Table 4 Significantly enriched pathways (adjusted p-value \(\le\) 0.01) from KEGG, Reactome, and Wikipathway for the genes obtained after the incomplete segregation filter.
Pathways | Pathway ID | Adjusted p value | Total number of genes in pathway | No of involved genes in pathway | Genes |
|---|---|---|---|---|---|
ECM-receptor interaction | KEGG:04512 | 6.65 × 10\(^{-8}\) | 89 | 17 | LAMA5,HSPG2,COL6A5,FRAS1, TNN,TNC,VWF,THBS2, COL6A6,COL6A3,LAMB2,LAMB1,LAMA1,ITGB7,ITGB6, ITGB4,ITGA10 |
Focal adhesion | KEGG:04510 | 1.12 × 10\(^{-5}\) | 202 | 22 | LAMA5,COL6A5,VEGFC,PIP5K1C, TNN,TNC,VWF,SHC3,THBS2, COL6A6,COL6A3,LAMB2, LAMB1,LAMA1,MYLK4, MYLK2,FLNC,FLNB,ITGB7, ITGB6,ITGB4,ITGA10 |
Protein digestion and absorption | KEGG:04974 | 4.91 × 10\(^{-3}\) | 103 | 12 | COL19A1,COL6A5,COL18A1,SLC9A3, COL7A1,COL6A6,COL6A3, COL5A3,COL5A1,COL15A1,COL14A1,COL11A1 |
Extracellular matrix organization | REAC:R-HSA-1474244 | 4.74 × 10\(^{-7}\) | 297 | 31 | PLEC,FBN3,LTBP1,COL19A1,LAMA5,HSPG2,COL6A5,COL18A1,NID1, PTPRS,TNN,TNC,VWF,COLGALT2, COL7A1,COL6A6,COL6A3,COL5A3,COL5A1,COL15A1,COL14A1, COL11A1,CAPN1,LTBP4,LAMB2, LAMB1,LAMA1,ITGB7,ITGB6, ITGB4,ITGA10 |
ECM proteoglycans | REAC:R-HSA-3000178 | 1.68 × 10\(^{-5}\) | 75 | 14 | LAMA5,HSPG2,COL6A5,PTPRS,TNN,TNC, COL6A6,COL6A3,COL5A3,COL5A1, LAMB2,LAMB1,LAMA1,ITGB6 |
Collagen chain trimerization | REAC:R-HSA-8948216 | 2.09 × 10\(^{-5}\) | 44 | 11 | COL19A1,COL6A5,COL18A1,COL7A1, COL6A6,COL6A3,COL5A3,COL5A1, COL15A1,COL14A1,COL11A1 |
Laminin interactions | REAC:R-HSA-3000157 | 6.51 × 10\(^{-5}\) | 30 | 9 | LAMA5,HSPG2,COL18A1,NID1, COL7A1,LAMB2,LAMB1,LAMA1,ITGB4 |
Assembly of collagen fibrils and other multimeric structures | REAC:R-HSA-2022090 | 7.32 × 10\(^{-5}\) | 60 | 12 | PLEC,COL6A5,COL18A1,COL7A1,COL6A6, COL6A3,COL5A3,COL5A1,COL15A1, COL14A1,COL11A1,ITGB4 |
Collagen formation | REAC:R-HSA-1474290 | 1.56 × 10\(^{-4}\) | 89 | 14 | PLEC,COL19A1,COL6A5,COL18A1, COLGALT2,COL7A1,COL6A6, COL6A3,COL5A3,COL5A1,COL15A1, COL14A1,COL11A1,ITGB4 |
Collagen biosynthesis and modifying enzymes | REAC:R-HSA-1650814 | 2.60 × 10\(^{-4}\) | 67 | 12 | COL19A1,COL6A5,COL18A1,COLGALT2,COL7A1,COL6A6, COL6A3,COL5A3,COL5A1, COL15A1,COL14A1,COL11A1 |
Degradation of the extracellular matrix | REAC:R-HSA-1474228 | 3.97 × 10\(^{-4}\) | 140 | 17 | FBN3,COL19A1,LAMA5,HSPG2,COL6A5, COL18A1,NID1,COL7A1,COL6A6,COL6A3, COL5A3,COL5A1,COL15A1,COL14A1, COL11A1,CAPN1,LAMB1 |
Integrin cell surface interactions | REAC:R-HSA-216083 | 5.04 × 10\(^{-4}\) | 84 | 13 | HSPG2,COL6A5,COL18A1,TNC,VWF, COL7A1,COL6A6,COL6A3,COL5A3, COL5A1,ITGB7,ITGB6,ITGA10 |
Collagen degradation | REAC:R-HSA-1442490 | 1.19 × 10\(^{-3}\) | 64 | 11 | COL19A1,COL6A5,COL18A1,COL7A1, COL6A6,COL6A3,COL5A3,COL5A1, COL15A1,COL14A1,COL11A1 |
Non-integrin membrane-ECM interactions | REAC:R-HSA-3000171 | 3.34 × 10\(^{-3}\) | 58 | 10 | LAMA5,HSPG2,TNC,COL5A3,COL5A1, COL11A1,LAMB2,LAMB1,LAMA1,ITGB4 |
Focal adhesion PI3K Akt mTOR signaling pathway | WP:WP3932 | 6.10 × 10\(^{-3}\) | 301 | 23 | LAMA5,FGFR3,EPHA2,VEGFC,PIK3C2A, PIK3IP1,NOS1,PFKFB3,PPP2R1A,TNN, TNC,VWF,THBS2,COL5A3,COL5A1, COL11A1,LAMB2,LAMB1,LAMA1,ITGB7, ITGB6,ITGB4,ITGA10 |
