Table 3 |
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|
Significantly enriched classes arising both in genes upregulated in A549 xenograft tumors over cell lines and in genes upregulated in U118 tumors over cell cultures (p < 0.05 in both sets) |
||||||
| Category |
Term |
Gene count in A549 set of 134 |
Gene count in U118 set of 112 |
Gene count in entire set of 5,682 |
p-value A549 set |
p-value U118 set |
|
|
||||||
| GO term annotation (0.58 terms expected, found 2) |
||||||
| Biological process |
Cell adhesion |
14 |
9 |
233 |
0.001092 |
0.039587 |
| Molecular function |
Metal ion binding activity |
16 |
16 |
411 |
0.031462 |
0.006317 |
| MeSH term association (2.2 terms expected, found 42) |
||||||
| Anatomy |
Basement membrane |
9 |
5 |
96 |
3.94E-04 |
4.04E-02 |
| Anatomy |
Endothelium, vascular |
29 |
26 |
829 |
1.67E-02 |
9.33E-03 |
| Anatomy |
Epithelium |
22 |
15 |
451 |
7.63E-04 |
3.04E-02 |
| Anatomy |
Fibroblasts |
40 |
35 |
1215 |
1.25E-02 |
8.92E-03 |
| Anatomy |
Microfilaments |
7 |
6 |
124 |
2.66E-02 |
3.51E-02 |
| Anatomy |
Stem cells |
23 |
20 |
665 |
3.69E-02 |
3.42E-02 |
| Biological sciences |
Cell adhesion |
26 |
21 |
697 |
1.09E-02 |
2.96E-02 |
| Biological sciences |
Cell differentiation |
53 |
46 |
1780 |
2.53E-02 |
1.76E-02 |
| Biological sciences |
Cell movement |
29 |
23 |
792 |
9.13E-03 |
3.36E-02 |
| Biological sciences |
Gene expression regulation, neoplastic |
54 |
37 |
1301 |
3.92E-06 |
8.56E-03 |
| Biological sciences |
Neutrophil infiltration |
3 |
3 |
34 |
4.51E-02 |
2.86E-02 |
| Chemicals and drugs |
Collagen |
28 |
33 |
516 |
1.89E-05 |
4.25E-10 |
| Chemicals and drugs |
Complementarity determining regions |
4 |
4 |
32 |
6.37E-03 |
3.36E-03 |
| Chemicals and drugs |
Cytokines |
28 |
26 |
808 |
2.10E-02 |
6.70E-03 |
| Chemicals and drugs |
DNA, neoplasm |
27 |
22 |
705 |
6.70E-03 |
1.81E-02 |
| Chemicals and drugs |
Extracellular matrix proteins |
15 |
16 |
217 |
1.59E-04 |
4.32E-06 |
| Chemicals and drugs |
Growth substances |
14 |
16 |
365 |
4.77E-02 |
1.95E-03 |
| Chemicals and drugs |
Heparitin sulfate |
4 |
4 |
54 |
3.77E-02 |
2.12E-02 |
| Chemicals and drugs |
Laminin |
13 |
8 |
184 |
3.60E-04 |
2.82E-02 |
| Chemicals and drugs |
Lymphokines |
16 |
14 |
349 |
7.60E-03 |
8.22E-03 |
| Chemicals and drugs |
Metalloendopeptidases |
11 |
12 |
241 |
2.63E-02 |
2.62E-03 |
| Chemicals and drugs |
Osteonectin |
3 |
5 |
35 |
4.85E-02 |
5.51E-04 |
| Chemicals and drugs |
Proteoglycans |
11 |
15 |
255 |
3.75E-02 |
1.25E-04 |
| Chemicals and drugs |
Transcription factor, Sp1 |
11 |
10 |
250 |
3.32E-02 |
2.49E-02 |
| Diseases |
Astrocytoma |
7 |
6 |
129 |
3.21E-02 |
4.13E-02 |
| Diseases |
Melanoma |
18 |
13 |
362 |
1.94E-03 |
2.50E-02 |
| Diseases |
Neovascularization, pathologic |
13 |
9 |
223 |
2.16E-03 |
3.11E-02 |
| Diseases |
Precancerous conditions |
11 |
8 |
137 |
3.50E-04 |
5.38E-03 |
| Diseases |
Pulmonary fibrosis |
5 |
5 |
46 |
4.27E-03 |
1.96E-03 |
| Diseases |
Scleroderma, systemic |
4 |
6 |
58 |
4.71E-02 |
9.02E-04 |
|
|
||||||
|
Creighton et al. Genome Biology 2003 4:R46 doi:10.1186/gb-2003-4-7-r46 |
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