Table 1.
Results of functional enrichment analysis for three clusters.
| Category | Term | #genes | p-value |
|---|---|---|---|
| Cluster A | |||
| GOTERM_BP_FAT | GO:0008283: cell proliferation | 13 | 0.0027 |
| GOTERM_BP_FAT | GO:0001775: cell activation | 10 | 0.0039 |
| GOTERM_BP_FAT | GO:0006916: anti-apoptosis | 8 | 0.0070 |
| GOTERM_BP_FAT | GO:0040007: growth | 7 | 0.0144 |
| KEGG_PATHWAY | hsa05222: Small cell lung cancer | 5 | 0.0442 |
| GOTERM_BP_FAT | GO:0001568: blood vessel development | 7 | 0.0497 |
| Cluster B | |||
| GOTERM_BP_FAT | GO:0007596: blood coagulation | 5 | 0.00034 |
| GOTERM_BP_FAT | GO:0043066: negative regulation of apoptosis | 8 | 0.0056 |
| GOTERM_BP_FAT | GO:0043069: negative regulation of programmed cell death | 8 | 0.0060 |
| GOTERM_BP_FAT | GO:0060548: negative regulation of cell death | 8 | 0.0061 |
| GOTERM_BP_FAT | GO:0045765: regulation of angiogenesis | 4 | 0.0066 |
| GOTERM_BP_FAT | GO:0006916: anti-apoptosis | 6 | 0.0083 |
| GOTERM_BP_FAT | GO:0008283: cell proliferation | 8 | 0.0164 |
| KEGG_PATHWAY | hsa05200: Pathways in cancer | 8 | 0.0237 |
| GOTERM_BP_FAT | GO:0016477: cell migration | 6 | 0.0260 |
| PIR_SUPERFAMILY | PIRSF001719: fos transforming protein | 2 | 0.0334 |
| GOTERM_BP_FAT | GO:0008284: positive regulation of cell proliferation | 7 | 0.0396 |
| INTERPRO | IPR000837: Fos transforming protein | 2 | 0.0443 |
| Cluster C | |||
| GOTERM_BP_FAT | GO:0006916: anti-apoptosis | 9 | 0.0001 |
| GOTERM_BP_FAT | GO:0043066: negative regulation of apoptosis | 11 | 0.0001 |
| GOTERM_BP_FAT | GO:0043069: negative regulation of programmed cell death | 11 | 0.0001 |
| GOTERM_BP_FAT | GO:0060548: negative regulation of cell death | 11 | 0.0001 |
| INTERPRO | IPR011539: Rel homology | 3 | 0.0014 |
| INTERPRO | IPR000451: NF-kappa-B/Rel/dorsal | 3 | 0.0014 |
| GOTERM_BP_FAT | GO:0043123: positive regulation of I-kappaB kinase/NF-kappaB cascade | 5 | 0.0035 |
| GOTERM_BP_FAT | GO:0043122: regulation of I-kappaB kinase/NF-kappaB cascade | 5 | 0.0050 |
| BIOCARTA | h_nthiPathway: NFκB activation by Nontypeable Hemophilus influenzae | 4 | 0.0066 |
| GOTERM_BP_FAT | GO:0016477: cell migration | 7 | 0.0087 |
| GOTERM_BP_FAT | GO:0030155: regulation of cell adhesion | 5 | 0.0117 |
| KEGG_PATHWAY | hsa05222: Small cell lung cancer | 5 | 0.0125 |
| PIR_SUPERFAMILY | PIRSF037644: inhibitor of apoptosis protein with CARD domain | 2 | 0.0129 |
| GOTERM_CC_FAT | GO:0033256: I-kappaB/NF-kappaB complex | 2 | 0.0233 |
| KEGG_PATHWAY | hsa05200: Pathways in cancer | 9 | 0.0234 |
| GOTERM_BP_FAT | GO:0030334: regulation of cell migration | 5 | 0.0235 |
Functional enrichment for each cluster was evaluated by using DAVID. The following three clusters have enrichment of cell proliferation, apoptosis and angiogenesis that are important function for interpreting the estimated TNF-induced gene networks.