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Table 2 GO enrichment.

From: Transcriptional programs: Modelling higher order structure in transcriptional control

TP

Factors

GO term

 

GO description

annotated

p-value

28

9

GO:0001889

BP

liver development

5/7

4.7e-06

TP

Targets

GO term

 

GO description

annotated

p-value

2

669

GO:0004842

MF

ubiquitin-protein ligase activity

16/121

8.7e-06

2

669

GO:0051216

BP

cartilage development

12/71

9.0e-06

3

1474

GO:0005550

MF

pheromone binding

11/27

2.8e-06

4

1419

GO:0005132

MF

interferon-alpha/beta receptor binding

7/8

1.2e-07

5

1510

GO:0005132

MF

interferon-alpha/beta receptor binding

6/8

7.3e-06

12

198

GO:0000786

CC

nucleosome

14/136

4.2e-10

12

198

GO:0005634

CC

nucleus

84/4115

8.2e-08

12

198

GO:0003677

MF

DNA binding

54/1993

4.0e-07

12

198

GO:0003697

MF

single-stranded DNA binding

6/37

4.2e-06

12

198

GO:0006334

BP

nucleosome assembly

14/147

1.9e-09

12

198

GO:0006260

BP

DNA replication

16/151

2.4e-06

13

372

GO:0004984

MF

olfactory receptor activity

50/1001

5.4e-09

13

372

GO:0007186

BP

G-protein coupled receptor protein signa...

81/1968

1.4e-09

15

230

GO:0034097

BP

response to cytokine stimulus

5/15

1.0e-06

18

268

GO:0004984

MF

olfactory receptor activity

43/1001

6.0e-11

18

268

GO:0007166

BP

cell surface receptor linked signal tran...

74/2606

2.4e-08

18

268

GO:0007608

BP

sensory perception of smell

10/90

7.9e-07

25

275

GO:0004556

MF

alpha-amylase activity

4/5

2.1e-07

28

167

GO:0007186

BP

G-protein coupled receptor protein signa...

38/1968

4.1e-06

55

54

GO:0032183

MF

SUMO binding

2/2

1.0e-05

  1. We tested each of the factors and target genes associated with each of the 68 transcriptional programs for enrichment of GO terms across the three GO ontologies: biological process (BP), molecular function (MF) and cellular component (CC). The number of factors (resp. targets) associated with the program is displayed followed by information about the GO term. 'Annotated' shows the number of factors (resp. targets) annotated with the term in the program compared to the total numbers of factors (resp. targets) annotated with the term. The p-values are not corrected for multiple testing. Based on a bootstrap analysis described in the Methods section any p-value below 1e-04 might be deemed significant at the 0.01 level.