Table 2.

Additive model: SNPs providing the strongest association results (p < 0.0001)

#	Gene regiona	Chr	SNP	Minor allele	Positionb	MAF case	MAF control	Odds ratioc	p value	Meta-analysis p valued
1	GAK/DGKQ	4	rs1564282	T	842313	0.131	0.087	1.70	6.0 × 10−6	6.7 × 10−7
			rs11248051	T	848332	0.132	0.087	1.70	5.2 × 10−6	.
			rs11248060	T	954359	0.145	0.097	1.69	3.4 × 10−6	2.5 × 10−7
2	COX6CP2/PTPN1	20	rs4811072	G	48519524	0.291	0.238	1.40	6.5 × 10−5	4.7 × 10−4
			rs1997791	G	48529835	0.297	0.238	1.43	1.9 × 10−5	5.9 × 10−5
3	LOC729075	4	rs2654735	C	112618062	0.391	0.461	0.75	9.0 × 10−5	1.3 × 10−3
			rs1806506	A	112686700	0.386	0.459	0.74	3.7 × 10−5	6.3 × 10−4
			rs11729080	A	112723321	0.135	0.187	0.66	3.3 × 10−5	1.8 × 10−2
4	LOC727725/ZMAT4	8	rs4736788	T	40947586	0.223	0.276	0.70	4.9 × 10−5	9.9 × 10−4
			rs10094981	C	40950451	0.223	0.276	0.70	4.8 × 10−5	9.7 × 10−4
5	HRNBP3	17	rs898528	T	74678398	0.296	0.368	0.74	4.9 × 10−5	1.7 × 10−4
6	LAMP1	13	rs12871648	C	113018663	0.376	0.316	1.36	5.0 × 10−5	9.4 × 10−4
7	LTBP1	2	rs4670322	G	33309246	0.323	0.256	1.38	5.1 × 10−5	2.0 × 10−3
8	Gene desert	10	rs11592212	C	110407383	0.085	0.052	1.80	5.2 × 10−5	6.5 × 10−3
9	SNCA/GPRIN3/MMRN1	4	rs4106153	C	90463499	0.167	0.219	0.70	9.2 × 10−5	1.1 × 10−3
			rs1504489	T	90477611	0.362	0.424	0.75	8.4 × 10−5	5.1 × 10−3
			rs356229	G	90825620	0.435	0.369	1.35	5.5 × 10−5	3.5 × 10−4
			rs356188	G	90910560	0.177	0.225	0.70	8.4 × 10−5	3.5 × 10−4
			rs3775478	G	91061863	0.102	0.069	1.69	6.1 × 10−5	1.6 × 10−4
10	PRDM13/MCHR2	6	rs4431442	G	100320236	0.322	0.262	1.39	5.6 × 10−5	3.2 × 10−3
11	VPS8	3	rs10937194	G	186201412	0.192	0.241	0.70	5.9 × 10−5	6.5 × 10−4
12	CGRRF1/SAMD4A	14	rs4901519	C	54088930	0.115	0.152	0.65	7.6 × 10−5	1.3 × 10−4
13	C17orf69/PLEKHM1/MAPT	17	rs11012	A	40869224	0.143	0.196	0.68	8.8 × 10−5	4.8 × 10−5
			rs1724425	T	41137530	0.387	0.449	0.75	7.8 × 10−5	8.2 × 10−5
14	LEKR1	3	rs12638253	C	158108785	0.447	0.524	0.75	8.3 × 10−5	5.0 × 10−4
15	POU6F2	7	rs9655034	T	39258636	0.483	0.414	1.33	8.8 × 10−5	5.1 × 10−4
16	TMEM108	3	rs1197313	T	134583142	0.393	0.451	0.75	8.9 × 10−5	3.8 × 10−4
17	LOC728328/PCTK2	12	rs7312607	C	95350301	0.487	0.434	1.33	9.3 × 10−5	.
18	FGF12	3	rs9859577	T	193571219	0.125	0.172	0.67	9.9 × 10−5	.
19	LOC652429/TMEM132B	12	rs2108521	C	124901417	0.219	0.271	0.72	1.0 × 10−4	4.4 × 10−4

Bold indicates entries where results from the meta-analysis had smaller p values than the initial results from this study, a period (.) indicates that the marker was not genotyped in the Fung et al. study, a “gene desert” is defined here as being more than 500 kb from any gene listed in RefSeq

^aGenes taken from the NCBI mRNA reference sequences collection (RefSeq)

^bFrom NCBI Build 36 reference

^cOdds ratios were computed for the minor allele

^dMeta-analysis with Fung et al.