Table 2.

Case-control analysis of autoimmunity associated variants and JIA subtypes

Locus	Variant	Phenotype	N	MAF	OR	95%CI	p
TNFAIP3	rs10499194	Controls	621	0.29
		All JIA	433	0.23	0.75	0.61-0.91	0.004
		Oligoarticular	198	0.22	0.71	0.55-0.93	0.012
		All poly	131	0.23	0.75	0.55-1.02	0.065
		Polyarticular	98	0.24	0.75	0.53-1.07	0.116
		Polyarticular RF+	33	0.23	0.72	0.40-1.30	0.279
		ERA	37	0.19	0.57	0.32-1.04	0.064
		Systemic	35	0.30	1.05	0.62-1.78	0.844
		Other	32	0.26	0.82	0.46-1.46	0.500
TNFAIP3	rs6920220	Controls	619	0.19
		All JIA	441	0.23	1.30	1.05-1.61	0.017
		Oligoarticular	199	0.24	1.39	1.05-1.82	0.019
		All poly	133	0.23	1.34	0.97-1.84	0.072
		Polyarticular	99	0.23	1.33	0.93-1.92	0.116
		Polyarticular RF+	34	0.24	1.35	0.76-2.04	0.300
		ERA	40	0.20	1.10	0.63-1.92	0.738
		Systemic	36	0.19	1.06	0.58-1.92	0.841
		Other	33	0.22	1.19	0.65-2.17	0.581
C12orf30	Rs17696736	Controls	631	0.41
		All JIA	443	0.45	1.20	1.01-1.43	0.041
		Oligoarticular	201	0.47	1.28	1.02-1.60	0.033
		All poly	133	0.44	1.17	0.90-1.53	0.244
		Polyarticular	98	0.44	1.17	0.87-1.59	0.302
		Polyarticular RF+	35	0.44	1.17	0.72-1.90	0.529
		ERA	40	0.39	0.93	0.58-1.48	0.758
		Systemic	36	0.42	1.05	0.65-1.70	0.843
		Other	33	0.47	1.38	0.84-2.27	0.198
STAT4	rs7574865	Controls	641	0.28
		All JIA	443	0.28	1.24	1.02-1.5	0.031
		Oligoarticular	201	0.26	1.09	0.85-1.42	0.485
		All polyarticular	134	0.32	1.50	1.13-2.00	0.005
		Polyarticular	99	0.31	1.45	1.04-2.00	0.026
		Polyarticular RF+	35	0.34	1.66	1.0-2.76	0.050
		ERA	39	0.29	1.33	0.80-2.20	0.268
		Systemic	36	0.26	1.14	0.66-1.95	0.637
		Other	33	0.28	1.19	0.68-2.08	0.538