Table 2.
Enriched GO terms for the category “biological process” of clusters including all regulated genes
| Cluster number | Number of genes without a homolog in S. cerevisiae among total number of genes within cluster | GO term | Corrected p-value |
|---|---|---|---|
| 1 | 69 of 170 | Carbohydrate metabolic process | 2.67E-02 |
| 2 | 19 of 34 | Cellular process involved in reproduction | 2.35E-08 |
| Response to pheromone | 1.67E-07 | ||
| Reproduction | 2.99E-07 | ||
| Multi-organism cellular process | 4.68E-07 | ||
| Multi-organism process | 1.02E-06 | ||
| Cytogamy | 1.42E-06 | ||
| Cell surface receptor signaling pathway | 3.86E-03 | ||
| Cellular developmental process | 2.38E-02 | ||
| 3 | 22 of 29 | Unknown | 6.75E-04 |
| 4 | 93 of 242 | – | – |
| 5 | 59 of 141 | – | – |
| 6 | 35 of 162 | rRNA metabolic process | 9.51E-19 |
| Ribonucleoprotein complex biogenesis | 1.18E-17 | ||
| ncRNA metabolic process | 1.61E-13 | ||
| Gene expression | 4.10E-11 | ||
| Cytoplasmic translation | 8.08E-10 | ||
| Translation | 3.92E-08 | ||
| RNA phosphodiester bond hydrolysis | 6.36E-06 | ||
| Cellular biosynthetic process | 1.65E-05 | ||
| Oganic substance metabolic process | 2.74E-05 | ||
| Cellular metabolic process | 5.22E-05 | ||
| Primary metabolic process | 5.41E-05 | ||
| Metabolic process | 2.39E-04 | ||
| Macromolecule metabolic process | 1.56E-03 | ||
| Nitrogen compound metabolic process | 5.23E-03 | ||
| RNA 5'-end processing | 1.00E-02 | ||
| Cellular amino acid biosynthetic process | 2.31E-02 | ||
| Biosynthetic process | 2.63E-02 | ||
| Methylation | 2.65E-02 | ||
| Cellular process | 3.27E-02 | ||
| 7 | 149 of 411 | Cell communication | 1.96E-07 |
| Response to stimulus | 4.85E-05 | ||
| Signaling | 6.25E-04 | ||
| Peroxisome organization | 4.84E-03 | ||
| Response to chemical stimulus | 5.05E-03 | ||
| Mitochondrion degradation | 1.28E-02 | ||
| Catabolic process | 1.33E-02 | ||
| 8 | 39 of 66 | Unknown | 2.41E-02 |
| 9 | 159 of 499 | Response to stimulus | 4.69E-02 |
| 10 | 42 of 67 | Unknown | 1.73E-03 |
| Amino acid transmembrane transport | 9.52E-03 | ||
| Glutamine family amino acid catabolic process | 3.93E-02 | ||
| 11 | 153 of 582 | Gene expression | 5.85E-06 |
| Mitochondrion organization | 1.30E-05 | ||
| Biosynthetic process | 1.84E-05 | ||
| Cellular metabolic process | 1.99E-05 | ||
| Organic substance biosynthetic process | 2.42E-05 | ||
| Cellular process | 2.54E-05 | ||
| tRNA metabolic process | 5.38E-05 | ||
| Metabolic process | 2.27E-04 | ||
| Translation | 2.36E-04 | ||
| 11 | 153 of 582 | Organic substance metabolic process | 6.44E-04 |
| Amino acid activation | 5.65E-03 | ||
| Macromolecule metabolic process | 6.45E-03 | ||
| Primary metabolic process | 3.56E-02 | ||
| 12 | 83 of 483 | Ribosome biogenesis | 3.01E-40 |
| ncRNA metabolic process | 2.59E-36 | ||
| Gene expression | 2.89E-35 | ||
| Cellular metabolic process | 8.87E-23 | ||
| Primary metabolic process | 2.96E-22 | ||
| Organic substance metabolic process | 1.61E-21 | ||
| Metabolic process | 4.99E-20 | ||
| Macromolecule metabolic process | 5.89E-18 | ||
| Cytoplasmic translation | 5.63E-16 | ||
| Cellular process | 9.97E-16 | ||
| Cellular biosynthetic process | 1.30E-14 | ||
| Biosynthetic process | 2.24E-13 | ||
| Nitrogen compound metabolic process | 3.04E-13 | ||
| RNA phosphodiester bond hydrolysis | 1.84E-10 | ||
| Alpha-amino acid biosynthetic process | 4.40E-10 | ||
| Cellular aromatic compound metabolic process | 6.14E-10 | ||
| Cellular component organization or biogenesis | 2.12E-09 | ||
| Cellular nitrogen compound metabolic process | 2.68E-09 | ||
| Heterocycle metabolic process | 3.35E-09 | ||
| Mitochondrial translation | 3.55E-09 | ||
| RNA 5'-end processing | 5.88E-09 | ||
| Organic cyclic compound metabolic process | 8.86E-09 | ||
| rRNA 5'-end processing | 3.96E-08 | ||
| Protein metabolic process | 9.16E-06 | ||
| Nucleic acid phosphodiester bond hydrolysis | 2.84E-04 | ||
| Regulation of translation | 8.81E-04 | ||
| Single-organism biosynthetic process | 9.94E-04 | ||
| Nuclear export | 2.18E-02 | ||
| Methylation | 3.12E-02 |
Redundant GO terms were excluded using the web-based tool REVIGO [51].