Table 2.

SNPs confirmed in the follow-up study – Comparison of results of GWAS, replication and pooled analysis.

			GWA Scan^a				Replication Sample^b				Pooled Sample^c

SNP	Allele A^d	Allele B^d	Frq A Ca	Frq A Co	P-value^e	Odds Ratio (95% CI)	Frq A Ca	Frq A Co	P-value^e	Odds Ratio (95% CI)	Frq A Ca	Frq A Co	P-value^e	Odds Ratio (95% CI)
rs1344694	G	T	0.603	0.685	5.57E-6	0.70 (0.60–0.81)	0.613	0.659	3.36E-3	0.82 (0.72–0.93)	0.610	0.674	1.69E-8	0.76 (0.69–0.83)
rs7590720	A	G	0.645	0.724	5.70E-6	0.69 (0.59–0.81)	0.661	0.713	6.68E-4	0.79 (0.68–0.90)	0.656	0.719	9.72E-9	0.74 (0.67–0.82)
rs705648	C	T	0.313	0.244	2.68E-5	1.41 (1.20–1.67)	0.292	0.256	1.24E-2	1.19 (1.04–1.37)	0.299	0.249	1.78E-6	1.29 (1.16–1.43)
rs1614972	C	T	0.754	0.690	2.84E-4	1.37 (1.16–1.61)	0.721	0.690	3.62E-2	1.16 (1.01–1.33)	0.732	0.690	1.41E-4	1.23 (1.10–1.36)
rs13362120	C	T	0.258	0.329	5.72E-5	0.71 (0.60–0.84)	0.296	0.333	1.25E-2	0.84 (0.73–0.96)	0.283	0.331	1.85E-5	0.80 (0.72–0.88)
rs13160562	A	G	0.252	0.326	2.31E-5	0.70 (0.59–0.83)	0.283	0.316	2.47E-2	0.85 (0.75–0.98)	0.273	0.322	7.09E-6	0.79 (0.71–0.88)
rs1864982	A	C	0.181	0.129	9.71E-5	1.49 (1.22–1.82)	0.163	0.130	4.47E-3	1.30 (1.09–1.56)	0.169	0.130	3.46E-6	1.36 (1.20–1.55)
rs6902771	C	T	0.591	0.517	9.31E-5	1.35 (1.16–1.56)	0.552	0.505	3.15E-3	1.20 (1.06–1.37)	0.565	0.512	8.30E-6	1.24 (1.13–1.36)
rs729302	A	C	0.599	0.671	6.19E-5	0.73 (0.63–0.85)	0.641	0.677	1.84E-2	0.85 (0.75–0.97)	0.627	0.673	4.02E-5	0.82 (0.74–0.90)
rs13273672	C	T	0.364	0.312	2.18E-3	1.27 (1.09–1.47)	0.342	0.311	3.61E-2	1.15 (1.01–1.32)	0.350	0.312	4.75E-4	1.19 (1.08–1.31)
rs1487814	A	G	0.589	0.511	3.58E-5	1.37 (1.18–1.59)	0.544	0.508	2.48E-2	1.15 (1.02–1.30)	0.559	0.510	3.49E-5	1.22 (1.11–1.34)
rs7138291	C	T	0.142	0.093	2.46E-5	1.61 (1.28–2.00)	0.115	0.095	4.10E-2	1.23 (1.01–1.54)	0.124	0.094	3.68E-5	1.36 (1.18–1.58)
rs36563	A	C	0.210	0.147	6.21E-6	1.54 (1.28–1.85)	0.184	0.159	3.83E-2	1.19 (1.01–1.41)	0.192	0.152	4.57E-6	1.33 (1.18–1.50)
rs11640875	A	G	0.389	0.326	5.25E-4	1.32 (1.12–1.54)	0.372	0.332	9.85E-3	1.19 (1.04–1.35)	0.377	0.329	1.84E-5	1.24 (1.12–1.36)
rs12388359	G	T	0.811	0.900	1.21E-5	0.47 (0.34–0.67)	0.840	0.879	1.25E-2	0.72 (0.56–0.93)	0.831	0.888	3.57E-6	0.62 (0.50–0.76)

Analysis based on 476 cases and 1358 controls

Analysis based on 984 cases and 974 controls

Analysis based on 1460 cases and 2332 controls

Allele names are assigned in alphabetical order

Armitage test for trend for autosomal markers, allele-based chi²-Test for x-chromosomal marker