Table 1.
Pathway enrichment analysis with ReactomePA. Only the results relevant to the comparison of O-glycosylation, immune response and complement pathways are reported. For the full list of results, one could refer to our Github repository for the project. We reported only the pathways and genes identified by the initial consensus DEA and the DE genes from the DEA comparisons accounting for the tumor microenvironment. The range of FDR values identified for that pathway from the different enrichment analyses are reported as a reference
| Pathway ID | Description | FDR | Gene IDs |
|---|---|---|---|
| 913709 | O-linked glycosylation of mucins | 0.007–0.04 | LUAD (up): B3GNT6/MUC16/MUC21/MUC5B |
| 913709 | O-linked glycosylation of mucins | 0.01–0.07 | LUSC (down): B3GNT7/B3GNT8/GALNT10/GALNT5/MUC1/MUC15/MUC21/MUC5B/ST6GALNAC4 |
| 977068 | Termination of O-glycan biosynthesis | 0.01–0.07 | LUAD (up):MUC16/MUC21/MUC5B |
| 5173105 | O-linked glycosylation | 0.01–0.05 | LUAD (up): B3GNT6/ MUC16/MUC21/ MUC5B |
| 5173105 | O-linked glycosylation | 0.01–0.03 |
LUSC (down): B3GNT7/B3GNT8/GALNT10/GALNT5/MUC1/MUC15/ MUC21/MUC5B/ST6GALNAC4/THBS1 |
| 977606 | Regulation of Complement cascade | 0.0002–0.06 | LUSC (down):C3/C5/CD55/CFI |
| 166658 | Complement cascade | 0.0008–0.06 | LUSC (down): C3/C5/CD55/CFI |