9	0.06/0.21	0.196	0.350	3.06 × 10−6	2.91 × 10−11

OR odds ratio, SE standard error, which was calculated as (logOR-log(OR_lower))/1.96

^aMAF in cases/MAF in controls