From: Extending pathways and processes using molecular interaction networks to analyse cancer genome data
Cellular Process database | Cellular process | ORA Q-value before/after extension | Pathway size before/after extension | Number of mutated genes in new pathway | Number of mutated genes among added genes | Mutated genes among added genes |
---|---|---|---|---|---|---|
Reactome | Hemostasis | 0.475/5.18e-06 | 221/278 | 19 | 4 | LRP1B, TFPI2 PON1, SIGLEC11 |
KEGG | Tight junction | 1.48E-4/4.5e-05 | 106/126 | 14 | 3 | RASIP1, RASGRP3, PLEKHG2 |
KEGG | MAPK signaling pathway | 3.35E-4/4.87e-05 | 225/279 | 21 | 6 | DOCK2, MAPKBP1, SLC9A5 RASIP1, DUSP19, PLEKHG2 |
KEGG | Cell adhesion molecules | 2.87E-4/1.03E-4 | 109/116 | 12 | 2 | TNR, SEC14L3 |
KEGG | Wnt signaling pathway | 3.35E-4/1.39E-4 | 123/147 | 14 | 3 | MAPKBP1, PLEKHG2, ANKRD6 |
KEGG | Neuroactive ligand- receptor interaction | 3.35E-4/1.72E-4 | 198/217 | 17 | 3 | EML1, ACE |
BioCarta | MAPKinase Signaling Pathway | 1.33E-3/2.89E-4 | 81/111 | 8 | 2 | MAPKBP1, DUSP19 |
Reactome | Apoptosis | 3.7E-2/4.42E-4 | 124/146 | 11 | 2 | BCL2A1, RASGRP3 |
Reactome | Signaling by PDGF | 5.72E-3/4.43E-4 | 61/121 | 10 | 3 | VPS13A, LIG3 FMR2 |
BioCarta | Cell Cycle G1/S Check Point | 1.7E-3/5.06E-4 | 27/34 | 5 | 1 | TGIF2 |
BioCarta | Agrin Postsynaptic Differentiation | 1.27E-2/8.21E-4 | 27/38 | 5 | 2 | PGM5, PLEKHG2 |
BioCarta | p38 MAPK Signaling Pathway | 3.25E-3/1.13E-3 | 34/42 | 5 | 1 | PLEKHG2 |
BioCarta | ALK in cardiac myocytes | 2.89E-3/1.25E-3 | 32/44 | 5 | 1 | TBX5 |
KEGG | Fc epsilon RI signaling pathway | 2.69E-2/2.71E-3 | 67/114 | 10 | 5 | DOCK2, MAPKBP1, DUSP19, ATF2, RASGRP3 |
KEGG | ErbB signaling pathway | 2.32E-2/3.52E-3 | 86/196 | 13 | 7 | VPS13A, MAPKBP1, NEK8, LIG3, DUSP19, AFF2, GLTSCR1 |
KEGG | Regulation of actin cytoskeleton | 4.94E-3/2.72E-3 | 184/236 | 15 | 4 | RASIP1, CDC42BPA, PLEKHG2, CYFIP1 |
BioCarta | HIV-I Nef negative effector of Fas and TNF | 7.88E-3/4.78E-3 | 50/66 | 5 | 1 | DUSP19 |
KEGG | p53 signaling pathway | 5.62E-3/5.44E-3 | 59/64 | 7 | 1 | PPP2R4 |
Reactome | Signaling in Immune system | 0.459/7.02E-3 | 228/266 | 12 | 1 | SEC14L3 |