Table 3.
Top 10 enriched GO terms in T1 vs. T2, T1 vs. T3 and T2 vs. T3.
| Comparison between two groups | Category | GO ID | Description | GeneRatio | BgRatio | P value | Count | Up | Down | |
|---|---|---|---|---|---|---|---|---|---|---|
| T1 vs. T2 |
BP | GO:0006468 | protein phosphorylation | 253/2434 | 407/4798 | 8.19E-07 | 253 | 105 | 148 | |
| BP | GO:0016310 | phosphorylation | 268/2434 | 434/4798 | 8.48E-07 | 268 | 113 | 155 | ||
| MF | GO:0004672 | protein kinase activity | 256/4089 | 414/7920 | 1.12E-05 | 256 | 106 | 150 | ||
| MF | GO:0003700 | DNA binding transcription factor activity | 143/4089 | 221/7920 | 4.66E-05 | 143 | 54 | 89 | ||
| MF | GO:0016773 | phosphotransferase activity, alcohol group as acceptor | 286/4089 | 474/7920 | 5.21E-05 | 286 | 114 | 172 | ||
| MF | GO:0140110 | transcription regulator activity | 160/4089 | 251/7920 | 5.54E-05 | 160 | 60 | 100 | ||
| MF | GO:0016301 | kinase activity | 285/4089 | 473/7920 | 6.20E-05 | 285 | 116 | 169 | ||
| BP | GO:0051252 | regulation of RNA metabolic process | 235/2434 | 398/4798 | 0.000311 | 235 | 102 | 133 | ||
| BP | GO:0019219 | regulation of nucleobase-containing compound metabolic process | 237/2434 | 402/4798 | 0.000333 | 237 | 104 | 133 | ||
| BP | GO:0006355 | regulation of transcription, DNA-templated | 234/2434 | 397/4798 | 0.000371 | 234 | 101 | 133 | ||
| T1 vs. T3 |
CC | GO:0098796 | membrane protein complex | 16/186 | 88/2755 | 0.000188 | 16 | 5 | 11 | |
| MF | GO:0140098 | catalytic activity, acting on RNA | 18/585 | 104/7917 | 0.000544 | 18 | 2 | 16 | ||
| CC | GO:0016469 | proton-transporting two-sector ATPase complex | 6/186 | 18/2755 | 0.000818 | 6 | 0 | 6 | ||
| BP | GO:0006520 | cellular amino acid metabolic process | 12/340 | 63/4790 | 0.001322 | 12 | 1 | 11 | ||
| BP | GO:1902600 | proton transmembrane transport | 6/340 | 20/4790 | 0.002019 | 6 | 0 | 6 | ||
| BP | GO:0015988 | energy coupled proton transmembrane transport, against electrochemical gradient | 5/340 | 15/4790 | 0.002899 | 5 | 0 | 5 | ||
| BP | GO:0015991 | ATP hydrolysis coupled proton transport | 5/340 | 15/4790 | 0.002899 | 5 | 0 | 5 | ||
| BP | GO:0090662 | ATP hydrolysis coupled transmembrane transport | 5/340 | 15/4790 | 0.002899 | 5 | 0 | 5 | ||
| BP | GO:0099131 | ATP hydrolysis coupled ion transmembrane transport | 5/340 | 15/4790 | 0.002899 | 5 | 0 | 5 | ||
| BP | GO:0099132 | ATP hydrolysis coupled cation transmembrane transport | 5/340 | 15/4790 | 0.002899 | 5 | 0 | 5 | ||
| T2 vs. T3 |
BP | GO:0016310 | phosphorylation | 250/2298 | 433/4775 | 1.67E-05 | 250 | 142 | 108 | |
| BP | GO:0007155 | cell adhesion | 75/2298 | 112/4775 | 3.63E-05 | 75 | 44 | 31 | ||
| BP | GO:0022610 | biological adhesion | 75/2298 | 112/4775 | 3.63E-05 | 75 | 44 | 31 | ||
| BP | GO:0006468 | protein phosphorylation | 233/2298 | 406/4775 | 5.78E-05 | 233 | 134 | 99 | ||
| BP | GO:0019219 | regulation of nucleobase-containing compound metabolic process | 229/2298 | 400/4775 | 8.33E-05 | 229 | 113 | 116 | ||
| BP | GO:0051171 | regulation of nitrogen compound metabolic process | 233/2298 | 408/4775 | 8.96E-05 | 233 | 114 | 119 | ||
| BP | GO:0080090 | regulation of primary metabolic process | 233/2298 | 408/4775 | 8.96E-05 | 233 | 114 | 119 | ||
| BP | GO:0031323 | regulation of cellular metabolic process | 236/2298 | 414/4775 | 9.45E-05 | 236 | 115 | 121 | ||
| BP | GO:0051252 | regulation of RNA metabolic process | 227/2298 | 397/4775 | 9.99E-05 | 227 | 113 | 114 | ||
| BP | GO:0010556 | regulation of macromolecule biosynthetic process | 229/2298 | 401/4775 | 0.000104 | 229 | 114 | 115 | ||
Abbreviation: GO, gene ontology.