Table 1.

Identified risk loci for RA with less than three credible SNPs and the cell type in which they are active

Locus	Chr	Number of credible SNPs (> posterior prior 0.001)	Posterior probability top SNP	Total posterior probability top 3 SNPs	SNP category	Number of SNPs in 30% of FLS enhancers (posterior > 0.001)	Number of SNPs in 30% of T cell enhancers (posterior > 0.001)	Number of SNPs in 30% of B cell enhancers (posterior> 0.001)	FLS, T, B, ALL, NONE (based on posteriors of SNPs in enhancers)	Top posterior rs numbers
4	chr1	10	0.53	0.94	1	1	0	0	FLS	rs4839319, rs4839318, rs77227025
5	chr1	2	0.91	0.99	1	0	0	0	B CELL	rs6679677, rs2476601
7	chr1	10	0.25	0.62	1	0	0	0	NONE	rs624988, rs771587, rs12137270, rs12405671, rs11586238
10	chr2	9	0.21	0.59	1	2	3	2	ALL	rs10175798, rs10173253, rs906868, rs7579944, rs1355208
17	chr2	4	0.43	0.92	1	0	2	0	T CELL	rs231724, rs231723, rs231775
20	chr3	13	0.34	0.82	1	4	2	3	ALL	rs73081554, rs185407974, rs180977001, rs35677470, rs114584537
24	chr5	1	1	1	1	0	1	0	T CELL	rs7731626
29	chr6	8	0.23	0.67	1	0	0	0	NONE	rs17264332, rs11757201, rs6920220, rs6927172
30	chr6	15	0.42	0.86	1	2	5	3	NONE	rs58721818, rs61117627
32	chr6	9	0.32	0.71	1	0	5	0	T CELL, B CELL	rs1571878, rs3093017, rs10946216
40	chr9	3	0.37	0.98	1	0	0	0	NONE	rs11574914, rs2812378, rs10972201
42	chr10	6	0.73	0.87	1	0	0	0	T CELL	rs706778, rs10795791
44	chr10	10	0.21	0.49	1	0	10	0	T CELL	rs537544, rs568727, rs570613 , rs570730, rs7897792
46	chr10	10	0.37	0.73	1	9	1	0	ALL	rs12764378, rs71508903, rs77509998
60	chr15	5	0.26	0.74	1	0	0	0	NONE	rs919053, rs8026898, rs7170107, rs16953656, rs8043362
62	chr16	9	0.29	0.82	1	0	0	0	B CELL	rs13330176, rs2139492, rs2139493
66	chr19	2	0.6	1	1	0	0	0	NONE	rs74956615, rs34536443
70	chr21	19	0.56	0.93	1	3	1	0	FLS	rs8133843, rs8129030, rs9979383
73	chr22	9	0.29	0.74	1	0	0	2	B CELL	rs2069235, rs909685, rs9611155
1	chr1	81	0.29	0.38	2	1	1	1	NONE	rs187786174, rs60733400, rs876938
2	chr1	13	0.29	0.52	2	0	0	0	NONE	rs2240336, rs12737739, rs13375202
3	chr1	36	0.43	0.51	2	1	0	0	FLS	rs28411352, rs28489009, rs2306627
6	chr1	29	0.22	0.42	2	0	2	4	B CELL	rs1217404, rs2476604, rs1217420
11	chr2	13	0.18	0.4	2	1	1	1	ALL	rs34695944, rs56095903, rs67574266, rs13031237, rs13031721
13	chr2	17	0.27	0.63	2	0	0	1	NONE	rs9653442, rs6712515, rs11676922, rs1160542, rs10865035
18	chr3	63	0.27	0.55	2	0	0	0	NONE	rs4452313, rs4416363 , rs7617779
19	chr3	11	0.21	0.48	2	1	1	0	T CELL, B CELL	rs9310852, rs4680838, rs9880772, rs1353286
22	chr4	49	0.2	0.29	2	0	0	0	NONE	rs7660626, rs13142500, rs6831973
31	chr6	13	0.17	0.49	2	0	2	2	B CELL	rs2451258, rs2485363, rs654690 , rs1994564, rs212389
33	chr7	47	0.24	0.47	2	3	1	2	ALL	rs186735625, rs57585717, rs2158624
36	chr8	20	0.08	0.23	2	3	1	0	FLS, B CELL	rs2736337
38	chr8	11	0.15	0.39	2	1	0	0	FLS	rs678347, rs507201, rs657425
43	chr10	17	0.27	0.45	2	0	3	2	T CELL, B CELL	rs947474, rs10796038, rs10796040
45	chr10	44	0.36	0.54	2	0	2	0	NONE	rs12413578, rs144536148, rs186856025
47	chr11	59	0.47	0.53	2	4	2	5	NONE	rs12574838, rs331463
51	chr11	17	0.12	0.36	2	2	8	0	NONE	rs4936059, rs11221402, rs7106876
54	chr12	22	0.22	0.51	2	0	1	1	T CELL, B CELL	rs10774624, rs3184504, rs7310615
56	chr14	12	0.13	0.37	2	3	2	0	ALL	rs1950897, rs911263, rs1885013, rs2104047, rs3784099
57	chr14	21	0.22	0.45	2	7	10	6	ALL	rs7146217, rs36045050, rs11158764
58	chr15	17	0.25	0.48	2	1	12	2	T CELL, B CELL	rs8032939, rs8043085, rs4924273
61	chr16	18	0.08	0.23	2	0	0	0	NONE	rs11075010, rs1579258, rs4584833
63	chr17	39	0.49	0.67	2	0	0	6	NONE	rs7224929, rs58483057, rs2071456
67	chr20	11	0.32	0.59	2	1	1	1	ALL	rs4239702, rs4810485, rs1883832
71	chr21	37	0.32	0.6	2	0	26	0	T CELL	rs1893592, rs225433, rs11203203
72	chr22	103	0.24	0.26	2	9	20	22	T CELL, B CELL	rs11089637, rs11089620, rs5754387