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Table 2 Genes included in the top eight sub-categories of the KEGG pathway map. All genes in the top eight sub-categories that showed the most significance (p < 0.001) of the KEGG pathway in Fig. 7a are listed. Genes that were upregulated (+) or downregulated (−) relative to the control group are listed in each sub-category

From: A transcriptomic analysis of serial-cultured, tonsil-derived mesenchymal stem cells reveals decreased integrin α3 protein as a potential biomarker of senescent cells

Map name

No of gene symbol

Gene symbol

Upregulated genes (control TMSC/culture-aged TMSC fc. (+))

Downregulated genes (control TMSC/culture-aged TMSC fc. (−))

p value

Axon guidance

13

PLXNA2, EPHA3, ROBO2, EPHB1, BMPR1B, EPHA5, EFNA5, SEMA6A, SLIT3, SEMA3E, SEMA3A, PAK3, TRPC4

PLXNA2, EPHA3, ROBO2, EPHB1, BMPR1B, EPHA5, EFNA5, SEMA6A, SEMA3E, SEMA3A, PAK3,

SLIT3, TRPC4

4.88E-07

PI3K-Akt signaling pathway

23

LPAR3, ITGA6, COL6A6, PDGFC, VEGFC, FGF5, IL7R, EFNA5, CREB5, CHRM2, HGF, RELN, CCNE2, TLR4, ITGA8, PDGFD, CDK2, ITGA7, KITLG, BRCA1, ITGB3, LAMA3, LAMA1

LPAR3, ITGA6, PDGFC, VEGFC, FGF5, IL7R, EFNA5, CHRM2, RELN, CCNE2, TLR4, ITGA8, CDK2, KITLG, BRCA1, ITGB3, LAMA1

COL6A6, CREB5, HGF, PDGFD, ITGA7, LAMA3

7.17E-12

Pathways in cancer

32

CKS1B, TGFB2, SLC2A1, PTGER3, LPAR3, GSTM5, ITGA6, CASP8, AGTR1, HHIP, MAPK10, LEF1, VEGFC, FGF5, IL7R, HGF, CCNE2, DAPK1, CKS2, MAPK8, ETS1, CDK2, KITLG, BRCA2, BDKRB2, RAD51, BIRC5, LAMA3, LAMA1, NOTCH3, E2F1, PLCB1

CKS1B, TGFB2, SLC2A1, LPAR3, GSTM5, ITGA6, AGTR1, HHIP, LEF1, VEGFC, FGF5, IL7R, CCNE2, CKS2, MAPK8, ETS1, CDK2, KITLG, BRCA2, RAD51, BIRC5, LAMA1, E2F1

NOTCH3, PLCB1, PTGER3, CASP8, MAPK10, HGF, DAPK1, BDKRB2, LAMA3

2.02E-14

ECM-receptor interaction

11

ITGA6, SDC1, COL6A6, HMMR, RELN, ITGA8, ITGA7, ITGB3, LAMA3, LAMA1, GP1BB

ITGA6, SDC1, HMMR, RELN, ITGA8, ITGB3, LAMA1, GP1BB

COL6A6, ITGA7, LAMA3

3.22E-08

Protein digestion and absorption

6

COL3A1, DPP4, COL6A6, ELN, COL14A1, SLC1A1

ELN

COL3A1, DPP4, COL6A6, COL14A1, SLC1A1

0.002749

Rheumatoid arthritis

5

TGFB2, ATP6V1E2, TLR4, MMP3, TNFSF13B

TGFB2, ATP6V1E2, TLR4, MMP3

TNFSF13B

0.015019

Hematopoietic cell lineage

6

IL1R1, ITGA6, IL7R, KITLG, ITGB3, GP1BB

ITGA6, IL7R, KITLG, ITGB3, GP1BB

IL1R1

0.003733

Cytokine-cytokine receptor interaction

15

TGFB2, TNFSF4, IL1R1, ACKR3, IL1RAP, TNFSF10, BMPR1B, PDGFC, VEGFC, IL7R, CCL26, HGF, TNFRSF11B, KITLG, TNFSF13B

TGFB2, TNFSF4, IL1RAP, BMPR1B, PDGFC, VEGFC, IL7R, TNFRSF11B, KITLG

IL1R1, ACKR3, TNFSF10, CCL26, HGF, TNFSF13B

1.34E-06