Extended Data Table 2. Colocalization with eQTL.

The number of IBD credible sets that colocalize with eQTLs using the naïve, frequentist and Bayesian approaches. Significant observations are boldfaced. ‘Number of credible sets’ reports the number of credible sets that have MAF above the cut-off.

Tissue/cell line	Method	Overlaps observed	Overlaps Expected	P value	Dataset	MAF cut-off	Number of credible sets
whole blood	Naïve	3	3.7	0.746	GODOT	0.005	113
whole blood		8	4.2	0.060	Westra	0.05	95
CD14 naïve		8	2.7	0.001	Fairfax	0.04	98
CD14 IFN stimulated		4	3.2	0.398	Fairfax	0.04	98
CD14 LPS 2h stimulated		1	2.1	0.869	Fairfax	0.04	98
CD14 LPS 24h stimulated		5	2.5	0.106	Fairfax	0.04	98
CD4		3	0.4	0.005	ULg	0.05	95
CD8		1	0.3	0.306	ULg	0.05	95
CD14		0	0.2	1.000	ULg	0.05	95
CD15		1	0.2	0.199	ULg	0.05	95
CD19		0	0.1	1.000	ULg	0.05	95
platelets		0	0.0	1.000	ULg	0.05	95
ileum		2	0.3	0.020	ULg	0.05	95
colon		1	0.2	0.202	ULg	0.05	95
rectum		1	0.2	0.189	ULg	0.05	95
CD4	Frequentist	6	1.9	0.013	ULg	0.05	95
CD8		3	1.5	0.186	ULg	0.05	95
CD14		4	2.3	0.180	ULg	0.05	95
CD15		1	1.8	0.863	ULg	0.05	95
CD19		0	1.4	1.000	ULg	0.05	95
platelets		0	0.1	1.000	ULg	0.05	95
ileum		4	1.1	0.018	ULg	0.05	95
colon		3	1.7	0.216	ULg	0.05	95
rectum		4	1.4	0.039	ULg	0.05	95
CD4	Bayesian	4	1.0	0.010	ULg	0.05	95
CD8		1	0.8	0.566	ULg	0.05	95
CD14		1	0.9	0.595	ULg	0.05	95
CD15		0	0.7	1.000	ULg	0.05	95
CD19		0	0.6	1.000	ULg	0.05	95
platelets		0	0.1	1.000	ULg	0.05	95
ileum		2	0.4	0.069	ULg	0.05	95
colon		3	0.8	0.040	ULg	0.05	95
rectum		2	0.6	0.124	ULg	0.05	95