Table 1.

. P-values of 17 KEGG pathways for the WTCCC CD GWAS data: each pathway with a P-value <0.00001 by at least one of the aSPUsPath, GATES-Simes and HYST tests using the 90 Hapmap CEU samples, 100 WTCCC controls or all WTCCC controls to estimate the SNP correlation matrices

		aSPUsPath			Gates-Simes			HYST
KEGG ID	Pathway Names	Hapmap	WTCCC (100)	WTCCC	Hapmap	WTCCC (100)	WTCCC	Hapmap	WTCCC (100)	WTCCC
hsa04060	cytokine-cytokine receptor interaction*	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001
hsa04630	Jak-STAT signaling pathway*	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001
hsa05131	shigellosis	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001	0.03301	0.02789	0.00113
hsa04621	NOD-like receptor signaling pathway*	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001	<0.00001	0.07082	0.05213	0.00624
hsa04660	T cell receptor signaling pathway*	<0.00001	<0.00001	<0.00001	0.00080	0.00080	0.00080	0.02838	0.01994	0.00019
hsa04972	pancreatic secretion	<0.00001	0.00006	0.00007	0.00072	0.00072	0.00072	0.05429	0.05058	0.00248
hsa04640	Hematopoietic cell lineage	<0.00001	0.00005	0.00008	0.11702	0.11702	0.11702	0.02266	0.01695	0.00023
hsa04520	Adherens junction	<0.00001	0.00007	0.00010	0.00056	0.00056	0.00056	0.16306	0.15241	0.05554
hsa05320	Autoimmune thyroid disease	<0.00001	0.00080	0.00067	0.00083	0.00116	0.00120	0.01234	0.00869	0.00260
hsa04310	Wnt signaling pathway	0.00005	<0.00001	<0.00001	0.00057	0.00056	0.00060	0.07684	0.06521	0.00311
hsa05330	allograft rejection	0.00007	0.00075	0.00033	0.00060	0.00077	0.00083	0.00007	0.00004	<0.00001
hsa04622	RIG-I-like receptor signaling pathway	0.00009	0.00006	0.00009	<0.00001	<0.00001	<0.00001	0.30171	0.29538	0.27116
hsa04062	chemokine signaling pathway*	0.00016	0.00013	<0.00001	0.00130	0.00130	0.00130	0.04102	0.03437	0.00044
hsa04940	type I diabetes mellitus	0.00024	0.00079	0.00060	0.00065	0.00093	0.00095	0.00081	0.00028	<0.00001
hsa04360	Axon guidance	0.00028	<0.00001	<0.00001	0.00093	0.00093	0.00093	0.06270	0.07261	0.00516
hsa04270	Vascular smooth muscle contraction	0.00043	0.00058	<0.00001	0.00085	0.00085	0.00085	0.06669	0.06365	0.00423
hsa05416	viral myocarditis	0.00097	0.00046	0.00020	0.00097	0.00147	0.00148	0.00241	0.00126	<0.00001

Asterisks (*) indicate positive control pathways.