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Table 3 Association of KEGG pathways with clinical variables

From: Next generation sequencing of triple negative breast cancer to find predictors for chemotherapy response

A. Pathological complete remission (pCR)

Pathway

Genes in pathway

Genes mutated

pCR (number)

No pCR (number)

pCR and mutated (number)

No pCR and mutated (number)

P value

Adjusted p value

 Calcium signaling pathway

177

6

25

31

0

6

0.03

0.41

 Notch signaling pathway

47

4

25

31

4

0

0.03

0.41

 TGF-beta signaling pathway

85

6

25

31

0

5

0.06

0.41

 Phosphatidylinositol signaling system

78

11

25

31

4

12

0.08

0.41

 Focal adhesion

200

25

25

31

7

16

0.10

0.41

B. BRCA proficiency

Pathway

Genes in pathway

Genes mutated

BRCA mutated/methylated (number)

BRCA proficient (number)

BRCA mutated/methylated, and mutated (number)

BRCA proficient and mutated (number)

P value

Adjusted p value

 Wnt signaling pathway

151

12

29

27

21

12

0.06

0.78

 Jak-STAT signaling pathway

155

3

29

27

2

6

0.14

0.78

 Regulation of actin cytoskeleton

214

16

29

27

6

11

0.15

0.78

 MAPK signaling pathway

268

28

29

27

21

14

0.17

0.78

 mTOR signaling pathway

52

5

29

27

3

7

0.17

0.78

  1. TGF transforming growth factor, MAPK mitogen activated protein kinase, mTOR mammalian target of rapamycin