Table 3.
Top 5 canonical pathways significantly regulated (p-value<0.05) from the genes in each module of the SOM analysis, as assessed by IPA (Ingenuity Pathway Analysis). p-values are indicated in parentheses.
| Module | Canonical pathways (p-value) |
|---|---|
| Cluster 1 (915 genes) | |
| 1_6 | IL-12 Signaling and Production in Macrophages (1.58E-06), Prolactin Signaling (7.59E-05), PKCθ Signaling in T Lymphocytes (8.32E-05), CTLA4 Signaling in Cytotoxic T Lymphocytes (1.17E-04) |
| 1_6 / 1_7 | Granulocyte Adhesion and Diapedesis (9.33E-05 / 1.58E-12) |
| 1_7 | Altered T Cell and B Cell Signaling in Rheumatoid Arthritis (1.26E-13), Dendritic Cell Maturation (2.00E-13), Agranulocyte Adhesion and Diapedesis (3.09E-10), Communication between Innate and Adaptive Immune Cells (4.90E-10) |
| 2_6 | Semaphorin Signaling in Neurons (7.59E-06), Toll-like Receptor Signaling (8.51E-06), Tec Kinase Signaling (8.91E-06), LXR/RXR Activation (6.76E-05), CD28 Signaling in T Helper Cells (6.76E-05) |
| 2_7 | Cell Cycle Control of Chromosomal Replication (5.37E-05), Role of IL-17A in Psoriasis (2.29E-03), Estrogen-mediated S-phase Entry (1.62E-02), p53 Signaling (3.39E-02), Adenine and Adenosine Salvage III (3.98E-02) |
| 3_7 | Mitotic Roles of Polo-Like Kinase (2.24E-04), G Beta Gamma Signaling (1.41E-03), Chemokine Signaling (2.34E-03), HGF Signaling (2.51E-03), fMLP Signaling in Neutrophils (3.39E-03) |
| Cluster 2 (1728 genes) | |
| 5_1 | Catecholamine Biosynthesis (2.88E-05), Mineralocorticoid Biosynthesis (1.26E-02), Noradrenaline and Adrenaline Degradation (1.51E-02), Glucocorticoid Biosynthesis (1.55E-02), VDR/RXR Activation (1.55E-02) |
| 6_1 | Flavin Biosynthesis IV (Mammalian) (1.58E-04), Tryptophan Degradation X (Mammalian, via Tryptamine) (9.55E-04), Glutathione-mediated Detoxification (2.88E-03), Glycogen Degradation II (4.17E-03) |
| 6_1 / 7_1 | Ethanol Degradation II (4.07E-03 / 3.98E-07) |
| 6_2 | Heme Biosynthesis II (2.34E-04), Tetrapyrrole Biosynthesis II (2.04E-03), Sphingomyelin Metabolism (4.17E-03), Ubiquinol-10 Biosynthesis (Eukaryotic) (1.05E-02) |
| 6_2 / 7_2 / 7_3 | Mitochondrial Dysfunction (1.38E-02 / 1.26E-13 / 5.01E-15) |
| 7_1 | Glycine Betaine Degradation (9.77E-08), Nicotine Degradation II (3.24E-07), Superpathway of Methionine Degradation (1.35E-06), Serotonin Degradation (1.74E-06) |
| 7_2 | TCA Cycle II (Eukaryotic) (1.48E-08), Valine Degradation I (1.26E-04), Branched-chain α-keto acid Dehydrogenase Complex (1.32E-03) |
| 7_2 / 7_3 | Fatty Acid β-oxidation I (8.51E-04 / 1.86E-03) |
| 7_3 | L-glutamine Biosynthesis II (tRNA-dependent) (3.39E-04), Coenzyme A Biosynthesis (1.00E-03), Stearate Biosynthesis I (Animals) (3.02E-03) |