Table 4. List of all pathways identified as statistically significant by each method compared in this study and their respective ranks (by p-value) in the analysis of a Dengue fever gene expression dataset.
The entries in bold are significant largely due to sharing genes with other more relevant pathways.
| DAVID | GSEA | AF | gProfileR | InnateDB | SIGORA | |
|---|---|---|---|---|---|---|
| Systemic lupus erythematosus | 1 | 3 | 2 | 1 | 1 | |
| Hepatitis C | 10 | 2 | ||||
| Complement and coagulation cascades | 2 | 3 | 3 | 3 | ||
| RIG-I-like receptor signaling pathway | 1 | 3 | 9 | 4 | ||
| Cytosolic DNA-sensing pathway | 2 | 1 | 4 | 5 | ||
| Osteoclast differentiation | 7 | 6 | ||||
| Chemokine signaling pathway | 6 | 7 | ||||
| Lysosome | 8 | |||||
| Antigen processing and presentation | 9 | 9 | ||||
| NOD-like receptor signaling pathway | 4 | 4 | 10 | |||
| Toll-like receptor signaling pathway | 6 | 8 | 5 | 11 | ||
| Staphylococcus aureus infection | 2 | |||||
| Long term potentiation | 10 | |||||
| Leishmania infection | 5 | 11 | ||||
| Ribosome | 5 | |||||
| Malaria | 6 | |||||
| Allograft rejection | 7 | |||||
| Prion diseases | 12 | 8 | ||||
| Measles | 1 | |||||
| Influenza A | 2 | |||||
| Herpes simplex infection | 4 | |||||
| Pertussis | 5 |