Table 1. List of SNPs that show associations with increase risk of HLA-DQB1*06:02 negative EHS in the Japanese population.

CHR	SNP	Risk	RAF		Allelic				Dominant				Recessive				P min	Nearby Gene
		Allele	Case	Control	P-values	OR	L95	U95	P-values	OR	L95	U95	P-values	OR	L95	U95
2	rs16826005	G	0.472	0.319	3.97E-06	1.89	1.43	2.50	7.51E-03	1.74	1.16	2.62	1.02E-07	3.52	2.17	5.70	1.02E-07	NCKAP5
2	rs12471007* #	C	0.456	0.312	1.33E-05	1.86	1.41	2.46	1.86E-02	1.72	1.15	2.56	1.09E-07	4.11	2.55	6.60	1.09E-07	NCKAP5
15	rs11854769*	T	0.316	0.177	6.69E-07	2.27	1.64	3.14	7.15E-06	2.43	1.64	3.59	3.61E-04	4.07	1.78	9.31	6.69E-07	SPRED1
15	rs2174009	C	0.335	0.193	9.34E-07	2.24	1.62	3.10	1.02E-05	2.40	1.62	3.56	2.87E-04	3.90	1.78	8.56	9.34E-07	SPRED1
15	rs16966389	G	0.804	0.642	7.52E-07	2.28	1.63	3.20	6.56E-07	2.73	1.82	4.10	1.07E-02	2.91	1.24	6.86	6.56E-07	SPRED1
2	rs359268	C	0.584	0.431	1.16E-05	1.89	1.42	2.51	1.47E-02	1.79	1.12	2.88	1.00E-06	2.81	1.84	4.30	1.00E-06	BCL11A
15	rs2134333	A	0.332	0.194	1.99E-06	2.19	1.58	3.02	2.05E-05	2.32	1.57	3.44	3.52E-04	3.83	1.75	8.40	1.99E-06	SPRED1
5	rs7725217	C	0.352	0.223	1.96E-05	2.00	1.46	2.74	1.08E-06	2.66	1.78	3.98	4.08E-01	1.41	0.62	3.19	1.08E-06	TAS2R1
9	rs10988217*	G	0.320	0.233	4.05E-03	1.52	1.13	2.04	2.55E-01	1.25	0.85	1.85	3.43E-06	3.85	2.11	7.04	3.43E-06	PPP2R4/CRAT
2	rs2043234	T	0.359	0.224	8.22E-06	1.95	1.45	2.64	1.15E-03	1.91	1.29	2.83	4.46E-06	4.05	2.14	7.66	4.46E-06	NCKAP5

Notes.

RAF, risk allele frequency; OR, odd ratio; L95, U95, lower and upper confidence limits; P_min, minimum P-value among three genetic models; NA: not applicable.

Recessive model is calculated under risk allele homozygotes versus (heterozygous and non-risk homozygotes).

Dominant model is calculated under (risk allele homozygotes and heterozygotes) versus non-risk homozygotes.

^*SNP count was reconfirmed by TaqMan platform.

^#SNP count adjusted for TaqMan platform.

Peta odd ratio was used to calculate odd ratio for any contingency column with counting of 0.