A novel approach to minimize false discovery rate in genome-wide data analysis

BMC Systems Biology

Table 2 Numbers of detected significant genes under FDR cut-off = 0.05

Dataset	miFDR	SAM	BH - t-test	Storey - t-test	BH - ranksum	Storey - ranksum
GDS1517*	610	546	20	29	0	0
GDS2154	684	292	150	300	0	0
GDS2414	322	286	102	115	0	0
GDS2470	104	58	4	4	0	0
GDS2552	787	741	245	508	0	0
GDS2765	177	112	10	20	0	0
GDS2778	734	701	57	108	0	13
GDS3087	74	15	2	4	0	0
GDS3132	453	420	163	205	0	0
GDS3295**	342	267	149	319	0	0
GDS3395	463	425	98	98	210	56
GDS3407***	283	241	1	1	0	0
GDS3518	450	420	23	43	0	0
GDS3663	419	235	0	0	0	0

Numbers of detected significant genes under FDR cut-off = 0.05. Three out of total 14 datasets have more than two classes. In each of those datasets, we select two classes as the following. *GDS1517: wild type/control (5 samples) versus wild type/low fat, high carbohydrate (5 samples). **GDS3295: GV oocyte/66 weeks (4 samples) versus GV oocyte/6 weeks (4 samples). ***GDS3407: wild type/control (4 samples) versus wild type/PFOA (4 samples).

ISSN: 1752-0509