Table 2.
The overlaps in perturbed member genes between the significant KEGG pathways inferred by GAGE
| TGFb | Cyto | Wnt | MAPK | Jak | p53 | Focal | ECM | |
|---|---|---|---|---|---|---|---|---|
| TGFb | 0 (22) | 5.6E-20(8) | 3.3E-06(2) | 4.3E-10(4) | 3.1E-04(1) | 3.1E-04(1) | 2.9E-06(2) | 4.1E-05(1) |
| Cyto | 5.6E-20(8) | 0(34) | 1 (0) | 3.4E-11(5) | 8.3E-29(11) | 1 (0) | 6.4E-10(4) | 1 (0) |
| Wnt | 3.3E-06(2) | 1 (0) | 0 (24) | 6.9E-10(4) | 2.9E-06(2) | 3.5E-09(3) | 2.3E-08(3) | 1 (0) |
| MAPK | 4.3E-10(4) | 3.4E-11(5) | 6.9E-10(4) | 0 (33) | 7.0E-04(1) | 2.7E-06(2) | 5.5E-10(4) | 1 (0) |
| Jak | 3.1E-04(1) | 8.3E-29(11) | 2.9E-06(2) | 7.0E-04(1) | 0 (21) | 1.4E-04(1) | 3.4E-04(1) | 1 (0) |
| p53 | 3.1E-04(1) | 1 (0) | 3.5E-09(3) | 2.7E-06(2) | 1.4E-04(1) | 0 (15) | 3.0E-09(3) | 1.9E-05(1) |
| Focal | 2.9E-06(2) | 6.4E-10(4) | 2.3E-08(3) | 5.5E-10(4) | 3.4E-04(1) | 3.0E-09(3) | 0 (23) | 2.1E-24(7) |
| ECM | 4.1E-05(1) | 1 (0) | 1 (0) | 1 (0) | 1 (0) | 1.9E-05(1) | 2.1E-24(7) | 0 (8) |
For each cell in the table, in the parenthesis is the number of perturbed member genes overlapping between the significant KEGG pathways; outside is the significance of this overlap between KEGG pathways. Details of overlap analysis are given in Methods section. Full names for these KEGG pathways are: TGF-beta signaling pathway (TGFb), Cytokine-cytokine receptor interaction (Cyto), Wnt signaling pathway (Wnt), MAPK signaling pathway (MAPK), Jak-STAT signaling pathway (Jak), p53 signaling pathway (p53), Focal adhesion (Focal), ECM-receptor interaction (ECM).