. 2011 Oct 7;89(4):496–506. doi: 10.1016/j.ajhg.2011.09.002

Table 1.

Summary of Autoimmune Disease Association to 22 ImmGen Tissues

Immune Tissues	SLE		Crohn Disease		Rheumatoid Arthritis
Immune Tissues	Unconditional	Adjusting for Transitional B Subtypes	Unconditional	Adjusting for DC Subtypes	Unconditional	Adjusting for Subtypes of CD4+ Effector Memory T Cells
B.T1.Sp	0.00018	–	0.060	0.12	0.0032	0.0050
B.T2.Sp	0.000013	–	0.013	0.029	0.00041	0.0015
B.T3.Sp	0.0000059	–	0.030	0.036	0.00072	0.0055
B.Fo.PC	0.000013	0.23	0.06	0.04	0.0024	0.0010
B.Fo.Sp	0.000022	0.11	0.0071	0.014	0.00032	0.0015
B.FrF.BM	0.000023	0.82	0.031	0.021	0.0025	0.0025
CD19Control	0.000013	0.70	0.011	0.026	0.00099	0.0025
T.4Mem.LN	0.024	0.18	0.018	0.012	<0.0000010	–
T.4Mem.Sp	0.080	0.27	0.000061	0.00075	<0.0000010	–
T.4Mem44h62l.LN	0.021	0.05	0.00037	0.009	<0.0000010	–
T.4Mem44h62l.Sp	0.062	0.14	0.00087	0.032	<0.0000010	–
T.4.Pa.BDC	0.0073	0.019	0.00032	0.00025	0.0000059	0.017
T.4.Sp.B16	0.0016	0.0045	0.010	0.0090	0.0000078	0.0085
T.4int8+.Th	0.05	0.33	0.00083	0.0015	0.00017	0.18
T.4Mem.Tbet..Sp	0.61	0.75	0.020	0.043	0.00021	0.70
T.4Mem.Tbet+.Sp	0.27	0.43	0.023	0.068	0.000012	0.46
T.4SP69+.Th	0.08	0.23	0.0094	0.013	0.00016	0.17
T.8Mem.Tbet+.Sp	0.27	0.58	0.041	0.10	0.00018	0.64
DC.103-11b+.PolyIC.Lu	0.013	0.026	0.000016	-	0.0094	0.021
DC.103+11b-.PolyIC.Lu	0.043	0.062	0.000069	-	0.13	0.090
NKT.4+.Lv	0.16	0.29	0.00038	0.019	0.00012	0.010
NK.H-.MCMV1.Sp	0.018	0.0061	0.00014	0.0073	0.076	0.33

Here, we list all 22 out of 223 tissues from ImmGen that obtained nominally significant association (p < 0.01) in at least one of the three autoimmune phenotypes tested. For each disease, we listed results of our analysis without any conditioning, as well as results after removing the contributions of the most significant tissues. For each tissue, we listed an association significance p value for each phenotype.