Mutation
The putative cancer-causing PDGs driven by somatic mutations were predicted by integration of five complementary methods to identify the genes with mutations that have significant signs of positive selection during tumor evolution.
Summary of mutation frequency of the PDGs in each cancer type
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| HGNC Symbol | Ensembl Gene ID | ACC_Mut% | BLCA_Mut% | BRCA_Mut% | CESC_Mut% | CHOL_Mut% | COAD_Mut% | DLBC_Mut% | ESCA_Mut% | GBM_Mut% | HNSC_Mut% | KICH_Mut% | KIRC_Mut% | KIRP_Mut% | LAML_Mut% | LGG_Mut% | LIHC_Mut% | LUAD_Mut% | LUSC_Mut% | MESO_Mut% | OV_Mut% | PAAD_Mut% | PCPG_Mut% | PRAD_Mut% | READ_Mut% | SARC_Mut% | SKCM_Mut% | STAD_Mut% | TGCT_Mut% | THCA_Mut% | THYM_Mut% | UCEC_Mut% | UCS_Mut% | UVM_Mut% |
| GTF3C4 | ENSG00000125484 | 0.00 | 1.02 | 0.52 | 0.00 | 0.00 | 0.65 | 0.00 | 0.00 | 0.00 | 0.80 | 0.00 | 0.00 | 0.36 | 0.00 | 0.00 | 0.56 | 1.13 | 0.86 | 0.00 | 0.49 | 0.57 | 0.00 | 0.00 | 0.78 | 0.00 | 0.95 | 0.27 | 0.00 | 0.00 | 0.00 | 2.00 | 0.00 | 0.00 |
| KDM8 | ENSG00000155666 | 0.00 | 0.51 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.56 | 0.56 | 0.43 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.66 | 0.27 | 0.00 | 0.00 | 0.00 | 1.33 | 0.00 | 0.00 |
| CAMKMT | ENSG00000143919 | 0.00 | 0.00 | 0.31 | 0.00 | 0.00 | 0.00 | 0.00 | 0.55 | 0.00 | 0.40 | 0.00 | 0.00 | 0.00 | 0.00 | 0.20 | 0.00 | 0.00 | 0.64 | 0.00 | 0.00 | 0.00 | 0.00 | 0.41 | 0.00 | 0.00 | 0.71 | 0.54 | 0.00 | 0.00 | 0.00 | 0.22 | 0.00 | 0.00 |
| PRMT2 | ENSG00000160310 | 0.00 | 0.00 | 0.21 | 0.36 | 0.00 | 0.32 | 0.00 | 0.00 | 0.52 | 0.40 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.28 | 0.38 | 0.86 | 0.00 | 0.74 | 0.00 | 0.00 | 0.00 | 0.78 | 0.86 | 0.47 | 0.27 | 0.00 | 0.00 | 0.00 | 0.89 | 0.00 | 0.00 |
| L3MBTL2 | ENSG00000100395 | 0.00 | 0.76 | 0.31 | 0.36 | 0.00 | 0.65 | 0.00 | 0.00 | 0.00 | 0.60 | 0.00 | 0.27 | 0.71 | 0.00 | 0.39 | 0.83 | 0.38 | 0.43 | 0.00 | 0.74 | 1.15 | 0.00 | 0.20 | 0.00 | 0.43 | 1.18 | 0.54 | 0.00 | 0.00 | 0.00 | 1.33 | 0.00 | 0.00 |
| FXR1 | ENSG00000114416 | 2.22 | 0.76 | 0.41 | 1.09 | 0.00 | 0.65 | 0.00 | 1.66 | 0.26 | 1.39 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.83 | 0.94 | 1.29 | 0.00 | 0.74 | 0.57 | 0.56 | 0.20 | 3.13 | 0.43 | 0.47 | 0.54 | 0.00 | 0.00 | 0.00 | 2.88 | 1.82 | 0.00 |
| CDYL | ENSG00000153046 | 0.00 | 1.02 | 0.52 | 0.00 | 0.00 | 0.32 | 0.00 | 0.00 | 0.00 | 0.20 | 0.00 | 1.08 | 0.36 | 0.74 | 0.20 | 1.11 | 2.45 | 1.29 | 0.00 | 1.47 | 0.00 | 0.00 | 0.20 | 0.78 | 0.00 | 1.18 | 1.08 | 0.00 | 0.00 | 0.00 | 0.89 | 0.00 | 0.00 |
| TDRD10 | ENSG00000163239 | 0.00 | 0.25 | 0.31 | 0.36 | 0.00 | 0.65 | 0.00 | 1.10 | 0.52 | 0.80 | 0.00 | 0.27 | 0.00 | 0.00 | 0.20 | 0.28 | 1.13 | 0.86 | 0.00 | 0.25 | 0.57 | 0.00 | 0.00 | 0.00 | 0.00 | 0.95 | 1.08 | 0.00 | 0.00 | 0.00 | 0.89 | 0.00 | 0.00 |
| TET1 | ENSG00000138336 | 2.22 | 4.83 | 1.24 | 2.55 | 0.00 | 3.23 | 2.70 | 2.21 | 1.55 | 1.39 | 1.54 | 0.81 | 2.49 | 0.74 | 0.20 | 1.67 | 4.14 | 3.22 | 1.23 | 1.47 | 0.00 | 0.00 | 0.61 | 3.13 | 0.43 | 6.40 | 1.36 | 2.08 | 0.41 | 0.00 | 3.77 | 0.00 | 0.00 |
| CHD4 | ENSG00000111642 | 0.00 | 5.09 | 2.17 | 2.92 | 0.00 | 3.87 | 5.41 | 1.10 | 1.03 | 2.19 | 3.08 | 2.17 | 0.71 | 0.74 | 0.78 | 1.94 | 2.64 | 2.79 | 0.00 | 2.45 | 0.57 | 0.00 | 1.02 | 0.00 | 0.00 | 3.79 | 4.07 | 0.00 | 0.20 | 0.00 | 14.41 | 14.55 | 0.00 |
| VCPKMT | ENSG00000100483 | 0.00 | 0.25 | 0.00 | 0.00 | 0.00 | 0.00 | 2.70 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.21 | 0.00 | 0.25 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.27 | 0.00 | 0.00 | 0.00 | 0.44 | 0.00 | 0.00 |
| TP53BP1 | ENSG00000067369 | 0.00 | 4.58 | 0.93 | 4.01 | 2.86 | 2.26 | 0.00 | 0.55 | 0.52 | 2.79 | 0.00 | 1.63 | 2.14 | 0.00 | 0.39 | 1.11 | 1.88 | 1.50 | 0.00 | 0.74 | 0.00 | 0.56 | 1.02 | 0.78 | 0.43 | 4.74 | 2.98 | 0.69 | 0.20 | 0.00 | 2.44 | 0.00 | 0.00 |
| CHD2 | ENSG00000173575 | 3.33 | 5.85 | 0.72 | 1.46 | 0.00 | 1.29 | 2.70 | 0.55 | 0.77 | 1.59 | 0.00 | 0.54 | 0.71 | 0.00 | 0.20 | 1.39 | 1.69 | 1.72 | 1.23 | 1.72 | 0.00 | 0.00 | 0.41 | 0.78 | 0.43 | 3.55 | 2.17 | 0.00 | 0.41 | 0.83 | 2.22 | 1.82 | 0.00 |
| GLYR1 | ENSG00000140632 | 0.00 | 2.04 | 0.41 | 0.73 | 0.00 | 0.65 | 2.70 | 0.55 | 0.52 | 0.80 | 0.00 | 0.54 | 1.07 | 0.00 | 0.00 | 0.56 | 0.19 | 1.29 | 0.00 | 0.49 | 0.00 | 0.00 | 0.20 | 0.00 | 0.00 | 1.18 | 0.81 | 0.00 | 0.00 | 0.00 | 0.89 | 0.00 | 0.00 |
| CDYL2 | ENSG00000166446 | 0.00 | 0.51 | 0.21 | 0.00 | 0.00 | 0.97 | 0.00 | 0.55 | 1.03 | 1.20 | 0.00 | 0.00 | 0.00 | 0.74 | 0.39 | 0.00 | 0.94 | 1.07 | 0.00 | 0.74 | 0.57 | 0.00 | 0.00 | 1.56 | 0.86 | 3.32 | 0.27 | 0.69 | 0.00 | 0.00 | 0.22 | 0.00 | 0.00 |
| PHF12 | ENSG00000109118 | 0.00 | 1.53 | 0.83 | 2.55 | 0.00 | 0.00 | 2.70 | 0.55 | 0.52 | 0.60 | 0.00 | 0.81 | 1.07 | 0.74 | 0.00 | 0.28 | 0.19 | 0.43 | 0.00 | 0.74 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.42 | 0.81 | 0.00 | 0.00 | 0.00 | 1.55 | 0.00 | 0.00 |
| TET3 | ENSG00000187605 | 1.11 | 1.78 | 0.93 | 1.82 | 2.86 | 1.29 | 0.00 | 1.10 | 0.77 | 1.39 | 0.00 | 0.27 | 0.36 | 0.00 | 0.00 | 1.11 | 1.69 | 2.15 | 0.00 | 1.23 | 0.57 | 0.00 | 0.61 | 2.34 | 0.43 | 3.55 | 1.36 | 0.00 | 0.20 | 0.00 | 3.33 | 1.82 | 1.25 |
| SETD4 | ENSG00000185917 | 0.00 | 1.02 | 0.31 | 0.36 | 0.00 | 0.00 | 0.00 | 0.55 | 0.00 | 0.00 | 0.00 | 0.54 | 0.36 | 0.00 | 0.20 | 0.00 | 0.94 | 0.64 | 0.00 | 0.49 | 0.00 | 0.00 | 0.20 | 0.78 | 0.00 | 0.71 | 0.54 | 0.00 | 0.00 | 0.00 | 0.44 | 0.00 | 0.00 |
| VPRBP | ENSG00000145041 | 1.11 | 0.76 | 0.72 | 0.73 | 2.86 | 0.97 | 2.70 | 0.55 | 0.00 | 0.80 | 0.00 | 0.00 | 0.71 | 0.00 | 0.20 | 0.28 | 1.13 | 0.64 | 0.00 | 1.23 | 0.00 | 0.56 | 0.00 | 0.78 | 0.00 | 1.66 | 0.27 | 0.00 | 0.00 | 0.00 | 2.66 | 0.00 | 0.00 |
| TET2 | ENSG00000168769 | 0.00 | 1.53 | 0.83 | 1.46 | 0.00 | 0.97 | 8.11 | 1.66 | 0.77 | 1.39 | 0.00 | 1.36 | 0.71 | 0.00 | 0.78 | 0.56 | 2.07 | 3.00 | 0.00 | 0.25 | 0.00 | 0.00 | 0.00 | 0.78 | 1.72 | 2.84 | 1.36 | 0.00 | 0.20 | 0.83 | 3.33 | 1.82 | 0.00 |
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