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 |