Table 3. GO level 4 categories over-represented in Stage IIIB and IIIC DEPs.
| Stage | Gene Ontology | Level 4 Categories | Up | Down | Total | |||
|---|---|---|---|---|---|---|---|---|
| gene count | q-value | gene count | q-value | gene count | q-value | |||
| IIIB | Biological Processes | defense response to fungus | 4 (14.8%) | 5.37E-05 | NA | NSS | NA | NSS |
| extracellular matrix organization | NA | NSS | 13 (3.5%) | 7.53E-06 | 14 (3.7%) | 4.86E-05 | ||
| antibacterial humoral response | NA | NSS | NA | NSS | 6 (16.7%) | 4.86E-05 | ||
| antimicrobial humoral response | NA | NSS | NA | NSS | 6 (15.0%) | 4.86E-05 | ||
| Molecular Functions | RAGE receptor binding | 4 (36.4%) | 1.59E-07 | NA | NSS | 4 (36.4%) | 3.92E-05 | |
| RNA binding | 17 (1.1%) | 1.65E-07 | NA | NSS | NA | NSS | ||
| immunoglobulin receptor binding | NA | NSS | 3 (42.9%) | 1.24E-04 | 3 (42.9%) | 3.07E-04 | ||
| Cellular Components | box C/D snoRNP complex | 2 (50.0%) | 8.69E-04 | NA | NSS | NA | NSS | |
| extracellular vesicular exosome | NA | NSS | 47 (1.7%) | 4.72E-15 | 60 (2.2%) | 1.99E-15 | ||
| IgM immunoglobulin complex | NA | NSS | 2 (100.0%) | 2.25E-04 | 2 (100.0%) | 6.81E-04 | ||
| pentameric IgM immunoglobulin complex | NA | NSS | 2 (100.0%) | 2.25E-04 | 2 (100.0%) | 6.81E-04 | ||
| hexameric IgM immunoglobulin complex | NA | NSS | 2 (100.0%) | 2.25E-04 | 2 (100.0%) | 6.81E-04 | ||
| IgA immunoglobulin complex | NA | NSS | 2 (66.7%) | 3.85E-04 | NA | NSS | ||
| monomeric IgA immunoglobulin complex | NA | NSS | 2 (66.7%) | 3.85E-04 | NA | NSS | ||
| polymeric IgA immunoglobulin complex | NA | NSS | 2 (66.7%) | 3.85E-04 | NA | NSS | ||
| IIIC | Biological Processes | muscle system process | NA | NSS | 4 (1.2%) | 1.10E-04 | NA | NSS |
| Cellular Components | contractile fiber | NA | NSS | 5 (2.3%) | 5.92E-08 | 5 (2.3%) | 4.38E-05 | |
| cytoskeleton | NA | NSS | 6 (0.3%) | 7.14E-05 | 9 (0.5%) | 5.87E-04 | ||
The percentages in the parentheses reflect the proportion of the over-represented genes of the input to the total gene number of corresponding GO categories. NA, not available, NSS, not statistically significant.