Table 3 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 |