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Table 4 Over-represented transcription factor binding sites in genes that were differentially expressed after PI 3-kinase inhibition.

From: Phosphatidylinositol 3-kinase signaling in proliferating cells maintains an anti-apoptotic transcriptional program mediated by inhibition of FOXO and non-canonical activation of NFκB transcription factors

Transcription factor

TRANSFAC Matrix

TRANSFAC version

% Genes with site

p-value

Up-regulated genes

Forkhead family members

V$FOXJ2_01

8.4

29

0.004

 

V$HFH3_01

8.4

29

0.004

 

V$FOXO1_01

8.4

46

0.007

 

V$FOXO4_01

8.4

43

0.018

 

V$HFH1_01

11.1

57

0.001

 

V$FOXO1_01

11.1

71

0.004

 

V$FOXO3_01

11.1

75

0.004

 

V$FOXO1_02

11.1

71

0.006

 

V$HFH8_01

11.1

57

0.009

 

V$FOXJ2_01

11.1

43

0.016

Myc/Max

V$MYCMAX_B

8.4

39

0.013

 

V$MYCMAX_B

11.1

39

0.009

NF-Y

V$NFY_Q6

11.1

46

0.010

Down-regulated genes

NFκB

V$NFKAPPAB65_01

8.4

12

0.017

 

V$NFKAPPAB_01

11.1

27

0.014

HMGI(Y)

V$HMGIY_Q6

11.1

80

0.014

 

V$HMGIY_Q3

11.1

73

0.014

  1. The 3 kb regions upstream of the transcription start sites in the human and mouse orthologous sequences were analyzed with the Match algorithm using the MinSUM threshold and both TRANSFAC v8.4 and v11.1 in order to identify over-represented matrices. P-values were calculated using the permutation test and adjusted for multiple testing by FDR correction. Significant matrices were those with p < 0.02 that predicted less than 1 match in 1 kb of sequence in the background set.