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% |
| NEK4 | ENSG00000114904 | 0.00 | 1.27 | 0.00 | 0.36 | 0.00 | 1.29 | 0.00 | 0.55 | 0.77 | 0.40 | 0.00 | 0.00 | 0.00 | 0.00 | 0.20 | 0.28 | 0.75 | 0.64 | 0.00 | 0.25 | 0.57 | 0.56 | 0.20 | 0.78 | 0.00 | 1.66 | 0.00 | 0.00 | 0.00 | 0.00 | 1.11 | 0.00 | 0.00 |
| ITIH3 | ENSG00000162267 | 1.11 | 0.76 | 0.10 | 1.46 | 0.00 | 0.32 | 0.00 | 0.00 | 0.52 | 0.40 | 0.00 | 0.27 | 0.71 | 0.00 | 0.39 | 0.56 | 0.56 | 1.29 | 0.00 | 0.98 | 0.57 | 0.00 | 0.20 | 1.56 | 0.00 | 2.13 | 0.54 | 0.00 | 0.00 | 0.00 | 1.33 | 1.82 | 0.00 |
| TKT | ENSG00000163931 | 0.00 | 0.25 | 0.31 | 0.36 | 0.00 | 0.32 | 0.00 | 0.00 | 0.26 | 0.60 | 0.00 | 0.27 | 0.71 | 0.00 | 0.00 | 0.28 | 0.56 | 0.21 | 0.00 | 0.25 | 0.00 | 0.00 | 0.00 | 0.00 | 0.43 | 1.42 | 0.54 | 0.00 | 0.00 | 0.00 | 1.33 | 0.00 | 0.00 |
| RETNLB | ENSG00000163515 | 0.00 | 0.00 | 0.21 | 0.00 | 0.00 | 0.32 | 0.00 | 0.00 | 0.26 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.28 | 0.38 | 1.07 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.42 | 0.27 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
| PARP9 | ENSG00000138496 | 0.00 | 2.04 | 0.93 | 0.73 | 0.00 | 1.61 | 2.70 | 0.00 | 0.77 | 0.60 | 0.00 | 0.00 | 0.36 | 0.00 | 0.00 | 0.00 | 1.13 | 2.15 | 0.00 | 0.74 | 0.57 | 0.00 | 0.20 | 0.78 | 0.00 | 1.66 | 0.54 | 0.00 | 0.20 | 0.00 | 0.67 | 0.00 | 0.00 |
| UMPS | ENSG00000114491 | 0.00 | 1.02 | 0.41 | 0.36 | 0.00 | 0.00 | 0.00 | 0.55 | 0.00 | 0.20 | 0.00 | 0.27 | 0.36 | 0.00 | 0.20 | 0.56 | 0.56 | 1.72 | 0.00 | 0.49 | 0.00 | 0.00 | 0.00 | 0.78 | 0.43 | 0.24 | 0.27 | 0.69 | 0.00 | 0.00 | 0.67 | 0.00 | 0.00 |
| TRH | ENSG00000170893 | 0.00 | 1.02 | 0.31 | 0.73 | 0.00 | 0.00 | 0.00 | 0.00 | 0.26 | 0.20 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.28 | 0.56 | 0.64 | 1.23 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.71 | 0.27 | 0.00 | 0.00 | 0.83 | 0.44 | 0.00 | 0.00 |
| PIK3CB | ENSG00000051382 | 0.00 | 2.04 | 0.83 | 0.00 | 0.00 | 0.65 | 0.00 | 1.66 | 1.55 | 1.20 | 0.00 | 0.54 | 0.71 | 1.47 | 0.20 | 0.83 | 1.69 | 2.79 | 0.00 | 1.72 | 0.57 | 0.00 | 0.61 | 0.78 | 0.43 | 1.90 | 1.08 | 0.69 | 0.20 | 0.00 | 2.44 | 0.00 | 0.00 |
| RBP2 | ENSG00000114113 | 0.00 | 1.27 | 0.21 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.20 | 0.00 | 0.00 | 0.36 | 0.00 | 0.00 | 0.00 | 1.13 | 0.21 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.78 | 0.86 | 0.47 | 0.27 | 0.00 | 0.00 | 0.00 | 0.22 | 0.00 | 0.00 |
| RBP1 | ENSG00000114115 | 0.00 | 1.02 | 0.31 | 0.36 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.71 | 0.00 | 0.00 | 0.00 | 0.00 | 0.43 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.95 | 0.00 | 0.69 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
| CPB1 | ENSG00000153002 | 1.11 | 0.76 | 0.10 | 0.00 | 0.00 | 0.65 | 0.00 | 0.55 | 0.26 | 0.60 | 0.00 | 0.54 | 0.00 | 0.00 | 0.20 | 1.11 | 2.45 | 2.58 | 0.00 | 0.49 | 1.15 | 0.00 | 0.00 | 3.13 | 0.43 | 1.18 | 0.81 | 0.00 | 0.00 | 0.00 | 0.89 | 0.00 | 0.00 |
| CPA3 | ENSG00000163751 | 0.00 | 1.27 | 0.00 | 0.73 | 0.00 | 0.32 | 0.00 | 0.55 | 0.00 | 1.00 | 0.00 | 0.00 | 0.00 | 0.74 | 0.00 | 0.28 | 2.45 | 4.08 | 0.00 | 0.49 | 0.57 | 0.00 | 0.00 | 0.00 | 0.00 | 3.79 | 0.81 | 0.00 | 0.00 | 0.00 | 0.44 | 0.00 | 0.00 |
| VN2R1P | ENSG00000174930 | |||||||||||||||||||||||||||||||||
| LXN | ENSG00000079257 | 0.00 | 0.00 | 0.21 | 0.00 | 0.00 | 0.32 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.54 | 0.00 | 0.00 | 0.00 | 0.00 | 0.19 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.24 | 0.54 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
| PIK3CA | ENSG00000121879 | 1.11 | 20.10 | 34.30 | 26.64 | 5.71 | 27.74 | 0.00 | 9.39 | 9.02 | 17.93 | 0.00 | 1.63 | 1.07 | 0.00 | 8.04 | 3.33 | 4.90 | 11.37 | 2.47 | 1.72 | 2.87 | 0.00 | 2.04 | 14.06 | 3.02 | 1.90 | 10.03 | 2.08 | 0.61 | 0.00 | 46.12 | 34.55 | 0.00 |
| SPON2 | ENSG00000159674 | 0.00 | 0.25 | 0.00 | 0.00 | 0.00 | 0.65 | 0.00 | 0.00 | 0.77 | 0.00 | 0.00 | 0.54 | 0.71 | 0.00 | 0.00 | 0.00 | 0.19 | 0.21 | 0.00 | 0.00 | 0.00 | 0.00 | 0.20 | 0.00 | 0.00 | 0.71 | 0.81 | 0.00 | 0.41 | 0.00 | 0.00 | 1.82 | 0.00 |
| RGS12 | ENSG00000159788 | 1.11 | 3.05 | 0.41 | 1.09 | 0.00 | 0.97 | 2.70 | 2.76 | 1.03 | 1.39 | 1.54 | 0.27 | 0.36 | 0.00 | 0.59 | 1.39 | 1.88 | 2.79 | 0.00 | 0.49 | 0.57 | 0.00 | 0.20 | 0.78 | 0.43 | 3.79 | 2.44 | 0.69 | 0.20 | 0.00 | 3.10 | 1.82 | 0.00 |
| HTRA3 | ENSG00000170801 | 1.11 | 1.02 | 0.10 | 0.36 | 0.00 | 1.29 | 0.00 | 0.55 | 0.00 | 0.00 | 0.00 | 0.27 | 0.00 | 0.00 | 0.39 | 0.56 | 0.19 | 1.07 | 0.00 | 0.49 | 0.00 | 0.00 | 0.00 | 1.56 | 0.00 | 1.42 | 0.00 | 0.00 | 0.00 | 0.00 | 0.67 | 0.00 | 0.00 |
| LAP3 | ENSG00000002549 | 0.00 | 1.02 | 0.10 | 0.00 | 0.00 | 0.65 | 2.70 | 0.00 | 0.00 | 0.40 | 0.00 | 0.27 | 0.71 | 0.74 | 0.00 | 0.28 | 0.56 | 0.86 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.24 | 0.27 | 0.00 | 0.00 | 0.00 | 1.11 | 0.00 | 0.00 |
| STATH | ENSG00000126549 | 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 | 0.00 | 0.20 | 0.00 | 0.19 | 0.21 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.20 | 0.00 | 0.22 | 0.00 | 0.00 |
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