Table 2 Results for over-representation analysis in 33 experiments

Up-regulated genes

Down-regulated genes

Parameter setting

status

E-GEOD-10954

cMyc

N

S

400, down-regulated, 10000 bp

S

E-GEOD-11352

ESRalpha

S

N

100, up-regulated, 4000 bp

S

E-GEOD-11809

irf1

S

W

100, up-regulated, 4000 bp

S

E-GEOD-3126

HNF4a

S

N

400, up-regulated, 4000 bp

S

E-GEOD-6077

nmyc

S

N

100, up-regulated, 7000 bp

S

E-GEOD-6487

Myf

S

N

400, up-regulated, 4000 bp

S

E-GEOD-7219

NFkappaB2

S

N

200, up-regulated, 7000 bp

S

E-GEOD-7223

AIbZIP

S

N

200, up-regulated, 4000 bp

S

E-GEOD-7835

HiF1

N

S

400, up-regulated, 7000 bp

S

E-MEXP-1444

Cepba

S

W

100, up-regulated, 7000 bp

S

E-GEOD-2624

NF-kB

N

S

200 down-regulated, 2000 bp

S

E-GEOD-11557

Evi-1

N

S

200 down-regulated, 2000 bp

S

E-GEOD-5424

Foxa2

W

N

300 up-regulated, 7000 bp

S

E-TABM-43

TP53

W

N

200 up-regulated, 2000 bp

S

E-GEOD-3116

HNF4

W

N

100 up-regulated, 2000 bp

S

E-GEOD-2060

CREB

N

N

400, up-regulated, 7000 bp

S

E-GEOD-3244

p53

N

N

100, up-regulated, 7000 bp

S

E-GEOD-9786

PPARalpha

N

N

100, down-regulated, 2000 bp

S

E-GEOD-5475

PPARI

N

N

100 down-regulated, 7000 bp

S

E-GEOD-2192

PPARg2

W

N

200, up-regulated, 4000 bp

W

E-GEOD-11039

e2f2

W

N

100, up-regulated, 4000 bp

W

E-GEOD-590

USF1

N

N

300 up-regulated, 7000 bp

W

E-GEOD-5800

Irf6

N

N

100 up-regulated, 4000 bp

W

E-GEOD-8943

FOXQ1

W

N

200 up-regulated, 4000 bp

W

E-GEOD-5823

c-MYC

W

W

300 up-regulated 4000 bp

W

E-GEOD-2527

Gata-1

N

N

-

-

E-GEOD-7137

KLF15

N

N

-

-

E-MEXP-634

Gata-3

N

N

-

-

E-GEOD-2815

Myb

N

N

-

-

E-GEOD-6846

STAT2

N

N

-

-

E-GEOD-11836

Nkx3.1

N

N

-

-

E-MEXP-871

HMGA2

N

N

-

-

E-MEXP-1413

E2F2

N

N

-

-