Table 2.
Enrichment Analysis of the 626 DEGs according to STRING
| A: Functional enrichment of the 626 DEGs for Biological Processes according to STRING | |||
| Biological Process (GO) | |||
| pathway ID | pathway description | count in gene set | false discovery rate |
| GO:0009987 | cellular process | 363 | 5.80E-07 |
| GO:0071704 | organic substance metabolic process | 265 | 0.000675 |
| GO:0044237 | cellular metabolic process | 256 | 0.000684 |
| GO:0008152 | metabolic process | 283 | 0.000785 |
| GO:0006954 | inflammatory response | 30 | 0.00134 |
| GO:0044238 | primary metabolic process | 253 | 0.00504 |
| GO:0044699 | single-organism process | 296 | 0.0303 |
| GO:0051186 | cofactor metabolic process | 21 | 0.0303 |
| GO:0045321 | leukocyte activation | 25 | 0.0329 |
| GO:1901564 | organonitrogen compound metabolic process | 66 | 0.0329 |
| GO:0002274 | myeloid leukocyte activation | 11 | 0.0381 |
| GO:0006807 | nitrogen compound metabolic process | 174 | 0.0381 |
| GO:0001816 | cytokine production | 12 | 0.043 |
| GO:0044763 | single-organism cellular process | 282 | 0.043 |
| B: Cellular Component enrichment of the 626 DEGs for Cellular Component according to STRING | |||
| Cellular Component (GO) | |||
| pathway ID | pathway description | count in gene set | false discovery rate |
| G0:0044424 | intracellular part | 370 | 1.47E-05 |
| GO:0005622 | intracellular | 376 | 1.59E-05 |
| G0:0043227 | membrane-bounded organelle | 343 | 1.59E-05 |
| G0:0043226 | organelle | 354 | 4.39E-05 |
| G0:0043231 | intracellular membrane-bounded organelle | 309 | 0.000327 |
| GO:0043229 | intracellular organelle | 326 | 0.000596 |
| GO:0005623 | cell | 393 | 0.00139 |
| G0:0044464 | cell part | 391 | 0.00195 |
| G0:0005737 | cytoplasm | 294 | 0.00216 |
| GO:0005575 | cellular_component | 423 | 0.00292 |
| GO:0035859 | Seh1-associated complex | 4 | 0.0049 |
| G0:0044194 | cytolytic granule | 3 | 0.0103 |
| G0:0044444 | cytoplasmic part | 221 | 0.0137 |
| G0:0061700 | GATOR2 complex | 3 | 0.0216 |
| G0:0042581 | specific granule | 4 | 0.033 |
| C: KEGG Pathway enrichment of the 88 DEGs that were strongly interconnected and formed a network according to STRING. | |||
| #pathway ID | pathway description | observed gene count | false discovery rate |
| 3050 | Proteasome | 6 | 0.000298 |
| 3013 | RNA transport | 8 | 0.00253 |
| 4144 | Endocytosis | 9 | 0.00253 |
| 564 | Glycerophospholipid metabolism | 6 | 0.00596 |
| 532 | Glycosaminoglycan biosynthesis - chondroitin sulfate / dermatan sulfate | 3 | 0.0256 |
| 4666 | Fc gamma R-mediated phagocytosis | 5 | 0.0256 |
| 5323 | Rheumatoid arthritis | 5 | 0.0256 |
| 601 | Glycosphingolipid biosynthesis - lacto and neolacto series | 3 | 0.0391 |
| 4721 | Synaptic vesicle cycle | 4 | 0.0408 |
| 5120 | Epithelial cell signaling in Helicobacter pylori infection | 4 | 0.0495 |