Table 2.
Reactome pathways enriched in differentially expressed genes in DFT1.NLRC5
| Reactome ID | Pathway | Count | Term size | p value | p.adjust | Genes |
|---|---|---|---|---|---|---|
| Upregulated | ||||||
| R-HSA-1236974 | ER-Phagosome pathway | 4 | 74 | 4.69E-05 | 4.75E-03 | B2M, PSMB8, PSMB9, TAP1 |
| R-HSA-1168372 | Downstream signaling events of B Cell Receptor (BCR) | 4 | 80 | 6.37E-05 | 4.75E-03 | NFATC1, PRKCB, PSMB8, PSMB9 |
| R-HSA-1236975 | Antigen processing-Cross presentation | 4 | 81 | 6.69E-05 | 4.75E-03 | B2M, PSMB8, PSMB9, TAP1 |
| R-HSA-983705 | Signaling by the B Cell Receptor (BCR) | 4 | 104 | 1.77E-04 | 9.44E-03 | NFATC1, PRKCB, PSMB8, PSMB9 |
| R-HSA-3858494 | Beta-catenin independent WNT signaling | 4 | 129 | 4.06E-04 | 1.73E-02 | NFATC1, PRKCB, PSMB8, PSMB9 |
| R-HSA-1169091 | Activation of NF-kappaB in B cells | 3 | 64 | 7.19E-04 | 2.55E-02 | PRKCB, PSMB8, PSMB9 |
| Downregulated | ||||||
| R-HSA-216083 | Integrin cell surface interactions | 5 | 62 | 1.16E-05 | 4.04E-03 | CDH1, COL18A1, COL6A1, COL6A2, JAM2 |
| R-HSA-1251985 | Nuclear signaling by ERBB4 | 3 | 28 | 3.33E-04 | 4.93E-02 | EREG, GFAP, S100B |
| R-HSA-5173105 | O-linked glycosylation | 4 | 73 | 4.27E-04 | 4.93E-02 | ADAMTS7, B3GNT7, GALNT13, GALNT17 |
| R-HSA-913709 | O-linked glycosylation of mucins | 3 | 34 | 5.96E-04 | 4.93E-02 | B3GNT7, GALNT13, GALNT17 |
| R-HSA-8948216 | Collagen chain trimerization | 3 | 36 | 7.06E-04 | 4.93E-02 | COL18A1, COL6A1, COL6A2 |
Cut-offs p-value < 0.001 and p.adjust < 0.05 were used to display significant pathways. P values were adjusted (p.adjust) for multiple testing using Benjamini–Hochberg method. See also Online Resource 14 for full list of Reactome pathways