Power and Stability Properties of Resampling-Based Multiple Testing Procedures with Applications to Gene Oncology Studies

Table 3

Comparisons of number of total discoveries for the resampling-based multiple testing procedures for the ovarian cancer example with 12,625 genes.

Resampling methods	Rejected number of hypothesis
	FWER controlled at 5%	FDR controlled at 5%
mt.maxT	0	0
mt.minP	0	0
ss.maxT	250	385
sd.maxT	407	397
ss.minP	1785	1649
sd.minP	1766	1706
sam		2

mt.maxT: permutation single-step maxT procedure; mt.minP: permutation single-step minP procedure; ss.maxT: bootstrap single-step maxT procedure; ss.minP: bootstrap single-step minP procedure; sd.maxT: bootstrap step-down maxT procedure; sd.minP: bootstrap step-down minP procedure; sam: the SAM procedure.