Table 3.

Association study of type 1 diabetes associated SNPs in 2,200 individuals with Graves' disease and 3,600 geographically-matched controls

Chr	Gene region	SNP	MAF	OR (95% c.i.)	P (1-d.f. test)
2q11	AFF3–LOC150577	rs9653442 A>G	0.467	1.10 (1.01–1.19)	0.0221
2q23	IFIH1	rs1990760 A>G	0.398	0.91 (0.84–0.99)	0.0265
4q27	Tenr–IL2	rs17388568 G>A	0.293	0.87 (0.79–0.95)	1.81 × 10−3
5p13	IL7R	rs6897932 G>A	0.268	0.96 (0.88–1.05)	0.363
5p13	CAPSL	rs1445898 G>A	0.446	0.88 (0.81–0.96)	2.72 × 10−3
10p12	NRP1	rs2666236 G>A	0.421	1.03 (0.95–1.12)	0.450
12q13	ERBB3	rs2292239 C>A	0.352	0.99 (0.92–1.08)	0.899
12q24	C12orf30	rs17696736 A>G	0.438	1.04 (0.96–1.13)	0.332
12q24	SH2B3	rs3184504 A>G	0.488	1.07 (0.98–1.16)	0.127
16p13	KIAA0350	rs12708716 A>G	0.359	0.97 (0.89–1.06)	0.497
18p11	PTPN2	rs1893217 A>G	0.167	1.13 (1.02–1.25)	0.0251
18p11	PTPN2	rs478582 A>G	0.460	0.91 (0.84–0.99)	0.0239
18q22	CD226	rs763361 G>A	0.465	1.10 (1.02–1.20)	0.0182
11p15	INS	rs689 A>T	0.300	0.95 (0.87–1.05)	0.305

MAF = minor allele frequency in control samples, OR = odds ratio for minor allele, 95% c.i. = 95% confidence interval. We can conclude that these potential associations with Graves' disease are not due to the presence of T1D in a few individuals with Graves' disease, because some SNPs (for example, rs12708716 and the very strongly T1D associated SNP rs689 in INS) do not show any evidence of association with disease in these individuals with Graves' disease. We note that for the Tenr–IL2 region SNP rs17388568, the minor allele is associated with reduced risk in Graves' disease but with susceptibility in T1D.