A distance difference matrix approach to identifying transcription factors that regulate differential gene expression

Table 3 TFBSs associated with differential up-regulation of p53 target genes

Identifier	P value	Q-value	Factor name	Reference
V.P300_01	0.001	0.032	P300	[69]
V.GATA1_01	0.000	0.032	GATA-1	[40]
V.CEBPA_01	0.001	0.032	C/EBP
V.CEBP_01	0.000	0.032	C/EBP
V.AP3_Q6	0.000	0.032	AP3
V.GATA2_01	0.004	0.047	GATA-2	[70]
V.CEBPB_01	0.004	0.047	C/EBP
V.HNF4_Q6	0.004	0.048	HNF4	[71]
V.CDPCR3HD_01	0.005	0.052	CDP CR3
V.STAT6_01	0.005	0.052	STAT6
V.CEBP_Q2	0.005	0.052	C/EBP
V.STAT5A_03	0.008	0.058	STAT5A	[41]
V.MYOGENIN_Q6	0.010	0.058	myogenin
V.POU1F1_Q6	0.011	0.063	POU1F1
V.STAT_Q6	0.011	0.063	STAT	[72]
V.GEN_INI3_B	0.013	0.063	GEN_INI
V.GEN_INI_B	0.012	0.063	GEN_INI
V.CEBP_Q3	0.013	0.064	C/EBP
V.GEN_INI2_B	0.015	0.069	GEN_INI
V.TTF1_Q6	0.016	0.073	TTF-1
V.OCT_Q6	0.017	0.074	Oct
V.HMGIY_Q3	0.018	0.074	HMG IY	[73]
V.CAP_01	0.019	0.077	cap
V.MYOD_Q6	0.020	0.078	MyoD
V.FAC1_01	0.020	0.078	FALZ
V.E2A_Q2	0.021	0.078	E2A	[74]
V.GATA1_02	0.022	0.081	GATA-1	[40]
V.E2A_Q6	0.023	0.081	E2A	[74]
V.HMGIY_Q6	0.026	0.088	HMG IY	[73]
V.IRF1_Q6	0.027	0.090	IRF
V.FOXD3_01	0.030	0.094	FOXD3
V.HNF3ALPHA_Q6	0.030	0.094	HNF-3alpha
V.E47_01	0.032	0.096	E47
V.BARBIE_01	0.032	0.096	Barbie box
V.HNF3B_01	0.033	0.097	HNF-3beta
V.HOXA3_01	0.034	0.097	HOXA3
V.HNF3_Q6	0.038	0.101	HNF-3
V.STAT4_01	0.040	0.102	STAT4

Transcription factors for which common TFBS associations are found in the promoters of down-regulated E2F target genes are indicated in bold. Results are sorted by Q-value.

ISSN: 1474-760X