Table 1.
Rank | Pathway name | Source | Pathway size (genes) |
P-value (LCT) |
FDR |
---|---|---|---|---|---|
1 | TNF/stress-related signaling pathway | BioCarta | 25 | 0.0007 | 0.180 |
2 | Bole of MAL in Rho-mediated activation of SRF pathway | BioCarta | 19 | 0.0009 | 0.180 |
3 | Antigen processing and presentation | KEGG | 88 | 0.0011 | 0.180 |
4 | Hypoxia and p53 in the cardiovascular system pathway | BioCarta | 23 | 0.0019 | 0.192 |
5 | Glycerophospholipid metabolism | KEGG | 66 | 0.0022 | 0.192 |
6 | Chaperones modulate interferon signaling pathway | BioCarta | 19 | 0.0023 | 0.192 |
7 | Small cell lung cancer | KEGG | 87 | 0.0035 | 0.218 |
8 | Acetylation and deacetylation of RelA in the nucleus pathway | BioCarta | 16 | 0.0047 | 0.245 |
9 | Signal transduction through IL1R pathway | BioCarta | 33 | 0.0059 | 0.269 |
10 | CBL-mediated ligand-induced downregulation of EGF receptors pathway | BioCarta | 13 | 0.0066 | 0.276 |
11 | Rho cell motility signaling pathway | BioCarta | 32 | 0.0092 | 0.333 |
12 | Role of PI3K subunit p85 in the regulation of actin organization and cell migration pathway | BioCarta | 16 | 0.0120 | 0.377 |
13 | Non-small cell lung cancer | KEGG | 54 | 0.0154 | 0.436 |
14 | Phosphatidylinositol signaling system | KEGG | 77 | 0.0156 | 0.436 |
15 | VEGF signaling pathway | KEGG | 74 | 0.0232 | 0.582 |
16 | Calcium signaling pathway | KEGG | 179 | 0.0282 | 0.582 |
17 | CD40L signaling pathway | BioCarta | 15 | 0.0300 | 0.582 |
18 | Endometrial cancer | KEGG | 52 | 0.0311 | 0582 |
19 | Cyclins and cell Cycle regulation pathway | BioCarta | 23 | 0.0313 | 0.582 |
20 | MAPK signaling pathway | KEGG | 267 | 0.0335 | 0.582 |
21 | Complement and coagulation cascades | KEGG | 69 | 0.0383 | 0.636 |
22 | Hedgehog signaling pathway | KEGG | 57 | 0.0438 | 0.636 |
23 | Graft-versus-host disease | KEGG | 42 | 0.0460 | 0.636 |
24 | Ras-independent pathway in NK cell-mediated cytotoxicity pathway | BioCarta | 20 | 0.0469 | 0.636 |
25 | Classical complement pathway | BioCarta | 14 | 0.0484 | 0.639 |
Abbreviations: FDR, false discovery rate; KEGG, Kyoto Encyclopedia of Genes and Genomes; LCT, linear combination test.
All pathways with P < 0.05 are shown.