Table 4.
Gene ontologies representative of genes overexpressed in matched primary and recurrent ependymoma pairs (Groups A1, A2, B1, and B2)
| Up in Group A1 versus Group A2 | |||||
|---|---|---|---|---|---|
| GO Term ID | Rank | Function | p-value | FDR | Enrichment score |
| 9611 | 1 | Response to wounding | 4.15E-14 | 7.07E-11 | 4.29 |
| 6952 | 2 | Defense response | 4.67E-09 | 7.97E-06 | 3.22 |
| 6954 | 3 | Inflammatory response | 8.16E-09 | 1.39E-05 | 4.31 |
| 42127 | 4 | Regulation of cell proliferation | 1.72E-07 | 2.93E-04 | 2.67 |
| 48545 | 5 | Response to steroid hormone stimulus | 1.86E-07 | 3.18E-04 | 5.16 |
| 9991 | 6 | Response to extracellular stimulus | 2.28E-07 | 3.89E-04 | 4.77 |
| 31667 | 7 | Response to nutrient levels | 2.65E-07 | 4.53E-04 | 5.03 |
| 10033 | 8 | Response to organic substance | 6.48E-07 | 0.001 | 2.67 |
| 7584 | 9 | Response to nutrient | 7.91E-07 | 0.001 | 5.83 |
| 42060 | 10 | Wound healing | 9.72E-07 | 0.002 | 4.88 |
| Up in Group A2 versus Group A1 | |||||
|---|---|---|---|---|---|
| GO Term ID | Rank | Function | p-value | FDR | Enrichment score |
| 6800 | 1 | Oxygen and reactive oxygen species metabolic process | 0.036 | 42.003 | 9.93 |
| 42135 | 2 | Neurotransmitter catabolic process | 0.039 | 45.220 | 49.28 |
| 8016 | 3 | Regulation of heart contraction | 0.046 | 50.578 | 8.64 |
| 44057 | 4 | Regulation of system process | 0.048 | 52.286 | 3.59 |
| 42573 | 5 | Retinoic acid metabolic process | 0.052 | 55.183 | 36.96 |
| 42402 | 6 | Biogenic amine catabolic process | 0.065 | 63.334 | 29.57 |
| 10324 | 7 | Membrane invagination | 0.074 | 68.518 | 4.03 |
| 6897 | 8 | Endocytosis | 0.074 | 68.518 | 4.03 |
| 30198 | 9 | Extracellular matrix organization | 0.078 | 70.389 | 6.40 |
| 42445 | 10 | Hormone metabolic process | 0.08 | 71.614 | 6.28 |
| Up in Group B1 versus Group B2 | |||||
|---|---|---|---|---|---|
| GO Term ID | Rank | Function | p-value | FDR | Enrichment score |
| 45664 | 1 | Regulation of neuron differentiation | 0.004 | 5.171 | 12.33 |
| 21953 | 2 | Central nervous system neuron differentiation | 0.004 | 5.516 | 30.75 |
| 50767 | 3 | Regulation of neurogenesis | 0.007 | 9.383 | 9.88 |
| 51960 | 4 | Regulation of nervous system development | 0.01 | 13.66 | 8.54 |
| 60284 | 5 | Regulation of cell development | 0.012 | 16.094 | 8.0 |
| 10629 | 6 | Negative regulation of gene expression | 0.03 | 35.031 | 4.07 |
| 10558 | 7 | Negative regulation of macromolecule biosynthetic process | 0.039 | 42.917 | 3.75 |
| 31327 | 8 | Negative regulation of cellular biosynthetic process | 0.042 | 45.522 | 3.65 |
| 9890 | 9 | Negative regulation of biosynthetic process | 0.045 | 47.757 | 3.58 |
| 45892 | 10 | Negative regulation of transcription, DNA-dependent | 0.051 | 52.415 | 4.61 |
| Up in Group B2 versus Group B1 | |||||
|---|---|---|---|---|---|
| GO Term ID | Rank | Function | p-value | FDR | Enrichment score |
| 6955 | 1 | Immune response | 9.80E-36 | 1.65E-32 | 6.21 |
| 6952 | 2 | Defense response | 7.86E-24 | 1.32E-20 | 5.35 |
| 6954 | 3 | inflammatory response | 1.38E-17 | 2.32E-14 | 6.49 |
| 9611 | 4 | Response to wounding | 2.12E-17 | 3.57E-14 | 4.92 |
| 9615 | 5 | Response to virus | 8.07E-15 | 1.36E-11 | 11.39 |
| 2504 | 6 | Antigen processing and presentation of peptide or polysaccharide antigen via MHC class II | 1.99E-12 | 3.36E-09 | 22.57 |
| 19882 | 7 | Antigen processing and presentation | 6.39E-10 | 1.08E-06 | 10.47 |
| 2684 | 8 | Positive regulation of immune system process | 1.51E-09 | 2.54E-06 | 5.48 |
| 48584 | 9 | Positive regulation of response to stimulus | 8.02E-09 | 1.35E-05 | 5.26 |
| 50778 | 10 | Positive regulation of immune response | 1.12E-08 | 1.88E-05 | 6.85 |