Table 3.
Top 3 GO biological processes for each method, after manual removal of redundant GO terms
| ID | Term | P-value | Count | Size |
|---|---|---|---|---|
| forgeNet-RF | ||||
| GO:0031647 | Regulation of protein stability | 0.00123 | 17 | 229 |
| GO:0090502 | RNA phosphodiester bond hydrolysis, endonucleolytic | 0.00369 | 7 | 62 |
| GO:1901998 | Toxin transport | 0.00499 | 5 | 35 |
| RF | ||||
| GO:2000679 | Positive regulation of transcription regulatory region DNA binding | 0.00255 | 4 | 19 |
| GO:0010172 | Embryonic body morphogenesis | 0.00313 | 3 | 10 |
| GO:0090042 | Tubulin deacetylation | 0.0042 | 3 | 11 |
| forgeNet-GBM | ||||
| GO:0001676 | Long-chain fatty acid metabolic process | 0.00138 | 9 | 84 |
| GO:0032890 | Regulation of organic acid transport | 0.00155 | 6 | 40 |
| GO:0046470 | Phosphatidylcholine metabolic process | 0.00449 | 7 | 65 |
| GBM | ||||
| GO:0006633 | Fatty acid biosynthetic process | 0.000454 | 12 | 121 |
| GO:0030520 | Intracellular ER signaling pathway | 0.000643 | 7 | 47 |
| GO:0010763 | Positive regulation of fibroblast migration | 0.00322 | 3 | 10 |
| LRL | ||||
| GO:0051047 | Positive regulation of secretion | 0.000609 | 20 | 317 |
| GO:0006090 | Pyruvate metabolic process | 0.000911 | 9 | 90 |
| GO:0019359 | Nicotinamide nucleotide biosynthetic process | 0.00204 | 8 | 82 |