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 | Â |
ATP5A1 | ATP5H | Â |
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 | Â |
FOXA1 | FOXP4 | Breast;Breast Lum_subtype;Breast HER2+;Prostate; |
Breast BaA_subtype;Prostate_adenocarcinoma; | ||
Breast Her2_subtype;Breast ER+ | ||
HNRNPA1 | RPL22 | Â |
KRAS | KRAS | Pancreatic;CRC |
LRPPRC | NFKBIB | Breast Lum_subtype;Breast;CRC; Ovarian_clear_cell_adenocarcinoma;Breast HER2+ |
NRAS | NRAS | Â |
PIK3CA | PIK3CA | Breast;Gastric;Breast Lum_subtype;Gastric_adenocarcinoma; CRC;Breast HER2+;Breast TNBC;Prostate_adenocarcinoma; Breast Her2_subtype;Breast ER+ |
PSMD3 | PSMC4;PSMD8 | Â |
RBBP4 | ACTL6A;GNB4;WDR89 | Â |
RBM47 | IGF2BP1;MAK16 | Breast HER2+;Breast;Breast Her2_subtype; Esophageal_adenocarcinoma |
RBMXL1 | MAK16;TAF15 | Â |
RPS17 | RPL38;RPL22 | Ovarian_clear_cell_adenocarcinoma;Ovarian |
RREB1 | ZNF652;GLI2 | Breast;Breast HER2+;Breast Her2_subtype |
SF3A3 | PRPF3 | Â |
SLC25A40 | SLC2A3;SLCO1B1;SLCO1A2;SLC2A14;LST-3TM12 | Â |
SPEN | DHX38;CSTF2T | Â |
TOP2A | PARP1;PPM1D;PRKDC | Breast;Breast Lum_subtype;Breast HER2+ |
TOPBP1 | NBN;BRCA1 | Â |
TUBG1 | APC | CRC |
WDR18 | WDR67;GNB2L1;WDR16;NWD1 | Â |
ZMIZ1 | ZMIZ1 | Leukemia/Lymphoma;Breast;AML |
ZNF234 | ZNF331 | Multiple_Myeloma;Ewing_Sarcoma;Leukemia/Lymphoma;Bone |
ZNF236 | GLI1 | Â |