Table 5.
Enrichment of GO Biological Processes (GO-BP) using all genes found to be differentially expressed in response to E2 and/or Gen (analysis “All”). Significantly enriched biological processes (FDR < 0.05) were identified by ID and term description and grouped into 23 functionally related networks (GO group) obtained by ClueGO analysis. Each group is named after its most significant term (lowest FDR) and highlighted in bold, which was chosen for GOTerm representation in Fig. 3 of the associated MS in JSBMB [1]. Functionally related groups are sorted by highest enrichment score, calculated as [ -Log2 (group FDR)].
| GOID | GOTerm | Term FDR | Group FDR | Enrichment Score | GO group | % Associated Genes | Nr. Genes |
|---|---|---|---|---|---|---|---|
| GO:0043207 | response to external biotic stimulus | 7.2E-10 | 1.8E-10 | 32.4 | 18 | 8.54 | 21.00 |
| GO:0051707 | response to other organism | 7.2E-10 | 1.8E-10 | 32.4 | 18 | 8.54 | 21.00 |
| GO:0009615 | response to virus | 3.8E-05 | 1.8E-10 | 32.4 | 18 | 12.96 | 7.00 |
| GO:0009617 | response to bacterium | 1.5E-03 | 1.8E-10 | 32.4 | 18 | 5.20 | 9.00 |
| GO:0051607 | defense response to virus | 2.1E-02 | 1.8E-10 | 32.4 | 18 | 7.14 | 3.00 |
| GO:0043207 | response to external biotic stimulus | 7.2E-10 | 5.9E-09 | 27.3 | 20 | 8.54 | 21.00 |
| GO:0051707 | response to other organism | 7.2E-10 | 5.9E-09 | 27.3 | 20 | 8.54 | 21.00 |
| GO:0051591 | response to cAMP | 4.8E-05 | 5.9E-09 | 27.3 | 20 | 75.00 | 3.00 |
| GO:0009617 | response to bacterium | 1.5E-03 | 5.9E-09 | 27.3 | 20 | 5.20 | 9.00 |
| GO:0046683 | response to organophosphorus | 2.3E-03 | 5.9E-09 | 27.3 | 20 | 20.00 | 3.00 |
| GO:0014074 | response to purine-containing compound | 2.3E-03 | 5.9E-09 | 27.3 | 20 | 20.00 | 3.00 |
| GO:0032496 | response to lipopolysaccharide | 2.7E-03 | 5.9E-09 | 27.3 | 20 | 8.33 | 5.00 |
| GO:0002237 | response to molecule of bacterial origin | 3.1E-03 | 5.9E-09 | 27.3 | 20 | 7.94 | 5.00 |
| GO:0034097 | response to cytokine | 3.5E-03 | 5.9E-09 | 27.3 | 20 | 4.29 | 9.00 |
| GO:0006954 | inflammatory response | 8.2E-03 | 5.9E-09 | 27.3 | 20 | 4.32 | 7.00 |
| GO:0042493 | response to drug | 1.2E-02 | 5.9E-09 | 27.3 | 20 | 9.38 | 3.00 |
| GO:0009612 | response to mechanical stimulus | 2.5E-02 | 5.9E-09 | 27.3 | 20 | 6.67 | 3.00 |
| GO:0016126 | sterol biosynthetic process | 2.9E-09 | 3.0E-07 | 21.7 | 22 | 31.03 | 9.00 |
| GO:0006694 | steroid biosynthetic process | 4.0E-09 | 3.0E-07 | 21.7 | 22 | 19.30 | 11.00 |
| GO:0016125 | sterol metabolic process | 9.6E-09 | 3.0E-07 | 21.7 | 22 | 20.83 | 10.00 |
| GO:0008202 | steroid metabolic process | 1.0E-08 | 3.0E-07 | 21.7 | 22 | 14.63 | 12.00 |
| GO:1901617 | organic hydroxy compound biosynthetic process | 8.7E-07 | 3.0E-07 | 21.7 | 22 | 15.25 | 9.00 |
| GO:0008203 | cholesterol metabolic process | 2.6E-06 | 3.0E-07 | 21.7 | 22 | 20.59 | 7.00 |
| GO:1902652 | secondary alcohol metabolic process | 4.3E-06 | 3.0E-07 | 21.7 | 22 | 18.92 | 7.00 |
| GO:0006695 | cholesterol biosynthetic process | 1.1E-05 | 3.0E-07 | 21.7 | 22 | 31.25 | 5.00 |
| GO:1902653 | secondary alcohol biosynthetic process | 1.8E-05 | 3.0E-07 | 21.7 | 22 | 27.78 | 5.00 |
| GO:1901615 | organic hydroxy compound metabolic process | 4.4E-05 | 3.0E-07 | 21.7 | 22 | 7.69 | 10.00 |
| GO:0044283 | small molecule biosynthetic process | 8.0E-05 | 3.0E-07 | 21.7 | 22 | 5.85 | 12.00 |
| GO:0046165 | alcohol biosynthetic process | 1.3E-04 | 3.0E-07 | 21.7 | 22 | 17.86 | 5.00 |
| GO:0008610 | lipid biosynthetic process | 4.1E-04 | 3.0E-07 | 21.7 | 22 | 4.86 | 12.00 |
| GO:0006066 | alcohol metabolic process | 4.5E-04 | 3.0E-07 | 21.7 | 22 | 8.33 | 7.00 |
| GO:0016053 | organic acid biosynthetic process | 1.3E-03 | 3.0E-07 | 21.7 | 22 | 5.97 | 8.00 |
| GO:0046394 | carboxylic acid biosynthetic process | 1.3E-03 | 3.0E-07 | 21.7 | 22 | 5.97 | 8.00 |
| GO:1901607 | alpha-amino acid biosynthetic process | 1.4E-03 | 3.0E-07 | 21.7 | 22 | 10.42 | 5.00 |
| GO:0008652 | cellular amino acid biosynthetic process | 1.6E-03 | 3.0E-07 | 21.7 | 22 | 9.80 | 5.00 |
| GO:0031099 | regeneration | 3.0E-03 | 3.0E-07 | 21.7 | 22 | 4.94 | 8.00 |
| GO:0031329 | regulation of cellular catabolic process | 3.0E-03 | 3.0E-07 | 21.7 | 22 | 5.51 | 7.00 |
| GO:0009894 | regulation of catabolic process | 3.5E-03 | 3.0E-07 | 21.7 | 22 | 5.22 | 7.00 |
| GO:0006520 | cellular amino acid metabolic process | 6.5E-03 | 3.0E-07 | 21.7 | 22 | 4.15 | 8.00 |
| GO:0022600 | digestive system process | 6.9E-03 | 3.0E-07 | 21.7 | 22 | 12.00 | 3.00 |
| GO:1901605 | alpha-amino acid metabolic process | 7.2E-03 | 3.0E-07 | 21.7 | 22 | 5.08 | 6.00 |
| GO:0007586 | digestion | 1.2E-02 | 3.0E-07 | 21.7 | 22 | 9.38 | 3.00 |
| GO:0072330 | monocarboxylic acid biosynthetic process | 1.5E-02 | 3.0E-07 | 21.7 | 22 | 5.97 | 4.00 |
| GO:0031331 | positive regulation of cellular catabolic process | 1.7E-02 | 3.0E-07 | 21.7 | 22 | 5.71 | 4.00 |
| GO:0009896 | positive regulation of catabolic process | 1.9E-02 | 3.0E-07 | 21.7 | 22 | 5.48 | 4.00 |
| GO:0097164 | ammonium ion metabolic process | 2.9E-02 | 3.0E-07 | 21.7 | 22 | 6.25 | 3.00 |
| GO:0015748 | organophosphate ester transport | 3.5E-02 | 3.0E-07 | 21.7 | 22 | 5.77 | 3.00 |
| GO:0006633 | fatty acid biosynthetic process | 3.5E-02 | 3.0E-07 | 21.7 | 22 | 5.77 | 3.00 |
| GO:0001878 | response to yeast | 4.6E-06 | 8.8E-06 | 16.8 | 12 | 25.00 | 6.00 |
| GO:0009620 | response to fungus | 1.2E-05 | 8.8E-06 | 16.8 | 12 | 20.69 | 6.00 |
| GO:0031099 | regeneration | 3.0E-03 | 2.7E-04 | 11.9 | 19 | 4.94 | 8.00 |
| GO:0009611 | response to wounding | 3.3E-03 | 2.7E-04 | 11.9 | 19 | 4.33 | 9.00 |
| GO:0042060 | wound healing | 3.4E-03 | 2.7E-04 | 11.9 | 19 | 4.68 | 8.00 |
| GO:0022600 | digestive system process | 6.9E-03 | 2.7E-04 | 11.9 | 19 | 12.00 | 3.00 |
| GO:0007586 | digestion | 1.2E-02 | 2.7E-04 | 11.9 | 19 | 9.38 | 3.00 |
| GO:0042246 | tissue regeneration | 4.3E-02 | 2.7E-04 | 11.9 | 19 | 4.08 | 4.00 |
| GO:0007599 | hemostasis | 4.5E-02 | 2.7E-04 | 11.9 | 19 | 5.08 | 3.00 |
| GO:0007596 | blood coagulation | 4.5E-02 | 2.7E-04 | 11.9 | 19 | 5.08 | 3.00 |
| GO:0050817 | coagulation | 4.9E-02 | 2.7E-04 | 11.9 | 19 | 4.84 | 3.00 |
| GO:0030162 | regulation of proteolysis | 3.4E-03 | 5.6E-03 | 7.5 | 11 | 4.02 | 10.00 |
| GO:0045861 | negative regulation of proteolysis | 1.7E-02 | 5.6E-03 | 7.5 | 11 | 4.03 | 6.00 |
| GO:0006270 | DNA replication initiation | 6.9E-03 | 1.2E-02 | 6.4 | 0 | 12.00 | 3.00 |
| GO:0048593 | camera-type eye morphogenesis | 6.4E-03 | 1.4E-02 | 6.2 | 17 | 4.64 | 7.00 |
| GO:0048592 | eye morphogenesis | 7.3E-03 | 1.4E-02 | 6.2 | 17 | 4.04 | 8.00 |
| GO:0042462 | eye photoreceptor cell development | 1.9E-02 | 1.4E-02 | 6.2 | 17 | 7.50 | 3.00 |
| GO:0031076 | embryonic camera-type eye development | 3.1E-02 | 1.4E-02 | 6.2 | 17 | 6.12 | 3.00 |
| GO:0001754 | eye photoreceptor cell differentiation | 4.8E-02 | 1.4E-02 | 6.2 | 17 | 4.92 | 3.00 |
| GO:0006979 | response to oxidative stress | 3.7E-03 | 1.4E-02 | 6.2 | 16 | 7.25 | 5.00 |
| GO:1990748 | cellular detoxification | 3.1E-02 | 1.4E-02 | 6.2 | 16 | 6.12 | 3.00 |
| GO:0098869 | cellular oxidant detoxification | 3.1E-02 | 1.4E-02 | 6.2 | 16 | 6.12 | 3.00 |
| GO:0098754 | detoxification | 3.5E-02 | 1.4E-02 | 6.2 | 16 | 5.77 | 3.00 |
| GO:0031589 | cell-substrate adhesion | 9.6E-03 | 1.5E-02 | 6.1 | 10 | 7.02 | 4.00 |
| GO:0007160 | cell-matrix adhesion | 3.2E-02 | 1.5E-02 | 6.1 | 10 | 6.00 | 3.00 |
| GO:0006730 | one-carbon metabolic process | 1.4E-02 | 1.8E-02 | 5.8 | 4 | 8.57 | 3.00 |
| GO:0051241 | negative regulation of multicellular organismal process | 1.3E-02 | 1.8E-02 | 5.8 | 3 | 4.32 | 6.00 |
| GO:0009266 | response to temperature stimulus | 1.7E-02 | 2.1E-02 | 5.6 | 8 | 7.89 | 3.00 |
| GO:0072527 | pyrimidine-containing compound metabolic process | 1.9E-02 | 2.3E-02 | 5.4 | 5 | 7.50 | 3.00 |
| GO:1901136 | carbohydrate derivative catabolic process | 3.2E-02 | 3.9E-02 | 4.7 | 6 | 6.00 | 3.00 |
| GO:0009410 | response to xenobiotic stimulus | 3.5E-02 | 4.0E-02 | 4.6 | 9 | 5.77 | 3.00 |
| GO:0001945 | lymph vessel development | 3.8E-02 | 4.2E-02 | 4.6 | 2 | 5.56 | 3.00 |
| GO:0048864 | stem cell development | 4.1E-02 | 4.3E-02 | 4.5 | 13 | 4.17 | 4.00 |
| GO:0014031 | mesenchymal cell development | 4.1E-02 | 4.3E-02 | 4.5 | 13 | 4.17 | 4.00 |
| GO:0014032 | neural crest cell development | 4.1E-02 | 4.3E-02 | 4.5 | 13 | 4.17 | 4.00 |
| GO:0000188 | inactivation of MAPK activity | 3.4E-04 | 4.6E-02 | 4.4 | 21 | 22.22 | 4.00 |
| GO:0043407 | negative regulation of MAP kinase activity | 5.6E-04 | 4.6E-02 | 4.4 | 21 | 19.05 | 4.00 |
| GO:0043409 | negative regulation of MAPK cascade | 1.4E-03 | 4.6E-02 | 4.4 | 21 | 14.29 | 4.00 |
| GO:0043405 | regulation of MAP kinase activity | 2.0E-03 | 4.6E-02 | 4.4 | 21 | 7.32 | 6.00 |
| GO:0071901 | negative regulation of protein serine/threonine kinase activity | 2.1E-03 | 4.6E-02 | 4.4 | 21 | 12.50 | 4.00 |
| GO:0033673 | negative regulation of kinase activity | 2.7E-03 | 4.6E-02 | 4.4 | 21 | 6.67 | 6.00 |
| GO:0006469 | negative regulation of protein kinase activity | 2.7E-03 | 4.6E-02 | 4.4 | 21 | 6.74 | 6.00 |
| GO:0051348 | negative regulation of transferase activity | 3.3E-03 | 4.6E-02 | 4.4 | 21 | 6.25 | 6.00 |
| GO:0001933 | negative regulation of protein phosphorylation | 3.4E-03 | 4.6E-02 | 4.4 | 21 | 6.12 | 6.00 |
| GO:0042326 | negative regulation of phosphorylation | 3.6E-03 | 4.6E-02 | 4.4 | 21 | 6.00 | 6.00 |
| GO:1902532 | negative regulation of intracellular signal transduction | 8.0E-03 | 4.6E-02 | 4.4 | 21 | 4.96 | 6.00 |
| GO:0071900 | regulation of protein serine/threonine kinase activity | 8.2E-03 | 4.6E-02 | 4.4 | 21 | 4.92 | 6.00 |
| GO:0010563 | negative regulation of phosphorus metabolic process | 9.6E-03 | 4.6E-02 | 4.4 | 21 | 4.72 | 6.00 |
| GO:0045936 | negative regulation of phosphate metabolic process | 9.6E-03 | 4.6E-02 | 4.4 | 21 | 4.72 | 6.00 |
| GO:0031400 | negative regulation of protein modification process | 9.6E-03 | 4.6E-02 | 4.4 | 21 | 4.72 | 6.00 |
| GO:0001706 | endoderm formation | 1.6E-02 | 4.6E-02 | 4.4 | 21 | 8.11 | 3.00 |
| GO:0001704 | formation of primary germ layer | 1.9E-02 | 4.6E-02 | 4.4 | 21 | 5.48 | 4.00 |
| GO:0001666 | response to hypoxia | 4.4E-02 | 4.6E-02 | 4.4 | 15 | 5.17 | 3.00 |
| GO:0070482 | response to oxygen levels | 4.6E-02 | 4.6E-02 | 4.4 | 15 | 5.00 | 3.00 |
| GO:0036293 | response to decreased oxygen levels | 4.6E-02 | 4.6E-02 | 4.4 | 15 | 5.00 | 3.00 |
| GO:0009142 | nucleoside triphosphate biosynthetic process | 4.5E-02 | 4.7E-02 | 4.4 | 7 | 5.08 | 3.00 |
| GO:0033334 | fin morphogenesis | 4.5E-02 | 4.7E-02 | 4.4 | 1 | 5.08 | 3.00 |
| GO:0042541 | hemoglobin biosynthetic process | 1.7E-03 | 6.2E-02 | 4.0 | 14 | 23.08 | 3.00 |
| GO:0020027 | hemoglobin metabolic process | 2.0E-03 | 6.2E-02 | 4.0 | 14 | 21.43 | 3.00 |
| GO:0055076 | transition metal ion homeostasis | 4.9E-02 | 6.2E-02 | 4.0 | 14 | 4.84 | 3.00 |