Table 2.
Significant pathways by pathway analysis of differentially expressed (DE) genes detected by AW method in KEGG.
| PathwayID | Pathway name | C | O | E | R | P-Value | FDR |
|---|---|---|---|---|---|---|---|
| hsa04721 | Synaptic vesicle cycle | 63 | 19 | 2.43 | 7.81 | 1.01E-12 | 3.06E-10 |
| hsa00190 | Oxidative phosphorylation | 133 | 24 | 5.13 | 4.67 | 1.69E-10 | 2.57E-08 |
| hsa05016 | Huntington’s disease | 193 | 26 | 7.45 | 3.48 | 1.94E-08 | 1.96E-06 |
| hsa03050 | Proteasome | 44 | 12 | 1.69 | 7.06 | 6.04E-08 | 4.57E-06 |
| hsa05120 | Epithelial cell signaling in Helicobacter pylori infection | 68 | 14 | 2.62 | 5.33 | 2.22E-07 | 1.35E-05 |
| hsa05012 | Parkinson’s disease | 142 | 19 | 5.48 | 3.46 | 1.90E-06 | 9.59E-05 |
| hsa05010 | Alzheimer’s disease | 171 | 21 | 6.60 | 3.18 | 2.25E-06 | 9.72E-05 |
| hsa05130 | Pathogenic Escherichia coli infection | 55 | 11 | 2.12 | 5.18 | 6.13E-06 | 0.000232 |
| hsa05110 | Vibrio cholerae infection | 51 | 10 | 1.96 | 5.07 | 1.96E-05 | 0.000661 |
| hsa04145 | Phagosome | 154 | 17 | 5.94 | 2.85 | 8.43E-05 | 0.002554 |
The pathways are ordered by their p-values. C, represents the number of reference genes in the category; O, represents the number of genes in the gene set and also in the category; E, represents expected number in the category; R, represents the ratio of enrichment.