Table 2 Pathway enrichment analysis of MeDEGs
From: Comprehensive analysis of DNA methylation and gene expression profiles in cholangiocarcinoma
Term ID | Term description | Count | False discovery rate |
|---|---|---|---|
Hypermethylated downregulated genes | |||
 KEGG:hsa04610 | Complement and coagulation cascades | 7 | 2.39E−05 |
 KEGG:hsa00982 | Drug metabolism—cytochrome P450 | 6 | 8.49E−05 |
 KEGG:hsa04976 | Bile secretion | 6 | 8.49E−05 |
 KEGG:hsa04979 | Cholesterol metabolism | 4 | 3.50E−03 |
 KEGG:hsa00830 | Retinol metabolism | 4 | 7.10E−03 |
 KEGG:hsa00980 | Metabolism of xenobiotics by cytochrome P450 | 4 | 9.00E−03 |
 KEGG:hsa01100 | Metabolic pathways | 16 | 9.00E−03 |
 KEGG:hsa00983 | Drug metabolism—other enzymes | 4 | 9.30E−03 |
 KEGG:hsa05020 | Prion diseases | 3 | 9.30E−03 |
 KEGG:hsa05204 | Chemical carcinogenesis | 4 | 9.30E−03 |
 Reactome:HSA-1430728 | Metabolism | 28 | 1.10E−04 |
 Reactome:HSA-211999 | CYP2E1 reactions | 4 | 1.10E−04 |
 Reactome:HSA-9027307 | Biosynthesis of maresin-like SPMs | 3 | 6.50E−04 |
 Reactome:HSA-114608 | Platelet degranulation | 6 | 1.70E−03 |
 Reactome:HSA-76002 | Platelet activation, signaling and aggregation | 8 | 1.70E−03 |
 Reactome:HSA-425366 | Transport of bile salts and organic acids, metal ions and amine compounds | 5 | 2.00E−03 |
 Reactome:HSA-211859 | Biological oxidations | 7 | 2.30E−03 |
 Reactome:HSA-977606 | Regulation of complement cascade | 4 | 2.30E−03 |
 Reactome:HSA-373076 | Class A/1 (Rhodopsin-like receptors) | 8 | 2.90E−03 |
 Reactome:HSA-211945 | Phase I—functionalization of compounds | 5 | 3.10E−03 |
Hypomethylated upregulated genes | |||
 KEGG:hsa04110 | Cell cycle | 5 | 4.16E−02 |
 Reactome:HSA-8852405 | Signaling by MST1 | 3 | 1.50E−03 |
 Reactome:HSA-1640170 | Cell cycle | 11 | 1.08E−02 |
 Reactome:HSA-453279 | Mitotic G1-G1/S phases | 6 | 1.08E−02 |
 Reactome:HSA-69278 | Cell cycle, mitotic | 10 | 1.08E−02 |
 Reactome:HSA-1538133 | G0 and Early G1 | 3 | 2.07E−02 |
 Reactome:HSA-174143 | APC/C-mediated degradation of cell cycle proteins | 4 | 2.54E−02 |
 Reactome:HSA-425366 | Transport of bile salts and organic acids, metal ions and amine compounds | 4 | 2.54E−02 |
 Reactome:HSA-6806834 | Signaling by MET | 4 | 2.54E−02 |
 Reactome:HSA-6806942 | MET receptor activation | 2 | 2.54E−02 |
 Reactome:HSA-425407 | SLC-mediated transmembrane transport | 6 | 2.74E−02 |