Table 2.
Assessment of pathway common deregulation profiles in lung disease communities.
| Community (color*) | Diseases | Deregulated pathway | Sink (GeneID/Symbol) | Associated molecular process |
|---|---|---|---|---|
| Cluster 1 (Red) | SARC TB COPD |
B cell receptor signaling pathway | FOS/2353 | Immune response (UP) |
| Chemokine signaling pathway | WAS/7454 | Regulation of cytoskeleton (UP) | ||
| NF-kappa B signaling pathway | CCL19/6363 | Lymphoid-tissue homing (UP) | ||
| Toll-like receptor signaling pathway | CCL3L3/414062 | Chemotactic effect (UP) | ||
| Cluster 2 (Orange) | RB-ILD HP COP |
Hippo signaling pathway | SERPINE1/5054 | Antiapoptosis (DN) |
| Cluster 3 (Light green) | UIP_IPF ILD_OTHER ILD_UNK NSIP FU |
Cytokine-cytokine receptor interaction | TNFRSF17/608 | TNF Family (UP) |
| Cytokine-cytokine receptor interaction | CXCR5/643 | CXC Family (UP) | ||
| Wnt signaling pathway | MMP7/4316 | Cell cycle (UP) | ||
| Cluster 4 (Green) | ADC SQC LCC LCO BAS LCNE SCC |
Alanine, aspartate, and glutamate metabolism | GFPT1/2673 | Amino sugar metabolism (UP) |
| Alanine, aspartate, and glutamate metabolism | ASPA/443 | L-aspartate (UP) | ||
| Glycine, serine, and threonine metabolism | AOC2/314 | Methylglyoxal (DN) | ||
| Glycolysis/Gluconeogenesis | PGK1/5230 | Glycerate1,3P (UP) | ||
| Purine metabolism | PGM1/5236 | Ribose-5P (UP) | ||
| Purine metabolism | GDA/9615 | Guanine (UP) | ||
| Pyrimidine metabolism | TK1/7083 | dUMP(UP) | ||
| Adrenergic signaling in cardiomyocytes | AKT3/10000 | Apoptosis (DN) | ||
| p53 signaling pathway | IGF1/3479 | Apoptosis (DN) | ||
| p53 signaling pathway | GTSE1/51512 | DNA damage prevention & repair (UP) | ||
| Progesterone-mediated oocyte maturation | ANAPC10/10393 | Metaphase arrest (DN) | ||
| Progesterone-mediated oocyte maturation | CDK1/983 | Cell cycle (UP) |
*
DIP, CARCI, and AIP formed separate single member communities; UP, up-regulation; DN, downregulation.