Table 4.
Association of copy number variations with clinical variables
| A. Pathological complete remission (pCR) | ||||||
| Gene | pCR (number) | No pCR (number) | pCR and CNV (number) | No pCR and CNV (number) | P value | Adjusted p value |
| TTK | 23 | 28 | 0 | 8 | 0.02 | 0.95 |
| TP53BP2 | 23 | 28 | 4 | 15 | 0.06 | 0.95 |
| SNAI2 | 23 | 28 | 1 | 8 | 0.09 | 1.00 |
| STK3 | 23 | 28 | 1 | 8 | 0.09 | 1.00 |
| ABL2 | 23 | 28 | 7 | 3 | 0.11 | 1.00 |
| B. Relapse | ||||||
| Gene | Relapse (number) | No relapse (number) | Relapse and CNV (number) | No relapse and CNV (number) | P value | Adjusted p value |
| SNAI2 | 8 | 32 | 4 | 1 | 0.03 | 0.14 |
| MAPK15 | 8 | 32 | 5 | 3 | 0.06 | 0.14 |
| TTN | 8 | 32 | 0 | 9 | 0.07 | 0.65 |
| PARP10 | 8 | 32 | 6 | 4 | 0.08 | 0.14 |
| STYK1 | 8 | 32 | 0 | 7 | 0.11 | 0.77 |
| C. BRCA proficiency | ||||||
| Gene | BRCA mut/meth (number) | BRCA proficient (number) | BRCA mut/meth and CNV (number) | BRCA proficient and CNV (number) | P value | Adjusted p value |
| IFT81 | 27 | 24 | 1 | 8 | 0.001 | 0.36 |
| SNAI2 | 27 | 24 | 1 | 8 | 0.01 | 0.36 |
| TNFAIP3 | 27 | 24 | 9 | 0 | 0.01 | 0.88 |
| PLCXD3 | 27 | 24 | 5 | 11 | 0.02 | 1.00 |
| CCNB2 | 27 | 24 | 10 | 1 | 0.06 | 1.00 |
mut/meth mutated/methylated, CNV copy number variation