Table 7.
Biological processes common in keratinocytes and other cell types
| |
Gene ontology process |
Keratinocytes |
HeLa |
|
MCF10A |
|
HUVEC |
|
MCF7 |
|
|
|---|---|---|---|---|---|---|---|---|---|---|---|
| EGF1&4hUP | GSE6783_1hUP | 4 h UP | GSE6784_1hUP | 4 h UP | GSE10778_1hUP | 6 h UP | GSE13009_1hUP | 4 h UP | 48 h DN (!) | ||
|
a* |
regulation of gene expression |
2.27E-05 |
8.60E-07 |
5.40E-10 |
9.30E-07 |
7.98E-07 |
1.34E-07 |
1.42E-04 |
1.50E-12 |
2.22E-14 |
2.18E-04 |
| regulation of transcription |
7.87E-05 |
9.91E-08 |
2.90E-10 |
1.48E-06 |
3.52E-07 |
1.42E-09 |
4.16E-06 |
3.00E-11 |
1.71E-13 |
5.94E-05 |
|
| regulation of RNA metabolic process |
8.79E-03 |
1.64E-05 |
3.38E-08 |
1.44E-04 |
8.88E-05 |
1.83E-06 |
3.71E-04 |
1.47E-09 |
1.83E-11 |
3.06E-03 |
|
| regulation of transcription |
1.33E-02 |
1.15E-04 |
2.32E-08 |
1.43E-04 |
9.91E-05 |
3.02E-07 |
8.11E-05 |
8.37E-09 |
1.32E-10 |
1.23E-03 |
|
| regulation of transcription |
1.59E-02 |
2.54E-05 |
1.99E-09 |
7.78E-04 |
1.41E-02 |
4.72E-06 |
4.61E-06 |
4.42E-06 |
6.28E-05 |
2.24E-03 |
|
| positive regulation of gene expression |
3.33E-02 |
9.78E-01 |
4.61E-03 |
1.24E-04 |
6.09E-05 |
2.04E-04 |
1.67E-01 |
2.38E-02 |
2.64E-04 |
1.19E-01 |
|
| positive regulation of transcription |
9.37E-02 |
6.97E-01 |
2.09E-03 |
1.51E-04 |
5.38E-05 |
2.25E-04 |
8.84E-02 |
2.47E-02 |
1.73E-04 |
7.71E-02 |
|
|
b |
regulation of signal transduction |
1.41E-07 |
3.63E-03 |
1.89E-03 |
6.60E-05 |
2.12E-04 |
1 |
1 |
9.89E-07 |
1.93E-04 |
1 |
| signal transduction |
3.62E-05 |
7.57E-02 |
6.05E-07 |
7.21E-11 |
4.10E-08 |
1 |
1 |
3.49E-10 |
4.23E-17 |
1 |
|
| positive regulation of signal trans. |
3.47E-03 |
2.41E-01 |
3.57E-03 |
4.67E-03 |
6.83E-02 |
1 |
1 |
1.39E-01 |
6.02E-01 |
1 |
|
| response to external stimulus |
2.35E-03 |
4.06E-01 |
1 |
8.03E-07 |
2.10E-01 |
1 |
1 |
1 |
1 |
1 |
|
| negative regulation of signaling |
9.10E-05 |
1 |
1 |
1 |
8.38E-01 |
1 |
1 |
1 |
1 |
1 |
|
|
c |
regulation of cell motion |
1.45E-07 |
2.89E-02 |
4.73E-04 |
1.24E-02 |
5.93E-04 |
1 |
1 |
3.63E-04 |
6.91E-03 |
5.47E-01 |
| regulation of cell migration |
6.33E-05 |
1.23E-02 |
6.66E-03 |
5.19E-02 |
1.44E-03 |
1 |
1 |
2.50E-04 |
3.01E-03 |
1 |
|
| positive regulation of cell motility |
6.15E-04 |
2.41E-01 |
2.63E-02 |
6.38E-01 |
1 |
1 |
1 |
5.45E-03 |
7.82E-03 |
1 |
|
| positive regulation of chemotaxis |
2.38E-04 |
9.30E-02 |
2.13E-03 |
1 |
1 |
1 |
1 |
5.00E-01 |
4.97E-02 |
1 |
|
| positive regulation of cell migration |
4.30E-03 |
1.40E-01 |
9.60E-03 |
1 |
1 |
1 |
1 |
1.64E-03 |
1.73E-03 |
1 |
|
| cell motion |
3.70E-03 |
1.13E-01 |
7.39E-02 |
4.32E-01 |
2.75E-01 |
1 |
1 |
1 |
6.20E-01 |
1 |
|
|
d |
regulation of cell proliferation |
1.65E-07 |
6.74E-03 |
1.76E-03 |
2.75E-03 |
6.40E-02 |
1 |
1 |
8.19E-04 |
1.59E-03 |
1 |
| positive regulation of cell proliferation |
1.64E-03 |
4.97E-02 |
9.70E-04 |
8.01E-03 |
1.51E-01 |
1 |
1 |
8.50E-03 |
4.71E-01 |
1 |
|
|
e |
negative regulation of prog. cell death |
6.27E-04 |
1.86E-02 |
1.25E-03 |
1.58E-04 |
2.33E-04 |
1 |
4.82E-01 |
5.84E-02 |
2.87E-03 |
1 |
| regulation of apoptosis |
8.12E-04 |
6.24E-02 |
8.43E-05 |
3.80E-07 |
2.73E-06 |
1 |
8.22E-02 |
4.64E-03 |
4.10E-05 |
1 |
|
| negative regulation of apoptos |
3.07E-03 |
6.10E-02 |
2.80E-03 |
1.22E-04 |
4.83E-04 |
1 |
4.05E-01 |
4.69E-02 |
2.05E-03 |
1 |
|
| positive regulation of metabolism |
4.70E-03 |
4.24E-02 |
5.71E-04 |
2.01E-05 |
6.52E-09 |
1.68E-03 |
1 |
4.33E-04 |
4.40E-07 |
3.26E-03 |
|
| regulation of catalytic activity |
7.77E-02 |
6.24E-01 |
2.05E-04 |
2.31E-03 |
1.41E-06 |
1 |
1.41E-03 |
1.36E-04 |
2.64E-05 |
1 |
|
| cell communication |
4.12E-05 |
7.24E-02 |
2.42E-06 |
3.87E-11 |
9.10E-07 |
1 |
1 |
2.48E-09 |
1.97E-15 |
1 |
|
| phosphate metabolic process |
1.08E-02 |
4.54E-02 |
4.48E-06 |
1.12E-02 |
2.46E-04 |
1 |
1 |
5.72E-06 |
2.70E-06 |
1 |
|
| response to stress |
6.39E-05 |
8.57E-02 |
5.22E-02 |
2.15E-07 |
7.26E-07 |
3.42E-02 |
1 |
1 |
1 |
1 |
|
| anatomical structure development |
5.71E-02 |
1 |
2.87E-01 |
2.01E-02 |
1 |
1 |
1 |
1 |
5.53E-02 |
1 |
|
| transforming growth factor beta pathway |
8.47E-02 |
1.19E-01 |
1 |
4.14E-01 |
1 |
4.44E-03 |
1 |
1 |
1 |
2.94E-01 |
|
| positive regulation of leukocycytes |
1.40E-02 |
1 |
5.51E-01 |
2.75E-01 |
1 |
1 |
1 |
9.41E-02 |
1 |
1 |
|
| cell adhesion |
8.83E-03 |
1 |
1 |
5.33E-04 |
1 |
1 |
1 |
1 |
1 |
1 |
|
| transmembrane receptor protein |
1.49E-02 |
4.44E-01 |
1 |
8.14E-02 |
1 |
6.97E-02 |
1 |
1 |
1 |
1 |
|
| response to wounding |
8.17E-04 |
1 |
1 |
2.40E-05 |
2.37E-01 |
1 |
1 |
1 |
1 |
1 |
|
| regulation of cell adhesion |
3.01E-03 |
1 |
1 |
7.25E-05 |
6.46E-02 |
1 |
1 |
1 |
1 |
1 |
|
| negative regulation of DNA binding |
9.91E-02 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
1 |
3.53E-01 |
|
| biological process |
5.84E-07 |
1.83E-04 |
3.12E-14 |
3.61E-13 |
9.62E-15 |
6.34E-09 |
1.21E-07 |
1.43E-15 |
1.38E-21 |
3.52E-02 |
|
| protein metabolic process |
5.42E-02 |
1 |
1.54E-06 |
4.66E-04 |
6.72E-06 |
1.27E-06 |
8.12E-02 |
2.46E-05 |
5.42E-08 |
6.91E-01 |
|
| |
EGF 24&48 h UP |
|
|
|
|
|
|
|
|
48 h DN (!) |
|
| biological process |
1.32E-02 |
1.83E-04 |
3.12E-14 |
3.61E-13 |
9.62E-15 |
6.34E-09 |
1.21E-07 |
1.43E-15 |
1.38E-21 |
1.08E-06 |
|
| metabolic process | 3.16E-02 | 1 | 4.33E-12 | 4.76E-05 | 2.73E-13 | 5.14E-15 | 6.13E-12 | 2.61E-05 | 2.83E-11 | 1.41E-07 |
The rightmost column shows the antiparallel overlap, i.e., with the genes suppressed by EGF in MCF7 cells. * Letters a – e indicate the fully or largely redundant biological processes.