Table 1.
The 50 genes studied in this work, their mode of analysis, final F1 score, and corresponding top Gini score
| Gene | Tumour types | Final F1 Score | Top Gini Score |
|---|---|---|---|
| APC | Balanced Set of COADREAD | 0.71 | 0.0119 |
| AR | KIRP | 0.71 | 0.0014 |
| ARID1A | Balanced Set of KICH, KIRP, LGG, PCPG and UVM | 0.86 | 0.0257 |
| ASXL1 | Balanced Set of COADREAD | 0.81 | 0.0030 |
| ATM | BRCA, CESC, and PCPG | 0.68 | 0.0044 |
| ATR | All Tumour Types | 0.72 | 0.0124 |
| ATRX | LGG | 0.84 | 0.0519 |
| BRAF | Balanced Set of COADREAD and THCA | 0.93 | 0.0364 |
| BRAF | Balanced Set of COADREAD | 0.86 | 0.0165 |
| BRAF | Balanced Set of THCA | 0.93 | 0.0487 |
| BRCA1 | Balanced Set of KICH, KIRP and UCEC | 0.78 | 0.0142 |
| BRCA2 | All Tumour Types | 0.73 | 0.0021 |
| CDH1 | KIRP, LIHC, PRAD, SARC, THYM, UCEC and UVM | 0.74 | 0.0041 |
| CDK12 | Balanced Set of KIRP and UCEC | 0.83 | 0.0092 |
| CDKN2A | All Tumour Types | 0.77 | 0.0086 |
| CTCF | All Tumour Types | 0.72 | 0.0036 |
| CTNNB1 | Balanced Set of HNSC, KIRC, PCPG and UVM | 0.77 | 0.0197 |
| EGFR | COADREAD, HNSC, KIRP, LGG and STAD | 0.76 | 0.0061 |
| EP300 | BRCA, PCPG, THCA and UCEC | 0.73 | 0.0020 |
| ERBB4 | CESC | 0.64 | 0.0021 |
| EZH2 | COADREAD, KIRP, LGG and THYM | 0.74 | 0.0086 |
| FBXW7 | All Tumour Types | 0.74 | 0.0050 |
| FLT3 | All Tumour Types | 0.73 | 0.0015 |
| GATA3 | All Tumour Types | 0.72 | 0.0065 |
| KDM6A | KIRP and UCEC | 0.76 | 0.0066 |
| KEAP1 | Balanced Set of THCA | 0.83 | 0.0161 |
| KIT | All Tumour Types | 0.70 | 0.0063 |
| KRAS | All Tumour Types | 0.71 | 0.0093 |
| MAP3K1 | All Tumour Types | 0.73 | 0.0048 |
| MECOM | All Tumour Types | 0.73 | 0.0013 |
| MTOR | Balanced Set of LGG and PCPG | 0.85 | 0.0027 |
| NCOR1 | All Tumour Types | 0.76 | 0.0068 |
| NF1 | All Tumour Types | 0.72 | 0.0048 |
| NFE2L2 | KICH | 0.67 | 0.0155 |
| NOTCH1 | Balanced Set of KIRC | 0.78 | 0.0129 |
| NRAS | LGG and PCPG | 0.89 | 0.0198 |
| NSD1 | All Tumour Types | 0.72 | 0.0046 |
| PBRM1 | Balanced Set of HNSC, KIRC, MESO, PCPG and UVM | 0.79 | 0.0190 |
| PDGFRA | Balanced Set of KICH | 0.85 | 0.0055 |
| PIK3CA | KIRP, PCPG and UVM | 0.79 | 0.0057 |
| PIK3R1 | All Tumour Types | 0.72 | 0.0019 |
| POLQ | All Tumour Types | 0.68 | 0.0025 |
| PTEN | LGG, PRAD, SARC and SKCM | 0.79 | 0.0074 |
| RB1 | All Tumour Types | 0.75 | 0.0109 |
| SETBP1 | Balanced Set of COADREAD, HNSC and PRAD | 0.71 | 0.0086 |
| SETD2 | Balanced Set of HNSC, KIRC, PCPG and UVM | 0.79 | 0.0188 |
| SF3B1 | UVM | 0.78 | 0.0211 |
| SMAD4 | Balanced Set of COADREAD | 0.83 | 0.0043 |
| SPOP | Balanced Set of KIRP, THCA and THYM | 0.83 | 0.0176 |
| STAG2 | KIRP | 0.76 | 0.0076 |
| TET2 | All Tumour Types | 0.72 | 0.0012 |
| TP53 | All Tumour Types | 0.87 | 0.0424 |