. Author manuscript; available in PMC: 2017 Apr 1.

Published in final edited form as: J Immunol. 2016 Feb 24;196(7):3043–3053. doi: 10.4049/jimmunol.1502056

Table III.

Cis-genes associated with 24 T1D SNPs with minimum False Discovery Rate, FDR P < 0.001.

ID	T1D SNPs (Effect allele)	Gene	EBV-B Basal	EBV-B PMA	CD4+	CD8+
6	rs2165738 (C)	ADCY3	↓^**	↓^***	↓^****	ns
7	rs363609 (C)	INO80B	ns	↓^****	ns	ns
9	rs6543134 (C)	IL18R1	↓^***	↓^****	ns	ns
12	rs3731865 (C)	SLC11A1	ns	ns	↑^***	ns
17	rs56297233 (T)	LYRM2	ns	↑^***	ns	ns
18	rs9388489 (C)	C6orf173	ns	ns	↓^**	↓^***
19	rs10499194 (C)	IFNGR1	↑^****	ns	ns	ns
21	rs7804356 (T)	SKAP2	↓^***	↓^***	↓^***	↓^**
22	rs10272724 (T)	IKZF1	↑^****	↑^*	↑^****	↑^**
27	rs10509540 (T)	C10orf59	ns	ns	↑^***	ns
29	rs3764021 (T)	CLEC2D	↑^****	↑^****	ns	ns
29	rs10466829 (T)	CLECL1	ns	ns	↓^****	↓^****
30	rs705704 (T)	SUOX	↓^**	ns	↓^****	↓^*
30	rs2292239 (T)	ERBB3	ns	ns	ns	↓^****
32	rs10877012 (C)	FAM119B	↓^****	↓^****	↓^****	↓^****
		TSFM	↑^****	↑^*	ns	ns
		XRCC6BP1	↑^**	↑^***	ns	ns
39	rs17574546 (C)	RASGRP1	↑^****	↑^***	ns	ns
40	rs3825932 (C)	CTSH	↑^****	↑^****	ns	ns
41	rs416603 (T)	C16orf75	↓^****	↓^****	↑^****	↑^**
42	rs4788084 (C)	LOC728734	↓^****	↓^****	↓^****	↓^****
		SPNS1	↓^****	ns	ns	↓^*
		TUFM	ns	ns	↓^***	ns
45	rs2290400 (T)	ORMDL3	↑^****	↑^****	↑^***	↑^****
		GSDMB	↑^****	↑^****	↑^****	↑^****
		IKZF3	↓^****	↓^****	↓^**	↓^***
		ZPBP2	↓^****	↓^****	ns	ns
46	rs7221109 (C)	SMARCE1	↓^****	↓^****	↓^****	↓^****
48	rs763361 (T)	CD226	↓^****	↓^****	ns	ns
53	rs11203203 (T)	UBASH3A	↑^***	ns	ns	ns
54	rs5753037 (T)	MTMR3	↓^****	↓^****	ns	ns

ID: T1D loci identifiers as in Table I.

Following notations are used: FDR: **** P < 0.0001, *** P < 0.001, ** P < 0.01, * P < 0.05, ns – not significant, ↓ risk (effect) allele reduces expression, ↑ risk (effect) allele increases expression (determined using beta coefficient)