Table 4 Results for the H3 gene set. Most significant TFBSs detected in the H3 data set by TFM-Explorer, TOUCAN, OTFBS, and oPOSSUM using sequences that were 2 kb upstream. The TRANSFAC vertebrate matrices were used with TOUCAN, OTFBS, and TFM-Explorer. oPOSSUM was unable to produce results from this data set. TFs with experimentally verified sites in the set are marked with *.

Rank

PWM

Window

P -value

1

*

NFY_C

[-1375: -0039]

4.757e-24

2

*

OCT1_04

[-0588: -0022]

1.537e-20

3

*

NFY_Q6

[-1318: -0039]

4.026e-16

4

*

OCT1_07

[-0574: -0025]

7.932e-14

5

XFD1_01

[-0890: -0025]

2.253e-13

6

PBX1_02

[-0491: -0040]

2.737e-13

7

SRY_02

[-0895: -0015]

1.803e-12

8

MEF2_04

[-0482: -0038]

1.826e-12

9

HNF1_01

[-0642: -0097]

7.089e-12

10

EVI1_04

[-0417: -0040]

9.277e-12

Rank

PWM

P-value

1

*

NFY_01

1.364e-08

2

*

OCT1_01

1.854e-05

3

GFI1_01

4.506e-05

4

TATA_01

1.315e-03

5

*

CAAT_01

1.781e-03

6

*

OCT_C

1_018e-02

7

MEF2_02

1.041e-02

8

MEF2_03

1.041e-02

9

NFY_C

1.633e-02

10

CART1_01

2.569e-02

Rank

PWM

P-value

1

IRF1_01

5.099e-26

2

HFH3_01

6.865e-22

3

FOXJ2_01

1.606e-21

4

MEF2_01

6.896e-20

5

HNF3B_01

1.165e-18

6

MEF2_04

1.243e-18

7

FOXD3_01

3.698e-18

8

MEF2_02

2.964e-15

9

XFD1_01

8.016e-15

10

*

NFY_C

6.396e-14