Table 3.
Top significant pathways (p < 0.05) predicted by IPA for NDV vs. Control by line and day post infection (2 dpi or 6 dpi).
| Group | Pathways | DEGs in the Pathway | P-value | Ratios |
|---|---|---|---|---|
| Leghorn 2 dpi | Retinoic acid mediated apoptosis signaling* | APAF1, PARP9, PARP12, PARP13 | 2.8E-05 | 4/61 |
| Death receptor signaling* | APAF1, PARP9, PARP12, PARP13 | 1.4E-04 | 4/92 | |
| Role of PKR in interferon induction and antiviral response | APAF1, EIF2AK2, STAT1 | 2.1E-04 | 3/40 | |
| Interferon signaling | STAT1, TAP1 | 4.8E-03 | 2/36 | |
| Complement system | C1S, SERPING1 | 5.1E-03 | 2/37 | |
| Fayoumi 2 dpi | Role of lipids/lipid rafts in the pathogenesis of influenza | RSAD2 | 0.014 | 1/22 |
| Complement system | C1S | 0.024 | 1/37 | |
| Role of PKR in interferon induction and antiviral response | EIF2AK2 | 0.026 | 1/40 | |
| Role of RIG1-like receptors in antiviral innate immunity | TRIM25 | 0.028 | 1/43 | |
| Retinoic acid mediated apoptosis signaling | PARP9 | 0.040 | 1/61 | |
| Leghorn 6 dpi | Granzyme A signaling | GZMA | 0.011 | 1/20 |
| Role of lipids/lipid rafts in the pathogenesis of influenza | RSAD2 | 0.012 | 1/22 |
Note: Pathways labeled with * were predicted to be significantly upregulated (z-score >2). All differentially expressed genes (DEGs) were significantly upregulated (False discovery rate <0.05). No pathway was predicted for Fayoumi at 6 dpi. Ratios = (Number of DEGs in a pathways)/(Total number of genes in the pathway).