Genetic Factors of Autoimmune Thyroid Diseases in Japanese

Table 1

PTPN22 haplotype structure and frequencies^a.

	SNP ID					Haplotype comparison^b
Haplotype	1	2	3	4	5	AITD	GD	HT	Controls	AITD versus Controls 𝑃 value	GD versus Controls 𝑃 value	HT versus Controls 𝑃 value
1	C	T	T	G	A	0.59	0.59	0.59	0.60	0.69	0.75	0.69
2	C	C	T	G	C	0.20	0.20	0.20	0.17	0.24	0.29	0.28
3	C	C	C	A	A	0.13	0.13	0.13	0.12	0.54	0.66	0.47
4	T	C	C	G	A	0.067	0.066	0.070	0.060	0.63	0.72	0.61
5	C	C	T	G	A	0.013	0.017	0.0061	0.051	<0.0001	<0.0001	0.0004

^aThe program, SNPAlyze ver. 7.0 Standard, was used to estimate common (frequencies > 0.01) haplotypes for the five SNPs genotyped.
^bEach haplotype was compared with the other haplotypes combined.
SNP: single nucleotide polymorphism; AITD: autoimmune thyroid disease; GD: Graves’ disease; HT: Hashimoto’s thyroiditis.