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Table 2 Enriched GO terms in each module.

From: Identification of dysfunctional modules and disease genes in congenital heart disease by a network-based approach

Module

GO ID

p-value

GO description

CHD genes in this module and with this GO term

FDR

M1

GO:0019219

8.00E-10

regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process

GATA6

1.90E-07

 

GO:0051171

1.10E-09

regulation of nitrogen compound metabolic process

GATA6

2.70E-07

 

GO:0051716

4.00E-08

cellular response to stimulus

GATA6

9.70E-06

 

GO:0045941

3.20E-07

positive regulation of transcription

GATA6

7.80E-05

M3

GO:0007178

7.30E-34

transmembrane receptor protein serine/threonine kinase signaling pathway

ACVR2B

2.70E-31

 

GO:0007179

3.70E-23

Transforming growth factor beta receptor signaling pathway

 

1.40E-20

 

GO:0032925

1.70E-12

regulation of activin receptor signaling pathway

ACVR2B

6.60E-10

 

GO:0045597

1.10E-09

positive regulation of cell differentiation

ACVR2B

4.40E-07

 

GO:0051239

5.60E-09

regulation of multicellular organismal process

ACVR2B

2.10E-06

 

GO:0010646

1.60E-08

regulation of cell communication

ACVR2B

6.40E-06

M4

GO:0006468

1.20E-04

protein amino acid phosphorylation

 

5.80E-03

M5

GO:0006259

7.60E-05

DNA metabolic process

 

1.78E-02

M6

GO:0045941

4.50E-06

positive regulation of transcription

CITED2

5.90E-04

 

GO:0051254

9.80E-06

positive regulation of RNA metabolic process

CITED2

1.20E-03

 

GO:0045935

1.00E-05

positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process

CITED2

1.30E-03

M7

GO:0035556

2.20E-04

intracellular signal transduction

FLNA

2.52E-02

M8

GO:0006936

1.90E-08

muscle contraction

MYBPC3

3.00E-06

 

GO:0003008

1.80E-06

system process

MYBPC3

2.90E-04

 

GO:0007010

8.20E-06

cytoskeleton organization

 

1.30E-03

 

GO:0030036

8.10E-05

Actin cytoskeleton organization

 

1.31E-02

M9

GO:0007154

9.40E-06

cell communication

GATA4, TBX5

1.40E-03

 

GO:0048545

7.50E-05

response to steroid hormone stimulus

GATA4

1.15E-02

 

GO:0006629

2.30E-04

lipid metabolic process

 

3.57E-02

M10

GO:0022607

5.10E-06

cellular component assembly

ACTC1

7.30E-04

 

GO:0009653

9.30E-05

anatomical structure morphogenesis

ACTC1

0.0132

M11

GO:0031334

2.20E-04

positive regulation of protein complex assembly

NKX2-5, SRF

4.42E-02

M12

GO:0043066

2.20E-12

negative regulation of apoptosis

NOTCH1

6.20E-10

 

GO:0045595

1.90E-10

regulation of cell differentiation

JAG1, NOTCH1

5.50E-08

 

GO:0051093

1.90E-09

negative regulation of developmental process

JAG1, NOTCH1

5.40E-07

 

GO:0045596

9.70E-09

negative regulation of cell differentiation

JAG1, NOTCH1

2.70E-06

 

GO:0007219

7.30E-08

Notch signaling pathway

JAG1, NOTCH1

2.00E-05

  1. CHD genes participate in most of the top enriched GO processes in each module and the function of a module is very similar to those of the putative disease genes in it. Only GO terms with FDR<0.05 are shown below.