Table 2.

CpGs with greatest DNAm differences and consistent direction in at least 6 of 7 disease-discordant MZ twin pairs

TargetID	UCSC REFGENE Name*	DNAm direction in cases for at least 6 of 7twin pairs	Average- Beta Difference	Mean (cases)	Mean (controls)
MHC region genes
cg18501647	PRRT1	Hyper	0.050	0.652	0.601
cg06526020	NUDT3	Hyper	0.043	0.621	0.577
cg00970279	HSPA1B	Hypo	−0.040	0.231	0.271
cg11502198	ABT1	Hypo	−0.037	0.125	0.162
cg13064679	TNXB	Hypo	−0.037	0.713	0.751
cg10365886	TNXB	Hypo	−0.037	0.520	0.557
cg20856330	RPP21	Hyper	0.036	0.252	0.215
cg01337207	TNXB	Hypo	−0.036	0.459	0.495
cg15319032	BTNL2	Hyper	0.036	0.826	0.790
cg06083200	PPP1R11	Hyper	0.035	0.469	0.434
Non-MHC, T1D-associated genes
cg08217526	C14orf64	Hyper	0.042	0.486	0.444
cg16413785	C14orf64	Hyper	0.034	0.591	0.557
cg09818385	BACH2;BACH2	Hypo	−0.028	0.647	0.675
cg11717189	INS-IGF2;IGF2	Hyper	0.028	0.437	0.410
cg26316423	IL2RA;IL2RA	Hypo	−0.027	0.676	0.703
cg03217729	CLEC16A	Hyper	0.026	0.285	0.259
cg17066529	BACH2;BACH2	Hypo	−0.024	0.837	0.861
cg12929678	CD226	Hyper	0.024	0.685	0.661
cg23905216	INS-IGF2;IGF2AS;IGF2	Hyper	0.024	0.255	0.231
cg09058293	SH2B3	Hyper	0.022	0.889	0.866
Epigenome
cg14464244	MAGI2	Hypo	−0.161	0.175	0.336
cg13600149	FANCC	Hyper	0.093	0.186	0.093
cg25340050	PCDHB16	Hyper	0.090	0.582	0.492
cg00758915	PCDHGA4;PCDHGA6;	Hyper	0.074	0.482	0.408
cg12109260	Non-Genic	Hyper	0.074	0.861	0.787
cg16579158	PCDHGA2;PCDHGA1;PCDHG	Hyper	0.072	0.585	0.513
cg15116095	PCDHA1;PCDHA1;PCDHA1	Hyper	0.071	0.665	0.594
cg12813768	SYCP1	Hyper	0.071	0.382	0.311
cg14989243	FILIP1	Hyper	0.070	0.548	0.478
cg05982271	CDKL2	Hypo	−0.069	0.212	0.281

These findings were restricted to CpGs that showed consistent hypo or hypermethylation in at least 6 of 7 disease-discordant MZ twin pairs.

^*Genes with multiple gene names for the UCSC reference gene indicates that the probe interrogating the CpG contains transcripts within multiple genes.