Table 2.
Outlier genes whose predictive genetic biomarkers are the gene itself (in italic) or from the same gene family/protein complex, suggesting potential oncogenic addiction or a synthetic lethal relationship. Genetic biomarkers and tumor types are listed by decreasing statistical significance of association
| Gene | Genetic biomarker (related) | Tumor type |
|---|---|---|
| APC | APC | CRC |
| ARID1B | ARID1A | |
| ATP5A1 | ATP5H | |
| BRAF | BRAF | CRC;Melanoma |
| CDK2 | CCNE1;SKP2 | Ovarian;Ovarian_serous_adenocarcinoma;Breast Lum_subtype |
| CRNN | DST;SDF4 | ALL;Leukemia/Lymphoma |
| CTNNB1 | APC;PXN;CREBBP | CRC |
| DHX30 | PARP1;DHX40 | Breast;Breast HER2+;Breast Her2_subtype |
| E2F1 | RB1 | |
| FOXA1 | FOXP4 | Breast;Breast Lum_subtype;Breast HER2+;Prostate; |
| Breast BaA_subtype;Prostate_adenocarcinoma; | ||
| Breast Her2_subtype;Breast ER+ | ||
| HNRNPA1 | RPL22 | |
| KRAS | KRAS | Pancreatic;CRC |
| LRPPRC | NFKBIB | Breast Lum_subtype;Breast;CRC; Ovarian_clear_cell_adenocarcinoma;Breast HER2+ |
| NRAS | NRAS | |
| PIK3CA | PIK3CA | Breast;Gastric;Breast Lum_subtype;Gastric_adenocarcinoma; CRC;Breast HER2+;Breast TNBC;Prostate_adenocarcinoma; Breast Her2_subtype;Breast ER+ |
| PSMD3 | PSMC4;PSMD8 | |
| RBBP4 | ACTL6A;GNB4;WDR89 | |
| RBM47 | IGF2BP1;MAK16 | Breast HER2+;Breast;Breast Her2_subtype; Esophageal_adenocarcinoma |
| RBMXL1 | MAK16;TAF15 | |
| RPS17 | RPL38;RPL22 | Ovarian_clear_cell_adenocarcinoma;Ovarian |
| RREB1 | ZNF652;GLI2 | Breast;Breast HER2+;Breast Her2_subtype |
| SF3A3 | PRPF3 | |
| SLC25A40 | SLC2A3;SLCO1B1;SLCO1A2;SLC2A14;LST-3TM12 | |
| SPEN | DHX38;CSTF2T | |
| TOP2A | PARP1;PPM1D;PRKDC | Breast;Breast Lum_subtype;Breast HER2+ |
| TOPBP1 | NBN;BRCA1 | |
| TUBG1 | APC | CRC |
| WDR18 | WDR67;GNB2L1;WDR16;NWD1 | |
| ZMIZ1 | ZMIZ1 | Leukemia/Lymphoma;Breast;AML |
| ZNF234 | ZNF331 | Multiple_Myeloma;Ewing_Sarcoma;Leukemia/Lymphoma;Bone |
| ZNF236 | GLI1 |