DNA Methylation Near DLGAP2 May Mediate the Relationship between Family History of Type 1 Diabetes and Type 1 Diabetes Risk

Table 4

Association between DNA methylation and nearby cis-gene expression in DAISY subjects.

Probe	Pos	Ensembl ID	Gene symbol	Gene start	Gene end	Strand	Biotype	Beta	P-value
Single probe analysis
cg11192059	1650035	ENSG00000104728	ARHGEF10	1772142	1906807	1	Protein coding	1.49	0.019
cg27351978	1650172	ENSG00000254207	RP11-43A14.1	675188	675877	−1	Sense intronic	0.36	0.036
cg16922753	1113291	ENSG00000272240	RP5-855D21.1	184347	184887	−1	Antisense	0.3	0.010
cg00565786	1012465	ENSG00000104728	ARHGEF10	1772142	1906807	1	Protein coding	1.5	0.019
cg00565786	1012465	ENSG00000172748	ZNF596	182137	197342	1	Protein coding	1.21	0.050
cg00565786	1012465	ENSG00000272240	RP5-855D21.1	184347	184887	−1	Antisense	3.62	0.007
cg02946697	1273833	ENSG00000254207	RP11-43A14.1	675188	675877	−1	Sense intronic	0.24	0.002
cg08285446	1273856	ENSG00000104714	ERICH1	564746	688106	−1	Protein coding	0.92	0.032
cg24513387	1273604	ENSG00000254207	RP11-43A14.1	675188	675877	−1	Sense intronic	0.34	0.026
Regional analysis
DMR PC1	1273706	ENSG00000198010	DLGAP2	1449532	1656642	1	Protein coding	1.47	0.023
DMR PC1	1273706	ENSG00000253764	RP11-439C15.4	1920736	1922803	−1	lincRNA	2.21	0.029

Pos, location of probe on chromosome 8, for the DMR, represents midpoint of the entire region. Biotype, gene type based on ensemble annotation. Beta, beta coefficient from the linear regression model, represents fold change in gene expression per 1 standard deviation increase in methylation M-value, values <1 represent negative association between methylation and gene expression, values >1 represent positive association between methylation and gene expression.