. Author manuscript; available in PMC: 2014 May 1.

Published in final edited form as: Nat Genet. 2013 Sep 29;45(11):1353–1360. doi: 10.1038/ng.2770

Table 3.

The 18 variants from the 8 regions with consistent high resolution fine-mapping

Gene	SNP	Chr	Position^a	Posterior	GERP	Functional Annotation^b
TNFSF14	rs1077667	19	6668972	0.74	-3.89	intronic, TFBS / DNase1 peak, correlates with serum levels of TNFSF14
IL2RA	rs2104286	10	6099045	0.93	-0.47	intronic, correlates with soluble IL-2RA levels
TNFRSF1A	rs1800693	12	6440009	0.69	2.53	intronic, causes splicing defect and truncated soluble TNFRSF1A
TNFRSF1A	rs4149580^c	12	6446990	0.10	2.06	intronic
IL12A	rs1014486	3	159691112	0.67	0.24	-
CD6	rs34383631	11	60793330	0.20	1.66	-
	rs4939490^c	11	60793651	0.14	-0.53	-
	rs4939491^c	11	60793722	0.14	-0.37	-
	rs4939489	11	60793648	0.10	3.25	-
TNFAIP3	rs632574	6	137959118	0.27	-1.15	-
	rs498549^c	6	137984935	0.20	0.52	-
	rs651973	6	137996134	0.17	2.41	downstream of RP11-95M15.1 lincRNA gene
	rs536331	6	137993049	0.15	0.19	upstream of RP11-95M15.1 lincRNA gene
CD58	rs6677309	1	117080166	0.21	-1.18	intronic, TFBS / DNase1 peak
	rs35275493^c	1	117095502	0.24	0.75	intronic (insertion)
	rs10754324^c	1	117093035	0.22	0.32	intronic
	rs1335532	1	117100957	0.17	-1.32	intronic
STAT4	rs78712823	2	191958581	0.59	-3.98	intronic

All listed variants have posterior ≥ 0.1 in regions where ≤ 5 variants explain the top 50% of the posterior and the top SNP from the frequentist analysis lives in the 90% confidence interval, ordered by maximum posterior.

Posterior denotes the posterior probability of any variant driving association. GERP denotes Genomic Evolutionary Rate Profiling.

Position is based on human genome 19 and dbSNP 137.

Functional data from VEP, eQTL browser, Fairfax et al. (2012), pubmed searches, 1000G. Dash indicates intergenic with no additional annotation. Variants without annotation are intergenic and have no reported regulatory consequence.

Imputed variant.