Table 3.
The gene ontology terms overrepresented in the set of genes up-regulated by at least 2-fold in adenocarcinomas
| Annotation term | Total | Found | Expected | P-value |
|---|---|---|---|---|
| Gene Ontology term | ||||
| DNA replication and chromosome cycle | 233 | 54 | 0.0E+00 | 0.0E+00 |
| Cell cycle checkpoint | 50 | 17 | 5.5E−04 | 1.1E−05 |
| S phase of mitotic cell cycle | 183 | 38 | 1.1E−02 | 6.1E−05 |
| M phase of mitotic cell cycle | 149 | 46 | 0.0E+00 | 0.0E+00 |
| Nucleotide binding | 1737 | 235 | 2.1E−01 | 1.2E−04 |
| Mitotic cell cycle | 421 | 97 | 0.0E+00 | 0.0E+00 |
| M phase | 201 | 52 | 0.0E+00 | 0.0E+00 |
| Nuclear division | 195 | 50 | 0.0E+00 | 0.0E+00 |
| Chromatin | 117 | 29 | 1.8E−03 | 1.5E−05 |
| Nucleosome | 60 | 16 | 3.0E−02 | 5.0E−04 |
| Cytokinesis | 85 | 24 | 6.8E−04 | 8.0E−06 |
| Catalytic activity | 4887 | 638 | 0.0E+00 | 0.0E+00 |
| Carboxypeptidase A activity | 18 | 8 | 5.5E−03 | 3.1E−04 |
| Extracellular matrix structural constituent | 89 | 21 | 4.0E−02 | 4.5E−04 |
| Collagen | 54 | 23 | 0.0E+00 | 0.0E+00 |
| ATP binding | 1280 | 177 | 4.0E−01 | 3.1E−04 |
| Extracellular matrix | 345 | 65 | 2.1E−03 | 6.0E−06 |
| Collagen | 59 | 24 | 0.0E+00 | 0.0E+00 |
| Fibrillar collagen | 23 | 14 | 0.0E+00 | 0.0E+00 |
| Chromosome | 147 | 32 | 1.3E−02 | 8.8E−05 |
| Spindle | 64 | 21 | 1.3E−04 | 2.0E−06 |
| Intermediate filament | 76 | 19 | 2.9E−02 | 3.8E−04 |
| DNA metabolism | 606 | 97 | 3.1E−02 | 5.1E−05 |
| DNA replication | 178 | 36 | 2.9E−02 | 1.6E−04 |
| DNA dependent DNA replication | 94 | 23 | 1.3E−02 | 1.4E−04 |
| DNA replication initiation | 25 | 11 | 6.3E−04 | 2.5E−05 |
| Amino acid and derivative metabolism | 240 | 54 | 0.0E+00 | 0.0E+00 |
| Amino acid metabolism | 197 | 43 | 1.2E−03 | 6.0E−06 |
| Oncogenesis | 521 | 84 | 6.6E−02 | 1.3E−04 |
| Cell cycle | 871 | 145 | 0.0E+00 | 0.0E+00 |
| Chromosome segregation | 35 | 11 | 2.9E−02 | 8.4E−04 |
| Mitosis | 145 | 45 | 0.0E+00 | 0.0E+00 |
| Regulation of mitosis | 35 | 12 | 6.9E−03 | 2.0E−04 |
| Mitotic checkpoint | 16 | 7 | 1.3E−02 | 8.3E−04 |
| Ectoderm development | 98 | 26 | 1.1E−03 | 1.1E−05 |
| Cell proliferation | 1356 | 190 | 1.2E−01 | 8.9E−05 |
| Epidermal differentiation | 80 | 22 | 2.2E−03 | 2.8E−05 |
| Glutamine family amino acid metabolism | 46 | 15 | 2.9E−03 | 6.3E−05 |
| Amine metabolism | 283 | 60 | 0.0E+00 | 0.0E+00 |
| Histogenesis | 131 | 28 | 4.3E−02 | 3.3E−04 |
| Glucuronosyltransferase activity | 18 | 8 | 5.5E−03 | 3.1E−04 |
| Transferase activity | 1634 | 224 | 1.3E−01 | 8.1E−05 |
| Transferase activitytransferring glycosyl groups | 225 | 42 | 7.0E−02 | 3.1E−04 |
| Transferase activitytransferring hexosyl groups | 148 | 34 | 2.5E−03 | 1.7E−05 |
| Other carbon–nitrogen ligase activity | 25 | 9 | 2.1E−02 | 8.3E−04 |
| Purine nucleotide binding | 1723 | 233 | 2.3E−01 | 1.4E−04 |
| Adenyl nucleotide binding | 1292 | 179 | 3.4E−01 | 2.6E−04 |
| Intermediate filament cytoskeleton | 76 | 19 | 2.9E−02 | 3.8E−04 |
| Protein domain | ||||
| Fibrillar collagen, C-terminal | 23 | 14 | 0.0E+00 | 0.0E+00 |
| Endoplasmic reticulum targeting sequence | 76 | 19 | 2.0E−02 | 2.6E−04 |
| Epsin N-terminal homology | 16 | 7 | 1.1E−02 | 6.9E−04 |
| MCM family | 11 | 8 | 2.2E−05 | 2.0E−06 |
| Prolyl oligopeptidase | 12 | 6 | 8.6E−03 | 7.1E−04 |
| Intermediate filament protein | 67 | 17 | 3.0E−02 | 4.4E−04 |
| von Willebrand factor, type D | 9 | 6 | 7.7E−04 | 8.6E−05 |
| UDP-glucoronosyl/UDP-glucosyl transferase | 15 | 7 | 6.4E−03 | 4.3E−04 |
| Prolyl endopeptidase, serine active site | 8 | 5 | 4.4E−03 | 5.5E−04 |
| Immunoglobulin V-type | 146 | 32 | 6.3E−03 | 4.3E−05 |
| Cyclin, C-terminal | 19 | 9 | 1.0E−03 | 5.4E−05 |
| Disulphide isomerase | 12 | 7 | 8.4E−04 | 7.0E−05 |
| Cyclin | 44 | 14 | 4.7E−03 | 1.1E−04 |
| Cyclin, N-terminal domain | 34 | 12 | 3.7E−03 | 1.1E−04 |
| Histone core | 25 | 9 | 1.7E−02 | 6.7E−04 |
| Collagen triple helix repeat | 106 | 28 | 3.2E−04 | 3.0E−06 |
| Collagen helix repeat | 69 | 22 | 6.9E−05 | 1.0E−06 |
| Pathway | ||||
| Cell_cycle | 133 | 43 | 5.7E+00 | 4.3E−02 |
| Glutamate_metabolism | 27 | 12 | 3.2E−01 | 1.2E−02 |
| MAP00251//glutamate metabolism | 43 | 15 | 6.5E−01 | 1.5E−02 |
| Androgen_and_estrogen_metabolism | 15 | 7 | 1.1E−01 | 7.0E−03 |
| MAP00150//androgen and estrogen metabolism | 32 | 11 | 3.5E−01 | 1.1E−02 |
| Chromosomal location | ||||
| 7 | 961 | 129 | 8.7E−01 | 9.1E−04 |
| 1q | 920 | 126 | 4.4E−01 | 4.8E−04 |
| 8q | 388 | 67 | 5.8E−03 | 1.5E−05 |
Details are as described in Table 2.