Table 2.
Significant enriched pathways for genes upregulated in CAF-S1 versus CAF-S4
| GO_Biological Process-Term | Count | % | Genes | P value | FDR |
|---|---|---|---|---|---|
| GO:0007155~cell adhesion | 79 | 11.67 | NRP2, AEBP1, TLN2, CXCL12, CDSN, SDC3, CHAD, WISP1, CTGF, COL12A1, ROBO2, COL11A1, BOC, NEGR1, CDH23, SPON1, CYR61, PDPN, CDHR1, SIGLEC11, PCDH7, CERCAM, JUP, CD34, LSAMP, CPXM1, CLDN1, CNTN1, ROR2, VCAN, JAM2, CHL1, CLDN18, PLXNC1, COL3A1, PTK7, NINJ2, ITGB5, SPOCK1, CDH5, DCHS1, ITGBL1, ISLR, IGSF11, ANXA9, FAT4, ITGB8, COMP, COL6A3, SCARB1, COL8A1, COL8A2, THBS2, MLLT4, FLRT2, SVEP1, LRRN2, PPFIBP1, NLGN1, HSPG2, COL16A1, TPBG, COL5A1, COL4A6, EMILIN1, CCL11, LAMA1, OMD, DSG2, PKP2, CDON, FBLN5, DSC3, DSC2, ADAM22, ANTXR1, BMPR1B, NTM, CDH11 | 1.39E-20 | 2.44E-17 |
| GO:0001501~skeletal system development | 36 | 5.32 | RBP4, AEBP1, PTGS2, FGF9, COL3A1, GLI2, MMP2, GLI1, CHAD, VDR, CTGF, COMP, COL12A1, COL11A1, PAPSS2, RUNX2, COL10A1, EVC, FBN1, HSPG2, IGF1, ANKH, HOXC10, PTHLH, SMO, CTSK, COL1A2, PDGFRA, GDF10, ROR2, KIAA1217, COL1A1, BMPR1B, IGFBP3, BMP6, CDH11 | 1.72E-9 | 3.01E-6 |
| GO:0030198~extracellular matrix organization | 19 | 2.80 | LUM, COL3A1, HSPG2, CCDC80, DCN, SPINK5, COL5A1, COL4A6, EMILIN1, P4HA1, FBLN5, COL1A2, PDGFRA, COL12A1, LOX, COL1A1, COL11A1, COL8A2, CYR61 | 1.71E-8 | 2.99E-5 |
| GO:0016337~cell-cell adhesion | 29 | 4.28 | CLDN18, NINJ2, CDSN, DCHS1, CDH5, CHAD, ANXA9, FAT4, CTGF, ROBO2, COL11A1, COL8A2, CDH23, PDPN, CDHR1, NLGN1, PCDH7, CERCAM, JUP, DSG2, CD34, PKP2, CLDN1, DSC3, DSC2, ROR2, BMPR1B, JAM2, CDH11 | 3.93E-7 | 6.87E-4 |
| GO:0009611~response to wounding | 41 | 6.05 | C7, TLR1, COL3A1, F2RL1, NINJ2, TLR4, C1S, BDKRB2, GPR68, LMAN1, MDK, CFHR1, HMCN1, SLC1A3, NOD1, CTGF, HMOX1, SERPINE1, CFH, SCARB1, LOX, CFI, PAPSS2, SCG2, NOX4, TNFSF4, PDPN, IGF1, COL5A1, CCL11, SMO, PRKCQ, CD55, SDC1, FBLN5, PDGFRA, VCAN, BMPR1B, GAP43, BMP6, MYH10 | 3.43E-6 | 0.006 |
| GO:0030199~collagen fibril organization | 9 | 1.33 | P4HA1, LUM, COL3A1, COL1A2, COL12A1, COL1A1, LOX, COL11A1, COL5A1 | 4.58E-6 | 0.008 |
| GO:0001944~vasculature development | 25 | 3.69 | NRP2, FGF9, LEPR, COL3A1, FOXO1, CXCL12, MMP2, CDH5, SHB, ANG, CTGF, HMOX1, PLCD3, SEMA3C, HS6ST1, LOX, SCG2, CYR61, PDPN, MMP19, COL5A1, VEGFC, SMO, COL1A2, COL1A1 | 7.47E-6 | 0.01 |
| GO:0001649~osteoblast differentiation | 10 | 1.48 | PTHLH, SMO, FGF9, IGF1, COL1A1, GLI2, IGFBP3, RUNX2, GLI1, BMP6 | 1.11E-5 | 0.02 |
| GO:0000902~cell morphogenesis | 30 | 4.43 | NRP2, SHROOM3, UCHL1, PTK7, GLI2, EPHB3, CXCL12, EPHB2, DAB2, SLC1A3, UNC5B, ROBO2, ROBO3, CDH23, NOX4, EGR2, PDPN, KIF5C, PRKCI, HGF, NTN1, GAS7, SMO, LAMA1, SEMA6A, VCAN, ANTXR1, BMPR1B, GAP43, MYH10 | 1.96E-5 | 0.03 |
| GO:0007411~axon guidance | 15 | 2.21 | NRP2, EGR2, KIF5C, EPHB3, GLI2, CXCL12, NTN1, EPHB2, SEMA6A, UNC5B, ROBO2, ROBO3, BMPR1B, GAP43, MYH10 | 1.99E-5 | 0.03 |
| GO:0035295~tube development | 22 | 3.25 | RBP4, SHROOM3, PDPN, FGF9, PTK7, IGF1, GLI2, CXCL12, GLI1, FOXP2, MYCN, WNT2, PTHLH, WNT4, GPC3, CTGF, PDGFRA, TGIF1, ROBO2, HS6ST1, LOX, CYR61 | 2.80E-5 | 0.04 |
| GO:0006928~cell motion | 35 | 5.17 | NRP2, CTHRC1, IL16, PTGS2, SPOCK1, GLI2, EPHB3, CXCL12, EPHB2, WNT2, UNC5B, CTGF, ANG, SEMA3C, ROBO2, SCARB1, ROBO3, SCG2, EGR2, KIF5C, IGF1, CERCAM, NTN1, SLC9A10, COL5A1, ELMO1, SMO, SEMA6A, LAMA1, VEGFC, CD34, VCAN, BMPR1B, GAP43, MYH10 | 5.61E-5 | 0.09 |
| KEGG_Pathway-Term | Count | % | Genes | P value | FDR |
| hsa04512:ECM-receptor interaction | 16 | 0.26 | COL3A1, HSPG2, ITGB5, COL5A1, COL4A6, CHAD, SDC3, LAMA1, SDC1, ITGB8, COMP, COL6A3, COL1A2, COL1A1, COL11A1, THBS2 | 4.18E-7 | 4.89E-4 |
| hsa04360:Axon guidance | 18 | 0.30 | ABLIM1, PLXNC1, LIMK2, LIMK1, ABLIM3, LRRC4C, EPHB3, NTN1, CXCL12, EPHB2, SEMA6A, UNC5B, SEMA7A, SRGAP3, SEMA3C, ROBO2, EFNA4, ROBO3 | 5.84E-6 | 6.82E-3 |
Enrichment was performed using DAVID web software based on Gene Ontology and KEGG databases. P values are indicated without or after FDR correction