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Table 1 Summary of functional tests of 466 predicted TF binding sites in four human cell lines

From: Functional analysis of transcription factor binding sites in human promoters

TF

Func.

Tested

Ubq.Func.

Ubq. Act.

Ubq. Rep.

Func. K562

Func. HCT116

Func HT1080

Func HepG2

PWM

AUC

CTCF

104

168

9

9

0

62

52

49

53

Ref. [31]

0.84

E2F4

7

12

0

0

0

3

3

3

0

E2F:4 M00739

0.83

E2F6

2

3

0

0

0

1

0

1

0

E2F:1 M00938

0.78

EGR1

1

2

0

0

0

0

1

0

0

Egr:3 M00245

0.76

GABP

7

11

4

4

0

5

5

6

5

Ref. [103]

0.77

GATA1

4

4

1

1

0

4

4

1

1

GATA:1 M00128

0.69

GATA2

47

80

4

3

1

36

20

18

14

GATA:2 M00348

0.81

JUND

3

3

1

1

0

2

2

1

3

CREBP1 M00041

0.65

MAX

3

3

1

0

1

2

2

2

2

cMycMax M00118

0.77

STAT1

54

69

16

11

5

41

27

29

39

STAT1 M00224

0.74

USF1

2

2

1

1

0

2

2

2

1

USF M00121

0.86

YY1

86

98

26

9

16

63

56

53

58

Ref. [103]

0.82

Total

320

455

63

39

23

221

174

165

176

  
  1. For each TF that was part of our functional study, columns list the number of functional verifications in at least one cell line, number of TFBSs tested, number of ubiquitously functional TFBSs, number of ubiquitously activating TFBSs, number of ubiquitously repressing TFBSs, number of TFBSs functionally verified in each cell line, the source of PWM used and the corresponding AUC when applied ChIP-seq data sets. The PWMs are shown as motif logos in Table S1 of Additional file 1.