BMC Research Notes

Table 3 Power indication from CD dataset

From: Comparisons of seven algorithms for pathway analysis using the WTCCC Crohn's Disease dataset

	All candidate pathways			IL12-IL23 pathway
Algorithms	No. of sign¹	No. of known²	Hyper-test³	p-value	FDR
GATES-Simes	4	3	1.20e-4	0.009	0.154
GATES-Hyper	0	0	--	0.005	0.493
Aligator	4	2	0.006	0.595	1
GRASS	41	3	0.146	0.031	0.158
GSEAforGWAS	10	2	0.04	0.004	0.118
PLINK-Ave	40	8	1.77e-5	0.002	0.043
PLINK-Max	0	0	--	0.006	0.155

Notes: 1, significance was defined as FDR for individual pathway smaller than 0.05; 2, no. of overlapping pathways between significant pathways in this study and previous known pathways for CD; 3, hyper-geometric test.

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ISSN: 1756-0500

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