Table 2 Enriched pathways identified by Reactome among DE genes

ECM organization (R-HSA-1474244)

329

63

2.70E-12

3.98E-09

Degradation of the ECM (R-HSA-1474228)

148

33

1.42E-08

1.05E-05

Collagen degradation (R-HSA-1442490)

69

21

4.32E-08

2.12E-05

ECM proteoglycans (R-HSA-3000178)

79

21

3.86E-07

1.42E-04

Assembly of collagen fibrils and other multimeric structures (R-HSA-2022090)

67

19

5.32E-07

1.56E-04

Collagen formation (R-HSA-1474290)

104

24

7.12E-07

1.74E-04

Integrin cell surface interactions (R-HSA-216083)

86

21

1.46E-06

3.06E-04

Collagen biosynthesis and modifying enzymes (R-HSA-1650814)

76

19

3.25E-06

5.99E-04

Collagen chain trimerization (R-HSA-8948216)

44

14

4.50E-06

7.34E-04

O-glycosylation of TSR domain-containing proteins (R-HSA-5173214)

41

13

1.01E-05

0.001

Non-integrin membrane-ECM interactions (R-HSA-3000171)

61

16

1.06E-05

0.001

Crosslinking of collagen fibrils (R-HSA-2243919)

24

9

6.58E-05

0.008

Defective B3GALTL causes Peters-plus syndrome (R-HSA-5083635)

39

11

1.32E-04

0.015

Regulation of Insulin-like Growth Factor transport and uptake by Insulin-like Growth Factor binding proteins (R-HSA-381426)

127

22

1.43E-04

0.015

Post-translational protein phosphorylation (R-HSA-8957275)

109

19

3.66E-04

0.036

Phospholipase C-mediated cascade; FGFR2 (R-HSA-5654221)

25

8

4.71E-04

0.043

RUNX2 regulates genes involved in cell migration (R-HSA-8941332)

14

6

5.40E-04

0.046