Table 1

Over-represented TFBSs in GRB target promoters

Background: bystander gene promoters

Background: other CpG island promoters



Family

Name

Hit p-value

Sequence occurrence

p-value

Hit p-value

Sequence occurrence

p-value


FORKHEAD

Foxa2

0.009

0.0001

0.0001

0.0001

FORKHEAD

Foxd3

0.0001

0.0001

0.0001

0.0001

FORKHEAD

FOXI1

0.0001

0.0001

0.0001

0.0001

FORKHEAD

FOXL1

0.0001

0.0001

0.0001

0.0001

FORKHEAD

Foxq1

0.0001

0.0001

0.0002

0.0001

ZN-FINGER, C2H2

Gfi

0.0068

0.0001

0.0001

0.0001

HOMEO

Lhx3

0.0003

0.0001

0.0001

0.0001

MADS

MEF2A

0.0001

0.0001

0.0008

0.0001

HOMEO

Nkx2-5

0.0001

0.0001

0.0001

0.0001

HOMEO

Nobox

0.0002

0.0001

0.0001

0.0001

HOMEO

Pdx1

0.0001

0.0001

0.0001

0.0001

HOMEO

Prrx2

0.0001

0.0001

0.0001

0.0001

ZN-FINGER, C2H2

RREB1

0.0001

0.0001

0.0001

0.0001

HMG

Sox5

0.0001

0.0001

0.0001

0.0001

HMG

SOX9

0.0025

0.0001

0.0005

0.0001

HMG

SRY

0.0001

0.0001

0.0001

0.0001

HOMEO

TCF1

0.0017

0.0001

0.0001

0.0001


TFBS content of target gene promoters was compared to two different background sets. The ones over-represented in both comparisons are output in the table. Two distinct p-values represent the significance of the number of profile hits in the target set (hit p-value) and the significance of the number of sequences having at least one hit in the target set (sequence occurrence p-value).

Akalin et al. Genome Biology 2009 10:R38   doi:10.1186/gb-2009-10-4-r38

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