Detecting disease-associated genes with confounding variable adjustment and the impact on genomic meta-analysis: With application to major depressive disorder

Table 2 Number of detected DE genes using different single study analysis methods (PT, RIM_ALL, RIM_minP and RIM_BIC) in the five individual studies and by two meta-analysis methods (Fisher and maxP)

method	FDR	Individual analysis					Meta-analysis (3ACC+2AMY)
		MD1_ACC	MD2_ACC	MD3_ACC	MD1_AMY	MD3_AMY	Fisher	maxP
RIM_minP	FDR = 0.05	0	0	2	0	0	0	0
	FDR = 0.1	0	0	2	0	725	109	99
	FDR = 0.15	0	0	5	0	1442	810	683
RIM_BIC	FDR = 0.05	0	0	0	0	101	0	0
	FDR = 0.1	0	0	1	0	506	0	0
	FDR = 0.15	0	0	6	0	873	38	0
RIM_ALL	FDR = 0.05	0	0	0	0	0	0	1
	FDR = 0.1	0	3	0	0	1	0	1
	FDR = 0.15	0	3	1	0	1	0	1
PT	FDR = 0.05	0	0	0	0	0	0	0
	FDR = 0.1	0	0	0	0	0	0	0
	FDR = 0.15	1	1	0	0	0	0	0

ISSN: 1471-2105