Top 10 pathways enriched in genes induced by the TCM-treated hMSCs for 30 d
| Pathways . | Genes induced in the MSC treated by TCM for 30 d . | . | . | . | . | . | . | . | . | . | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| MAPK signaling pathway (P = 0.0001) | BRAF | DUSP6 | RAC1 | CACNG6 | TP53 | PPP3CB | STMN1 | DUSP14 | DUSP5 | JUND | |||||||||
| JUN | NFKB1 | PAK2 | IKBKB | MKNK2 | CDC25B | NFKB2 | RRAS2 | CASP1 | PDGFRB | ||||||||||
| PAK1 | TGFB1 | NRAS | ATF4 | HSPA8 | MAP4K4 | FOS | FGFR1 | RASA1 | FAS | ||||||||||
| MAP3K4 | HSPA9B | CASP7 | CRK | GADD45A | DAXX | MAPK1 | RPS6KA3 | ||||||||||||
| Focal adhesion (P = 0.0148) | BRAF | RAC1 | BIRC4 | PPP1CC | TNC | COL6A3 | JUN | CAPN2 | SPP1 | VASP | |||||||||
| ITGA3 | PIK3R5 | PAK2 | COL6A1 | ITGB3 | BCL2 | COL5A3 | PPP1CA | TLN2 | CCND2 | ||||||||||
| RRAS2 | PDGFRB | PAK1 | PDGFC | ITGB7 | PXN | NRAS | COL6A2 | VEGF | DIAPH1 | ||||||||||
| GRLF1 | FYN | CRK | PAK3 | ITGA7 | LAMB1 | ITGA2 | ITGAV | MAPK1 | IBSP | ||||||||||
| Cell cycle (P = 0.0148) | MCM6 | PTTG1 | TP53 | CDKN1A | CCNB1 | MAD2L2 | ANAPC1 | PCNA | MDM2 | ANAPC7 | |||||||||
| CDC25B | CCND2 | CDK6 | TGFB1 | CCNH | BUB3 | PRKDC | CDK4 | YWHAQ | BUB1B | ||||||||||
| CDC23 | MCM2 | CDC2 | SMAD3 | CDC16 | GADD45A | CDC27 | RBL1 | ORC5L | YWHAZ | ||||||||||
| SMAD4 | YWHAB | MCM3 | HDAC2 | ||||||||||||||||
| Regulation of actin cytoskeleton (P = 0.0001) | LIMK1 | BDKRB1 | BDKRB2 | BRAF | SSH1 | RAC1 | NCKAP1 | PPP1CC | ITGA3 | PIK3R5 | |||||||||
| ARPC5 | PFN1 | PAK2 | ITGB3 | PPP1CA | IQGAP3 | RRAS2 | TIAM1 | CFL1 | PDGFRB | ||||||||||
| PAK1 | ABI2 | ITGB7 | PXN | NRAS | DIAPH1 | FGFR1 | BAIAP2 | GRLF1 | GSN | ||||||||||
| CRK | PAK3 | CSK | WASL | ITGA7 | ITGA2 | ITGAV | ARPC2 | GNA13 | MAPK1 | ||||||||||
| Cytokine-cytokine receptor interaction (P = 0.0148) | ACVR1 | BMPR2 | CCL2 | IL18R1 | TNFSF9 | IL6ST | PRLR | ACVR2A | TNFRSF12A | IL1RAP | |||||||||
| PDGFRB | CCL7 | LIF | TGFB1 | PDGFC | CLCF1 | TNFRSF10B | TNFRSF10A | CD40 | VEGF | ||||||||||
| FAS | CSF1 | TNFSF15 | TNFRSF10D | TNFSF4 | TNFSF18 | ||||||||||||||
| Wnt signaling pathway (P = 0.0391) | FZD9 | FZD8 | DAAM2 | RAC1 | WNT2 | TP53 | CSNK2A1 | CSNK2B | PPP3CB | CSNK1A1 | |||||||||
| PSEN1 | NFAT5 | WNT5A | JUN | CCND2 | TBL1XR1 | CSNK1E | FZD3 | PLCB1 | DKK2 | ||||||||||
| SMAD3 | PPP2CA | RUVBL1 | WNT8B | CACYBP | SMAD4 | ||||||||||||||
| Axon guidance (P = 0.10337) | LIMK1 | CDK5 | LRRC4C | RAC1 | PLXNA2 | PLXNA1 | PPP3CB | NFAT5 | ABLIM1 | SEMA4F | |||||||||
| PAK2 | RRAS2 | CFL1 | PAK1 | NRAS | GNAI3 | RASA1 | FYN | PAK3 | UNC5B | ||||||||||
| NRP1 | SEMA3A | MAPK1 | |||||||||||||||||
| Apoptosis (P = 0.0011) | DFFA | IRAK3 | PDCD8 | BIRC4 | TP53 | RIPK1 | CYCS | PPP3CB | CAPN2 | PIK3R5 | |||||||||
| NFKB1 | IKBKB | BCL2 | NFKB2 | IL1RAP | TNFRSF10B | TNFRSF10A | FAS | CASP7 | TNFRSF10D | ||||||||||
| PRKAR2A | |||||||||||||||||||
| Insulin signaling pathway (P = 0.00116) | PRKAG2 | PRKAB1 | FRAP1 | EXOC7 | PPP1CC | CALM2 | PIK3R5 | IKBKB | SOCS6 | RPS6 | |||||||||
| MKNK2 | PPP1CA | PCK2 | RRAS2 | NRAS | CALM1 | PKM2 | IRS4 | PYGB | IRS1 | ||||||||||
| CRK | EIF4EBP1 | MAPK1 | PRKAR2A | ||||||||||||||||
| Gap junction (P = 0.0230) | TUBB2C | ITPR2 | CSNK1A1 | ADCY3 | RRAS2 | PDGFRB | PDGFC | CSNK1E | TUBA6 | PLCB1 | |||||||||
| GNAI3 | CDC2 | GNAS | CSNK1G1 | GUCY1B3 | MAPK1 | TUBB | |||||||||||||
| Pathways . | Genes induced in the MSC treated by TCM for 30 d . | . | . | . | . | . | . | . | . | . | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| MAPK signaling pathway (P = 0.0001) | BRAF | DUSP6 | RAC1 | CACNG6 | TP53 | PPP3CB | STMN1 | DUSP14 | DUSP5 | JUND | |||||||||
| JUN | NFKB1 | PAK2 | IKBKB | MKNK2 | CDC25B | NFKB2 | RRAS2 | CASP1 | PDGFRB | ||||||||||
| PAK1 | TGFB1 | NRAS | ATF4 | HSPA8 | MAP4K4 | FOS | FGFR1 | RASA1 | FAS | ||||||||||
| MAP3K4 | HSPA9B | CASP7 | CRK | GADD45A | DAXX | MAPK1 | RPS6KA3 | ||||||||||||
| Focal adhesion (P = 0.0148) | BRAF | RAC1 | BIRC4 | PPP1CC | TNC | COL6A3 | JUN | CAPN2 | SPP1 | VASP | |||||||||
| ITGA3 | PIK3R5 | PAK2 | COL6A1 | ITGB3 | BCL2 | COL5A3 | PPP1CA | TLN2 | CCND2 | ||||||||||
| RRAS2 | PDGFRB | PAK1 | PDGFC | ITGB7 | PXN | NRAS | COL6A2 | VEGF | DIAPH1 | ||||||||||
| GRLF1 | FYN | CRK | PAK3 | ITGA7 | LAMB1 | ITGA2 | ITGAV | MAPK1 | IBSP | ||||||||||
| Cell cycle (P = 0.0148) | MCM6 | PTTG1 | TP53 | CDKN1A | CCNB1 | MAD2L2 | ANAPC1 | PCNA | MDM2 | ANAPC7 | |||||||||
| CDC25B | CCND2 | CDK6 | TGFB1 | CCNH | BUB3 | PRKDC | CDK4 | YWHAQ | BUB1B | ||||||||||
| CDC23 | MCM2 | CDC2 | SMAD3 | CDC16 | GADD45A | CDC27 | RBL1 | ORC5L | YWHAZ | ||||||||||
| SMAD4 | YWHAB | MCM3 | HDAC2 | ||||||||||||||||
| Regulation of actin cytoskeleton (P = 0.0001) | LIMK1 | BDKRB1 | BDKRB2 | BRAF | SSH1 | RAC1 | NCKAP1 | PPP1CC | ITGA3 | PIK3R5 | |||||||||
| ARPC5 | PFN1 | PAK2 | ITGB3 | PPP1CA | IQGAP3 | RRAS2 | TIAM1 | CFL1 | PDGFRB | ||||||||||
| PAK1 | ABI2 | ITGB7 | PXN | NRAS | DIAPH1 | FGFR1 | BAIAP2 | GRLF1 | GSN | ||||||||||
| CRK | PAK3 | CSK | WASL | ITGA7 | ITGA2 | ITGAV | ARPC2 | GNA13 | MAPK1 | ||||||||||
| Cytokine-cytokine receptor interaction (P = 0.0148) | ACVR1 | BMPR2 | CCL2 | IL18R1 | TNFSF9 | IL6ST | PRLR | ACVR2A | TNFRSF12A | IL1RAP | |||||||||
| PDGFRB | CCL7 | LIF | TGFB1 | PDGFC | CLCF1 | TNFRSF10B | TNFRSF10A | CD40 | VEGF | ||||||||||
| FAS | CSF1 | TNFSF15 | TNFRSF10D | TNFSF4 | TNFSF18 | ||||||||||||||
| Wnt signaling pathway (P = 0.0391) | FZD9 | FZD8 | DAAM2 | RAC1 | WNT2 | TP53 | CSNK2A1 | CSNK2B | PPP3CB | CSNK1A1 | |||||||||
| PSEN1 | NFAT5 | WNT5A | JUN | CCND2 | TBL1XR1 | CSNK1E | FZD3 | PLCB1 | DKK2 | ||||||||||
| SMAD3 | PPP2CA | RUVBL1 | WNT8B | CACYBP | SMAD4 | ||||||||||||||
| Axon guidance (P = 0.10337) | LIMK1 | CDK5 | LRRC4C | RAC1 | PLXNA2 | PLXNA1 | PPP3CB | NFAT5 | ABLIM1 | SEMA4F | |||||||||
| PAK2 | RRAS2 | CFL1 | PAK1 | NRAS | GNAI3 | RASA1 | FYN | PAK3 | UNC5B | ||||||||||
| NRP1 | SEMA3A | MAPK1 | |||||||||||||||||
| Apoptosis (P = 0.0011) | DFFA | IRAK3 | PDCD8 | BIRC4 | TP53 | RIPK1 | CYCS | PPP3CB | CAPN2 | PIK3R5 | |||||||||
| NFKB1 | IKBKB | BCL2 | NFKB2 | IL1RAP | TNFRSF10B | TNFRSF10A | FAS | CASP7 | TNFRSF10D | ||||||||||
| PRKAR2A | |||||||||||||||||||
| Insulin signaling pathway (P = 0.00116) | PRKAG2 | PRKAB1 | FRAP1 | EXOC7 | PPP1CC | CALM2 | PIK3R5 | IKBKB | SOCS6 | RPS6 | |||||||||
| MKNK2 | PPP1CA | PCK2 | RRAS2 | NRAS | CALM1 | PKM2 | IRS4 | PYGB | IRS1 | ||||||||||
| CRK | EIF4EBP1 | MAPK1 | PRKAR2A | ||||||||||||||||
| Gap junction (P = 0.0230) | TUBB2C | ITPR2 | CSNK1A1 | ADCY3 | RRAS2 | PDGFRB | PDGFC | CSNK1E | TUBA6 | PLCB1 | |||||||||
| GNAI3 | CDC2 | GNAS | CSNK1G1 | GUCY1B3 | MAPK1 | TUBB | |||||||||||||
NOTE: Each of these pathways contains >75% induced genes. Among other enriched pathways, containing between 40% and 75% induced genes: ECM-receptor interaction, antigen processing and presentation, calcium signaling pathway, adherens junction, JAK-STAT signaling pathway, Toll-like receptor signaling pathway, and TGF-β signaling pathway.