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Table 3 Biological processes common in the EGF-, Interferon-γ- and IL-1-regulated genes

From: Profiling and metaanalysis of epidermal keratinocytes responses to epidermal growth factor

a

 Gene ontology: Biological process

EGF1&4hUP

IFN4hUP

biological_process

5.84E-07

6.38E-06

signal transduction

3.62E-05

1.59E-04

response to stress

6.39E-05

1.37E-04

regulation of gene expression

2.27E-05

1.82E-03

regulation of apoptosis

8.12E-04

1.07E-03

cell communication

4.12E-05

5.65E-03

regulation of RNA metabolic process

8.79E-03

4.84E-03

regulation of transcription

7.87E-05

1.50E-02

regulation of transcription,

1.33E-02

9.08E-03

protein metabolic process

5.42E-02

2.34E-05

response to wounding

8.17E-04

6.57E-02

 

EGF24&48hUP

IFN48hUP

biological_process

1.32E-02

3.32E-16

metabolic process

3.16E-02

8.99E-14

 Gene ontology: Biological process

EGF1&4hDN

IFN4hDN

response to external stimulus

5.47E-04

1.79E-09

tissue development

6.50E-04

3.64E-05

cell differentiation

6.90E-04

5.94E-10

keratinocyte differentiation

1.42E-02

5.37E-04

epidermis development

8.64E-06

1.49E-02

response to chemical stimulus

2.22E-02

4.54E-08

defense response

2.05E-02

2.31E-03

response to stress

2.32E-02

2.67E-08

 

EGF24&48hDN

IFN48hDN

response to stress

1.95E-06

9.50E-10

response to external stimulus

5.54E-04

4.70E-03

regulation of cell proliferation

2.87E-03

3.97E-03

biological_process

1.45E-02

3.66E-24

regulation of cell cycle

7.16E-02

1.01E-04

tissue development

7.13E-02

4.06E-02

b

 Gene ontology: Biological process

EGF1&4hUP

IL1&1hUP

regulation of cell proliferation

1.65E-07

4.09E-08

biological_process

5.84E-07

3.75E-12

regulation of signal transduction

1.41E-07

2.34E-06

regulation of gene expression

2.27E-05

2.84E-12

signal transduction

3.62E-05

1.16E-06

cell communication

4.12E-05

4.90E-06

response to stress

6.39E-05

7.05E-11

regulation of transcription

7.87E-05

1.60E-12

regulation of cell motion

1.45E-07

9.43E-05

negative regulation of cell proliferation

5.55E-05

6.13E-05

negative regulation of prog. cell death

6.27E-04

5.05E-05

regulation of apoptosis

8.12E-04

3.33E-09

response to wounding

8.17E-04

7.63E-05

regulation of cell migration

6.33E-05

9.95E-04

positive regulation of chemotaxis

2.38E-04

1.68E-03

negative regulation of apoptos

3.07E-03

1.73E-04

positive regulation of signal

3.47E-03

1.15E-05

positive regulation of metabolism

4.70E-03

3.42E-08

positive regulation of cell process

1.64E-03

3.11E-03

regulation of RNA metabolic process

8.79E-03

1.06E-10

phosphate metabolic process

1.08E-02

1.26E-05

regulation of transcription,

1.33E-02

6.42E-11

response to external stimulus

2.35E-03

1.33E-02

regulation of transcription

1.59E-02

6.90E-10

transmembrane receptor protein

1.49E-02

1.59E-03

positive regulation of gene expression

3.33E-02

4.02E-06

positive regulation of cell motility

6.15E-04

3.31E-02

protein metabolic process

5.42E-02

1.31E-06

regulation of catalytic activity

7.77E-02

1.89E-08

transforming growth factor beta pathway

8.47E-02

6.35E-03

positive regulation of transcription

9.37E-02

1.88E-06

 Gene ontology: Biological process

EGF24&48hUP

IL1&48hUP

biological_process

1.32E-02

8.89E-19

metabolic process

3.16E-02

1.32E-16

 

EGF1&4hDN

IL1 1hDN

cell differentiation

6.90E-04

3.12E-03

epidermis development

8.64E-06

1.60E-02

keratinocyte differentiation

1.42E-02

3.78E-03

 

EGF24&48hDN

IL1 48hDN

epidermis development

5.18E-03

6.21E-03

biological_process

1.45E-02

1.75E-14

response to stress

1.95E-06

3.26E-02

response to external stimulus

5.54E-04

4.08E-02

 

EGF1_4hUP

EFNAs_DN

response to stress

6.39E-05

3.67E-02

 

EGF24_48hUP

EFNAs_DN

biological_process

1.32E-02

6.92E-03

metabolic process

3.16E-02

3.29E-02

 

EGF1_4hUP

RA4hDN

regulation of gene expression

2.27E-05

8.66E-05

regulation of transcription

7.87E-05

2.69E-04

cell communication

4.12E-05

2.62E-03

biological_process

5.84E-07

5.66E-03

signal transduction

3.62E-05

6.86E-03

regulation of RNA metabolic process

8.79E-03

8.62E-05

regulation of cell migration

6.33E-05

1.03E-02

regulation of apoptosis

8.12E-04

1.01E-02

regulation of transcription

1.33E-02

1.88E-04

regulation of transcription

1.59E-02

6.81E-04

regulation of cell motion

1.45E-07

2.60E-02

regulation of cell proliferation

1.65E-07

4.18E-02

positive regulation of metabolism

4.70E-03

4.57E-02

regulation of signal transduction

1.41E-07

5.12E-02

 

EGF1_4hDN

EFNAs_UP

epidermis development

8.64E-06

9.39E-09

tissue development

6.50E-04

1.52E-05

cell differentiation

6.90E-04

1.80E-07

keratinocyte differentiation

1.42E-02

1.58E-11

 

EGF24_48hDN

EFNAs_UP

epidermis development

5.18E-03

9.39E-09

biological_process

1.45E-02

5.83E-04

tissue development

7.13E-02

1.52E-05

 

EGF1_4hUP

RA4hUP

biological_process

5.84E-07

7.73E-05

regulation of gene expression

2.27E-05

1.05E-04

regulation of transcription

7.87E-05

2.86E-04

signal transduction

3.62E-05

3.42E-04

regulation of signal transduction

1.41E-07

4.46E-04

response to stress

6.39E-05

8.06E-04

negative regulation of program

6.27E-04

4.51E-04

cell communication

4.12E-05

2.77E-03

negative regulation of apoptosis

3.07E-03

3.61E-04

positive regulation of signal

3.47E-03

4.51E-04

phosphate metabolic process

1.08E-02

8.40E-05

regulation of RNA metabolic process

8.79E-03

4.78E-03

regulation of transcription,

1.33E-02

6.50E-03

regulation of transcription

1.59E-02

5.92E-03

positive regulation of metabolism

4.70E-03

1.99E-02

regulation of apoptosis

8.12E-04

4.33E-02

response to external stimulus

2.35E-03

4.24E-02

positive regulation of gene expression

3.33E-02

1.35E-02

protein metabolic process

5.42E-02

1.39E-03

positive regulation of transcription

9.37E-02

7.29E-03

  1. a) The EGF and Interferon-γ overlaps b) The EGF and IL-1 overlaps. UP denotes induced, DN suppressed genes. The numbers represent the p-values. While many ontological categories are redundant, closely related or overly general, note that keratinocyte differentiation is suppressed in all three sets, the EGF-, Interferon-γ-, and IL-1-regulated genes. Also note that processes related to cell motility are induced by EGF and IL-1, but not by IFNγ.