Table 6

Pairs of promoter elements found to be enriched in the target promoter set relative to the background promoter set

Pairs of promoter elements

ORI

TAR (%)

BCG (%)

Probability of finding PE in target set

Probability of finding PE in background set

TAR (n)

BCG (n)

TAR Total

BCG Total

P-value

-1 MZF1/+1 E2F

17.1036

6.62

1.47

0.00007

0.00002

36

151

544

10255

0.000003

-1 LEF1/-1 Pax-4

14.6726

6.62

1.77

0.00007

0.00002

36

182

544

10255

0.000254

-1 C/EBP/+1 VDR

10.1454

6.43

1.85

0.00006

0.00002

35

190

544

10255

0.002385

+1 C/EBP/+1 VDR

9.1022

6.99

2.42

0.00009

0.00003

38

248

544

10255

0.041880

-1 MAZ/-1 VDR

9.0220

9.19

2.89

0.00015

0.00005

50

296

544

10255

0.000012

-1 MZF1/-1 MZF1

8.4560

5.51

1.6

0.00007

0.00003

30

164

544

10255

0.039710

-1 ETF/-1 VDR

7.6725

7.54

2.68

0.00011

0.00004

41

275

544

10255

0.023710

-1 AP-2/-1 ETF

6.8853

12.87

5.11

0.00023

0.00009

70

524

544

10255

0.000015

-1 MAZ/+1 Sp1

6.4534

9.56

2.63

0.00012

0.00007

52

270

544

10255

0.000000

-1 Spz1/-1 Spz1

6.0515

14.34

5.57

0.00021

0.00009

78

571

544

10255

<0.00001

-1 VDR/-1 Spz1

5.4345

14.34

6.54

0.00024

0.00010

78

671

544

10255

0.000429

-1 ETF/-1 E2F

5.4001

11.76

5.22

0.00020

0.00009

64

535

544

10255

0.007227

-1 Spz1/-1 VDR

5.2463

13.6

6.58

0.00025

0.00010

74

675

544

10255

0.013100

-1 VDR/+1 ZF5

4.4308

14.15

6.59

0.00018

0.00009

77

676

544

10255

0.001322

The criteria for selecting pairs of PE as enriched was that it has to appear in at least 5% of the target promoter sequences and to have over-representation index (ORI) of at least 2. PE that appear in statistically significant proportion in the target set are denoted by + in the ORI column.

Lombard et al. BMC Genomics 2007 8:389   doi:10.1186/1471-2164-8-389