Table 2. Results for Association with twinness (MZ+DZ) for SNPs with P-value < 1 × 10^-5 in Stage 1.

Chromosome	SNP	Position (build 36)	Closest Gene	Risk Allele	Stage 1 - Swedish samples			Stage 2 - Finnish samples			Meta-analysis - stage 1 + stage 2
					Risk allele frequency	OR (95% CI)	P-value	Risk allele frequency	OR (95% CI)	P-value	OR (95% CI)	P-value
6	rs1554783	152877077	SYNE1	G	0.25	1.22 (1.13-1.32)	3.26E-07	0.28	0.98 (0.85-1.12)	0.763	1.10 (0.89-1.37)	3.78E-01
7	rs10268314	87169669	ABCB1	C	0.11	0.79 (0.71-0.87)	4.39E-06	0.06	0.90 (0.70-1.16)	0.414	0.80 (0.73-0.89)	8.56E-06
7	rs6961624	95037661	PON2	C	0.28	0.85 (0.79-0.91)	7.18E-06	0.43	0.96 (0.84- 1.09)	0.496	0.89 (0.79-1.00)	4.89E-02
9	rs2033541	18789352	ADAMTSL1	A	0.28	0.83 (0.77-0.89)	1.64E-07	0.23	0.90 (0.77-1.04)	0.145	0.84 (0.79-0.90)	1.67E-07
9	rs4149283	107626189	ABCA1	T	0.03	0.63 (0.52-0.75)	5.80E-07	0.04	0.89 (0.63-1.25)	0.503	0.73 (0.52-1.01)	5.92E-02
9	rs7035023	133797557	FIBCD1	C	0.21	0.83 (0.77-0.90)	2.27E-06	0.21	1.01 (0.87-1.17)	0.918	0.90 (0.75-1.09)	3.01E-01
10	rs11593057	14887979	HSPA14	T	0.15	0.81 (0.74-0.88)	3.31E-06	0.14	0.95 (0.80-1.14)	0.602	0.86 (0.74-1.01)	6.02E-02
10	rs564281	29441347	-	T	0.44	1.16 (1.09-1.24)	9.41E-06	0.48	1.052 (0.93-1.19)	0.431	1.12 (1.02-1.23)	1.44E-02
10	rs7081193	128074225	ADAM12	C	0.07	0.75 (0.66-0.85)	8.04E-06	0.07	1.172 (0.93-1.48)	0.182	0.93 (0.60-1.43)	7.33E-01

In-silico replication in stage 2 and meta-analysis of the two stages.

OR and P-values are obtained from logistic regressions adjusted for birth year, sex and 3 MSC’s or from random effect meta-analysis