Table 3

Top 20 KEGG pathways based on gene number following TNFα treatment
KEGG canonical pathway name Gene number Over-represent fold qValue
Metabolic pathways 39 2.125783 9.13E-05
Pathways in cancer 35 6.322678 5.29E-16
Cytokine-cytokine receptor interaction 33 7.502728 5.05E-17
Cell adhesion molecules (CAMs) 22 9.817002 4.87E-14
Chemokine signaling pathway 22 6.851449 5.71E-11
Focal adhesion 21 6.216256 8.39E-10
MAPK signaling pathway 20 4.412876 5.87E-07
Tight junction 17 7.585865 2.33E-09
Small cell lung cancer 16 11.12455 4.05E-11
Toll-like receptor signaling pathway 16 9.472391 3.54E-10
Regulation of actin cytoskeleton 15 4.152394 3.88E-05
Axon guidance 14 6.489322 5.87E-07
Leukocyte transendothelial migration 13 6.532169 1.44E-06
Epithelial cell signaling in Helicobacter pylori infection 12 10.55196 2.34E-08
Neurotrophin signaling pathway 12 5.649871 1.69E-05
Hematopoietic cell lineage 11 7.474308 3.16E-06
Natural killer cell mediated cytotoxicity 11 4.801016 0.000148
Endocytosis 11 3.517322 0.001595
ECM-receptor interaction 10 7.118389 1.62E-05
Antigen processing and presentation 10 6.718479 2.42E-05

Cheng and Kao

Cheng and Kao BMC Genomics 2012 13:453   doi:10.1186/1471-2164-13-453

Open Data