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% |
| HDAC4 | ENSG00000068024 | 0.00 | 0.76 | 0.52 | 0.36 | 0.00 | 0.65 | 0.00 | 2.21 | 0.52 | 1.59 | 0.00 | 0.27 | 0.00 | 0.74 | 0.59 | 1.39 | 2.26 | 2.36 | 0.00 | 0.98 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 2.13 | 0.81 | 0.00 | 0.00 | 0.00 | 4.43 | 0.00 | 0.00 |
| OTOS | ENSG00000178602 | 0.00 | 0.00 | 0.10 | 0.36 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.20 | 0.00 | 0.00 | 0.00 | 0.00 | 0.39 | 0.00 | 0.56 | 0.21 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.71 | 0.00 | 0.00 | 0.00 | 0.00 | 0.44 | 0.00 | 0.00 |
| RNPEPL1 | ENSG00000142327 | 0.00 | 0.25 | 0.21 | 0.36 | 0.00 | 0.65 | 0.00 | 0.00 | 0.00 | 0.20 | 0.00 | 0.00 | 0.00 | 0.00 | 0.20 | 0.00 | 0.00 | 0.21 | 0.00 | 0.00 | 0.00 | 0.56 | 0.20 | 0.00 | 0.00 | 0.24 | 0.27 | 0.00 | 0.20 | 0.00 | 1.11 | 0.00 | 1.25 |
| ATG4B | ENSG00000168397 | 0.00 | 0.51 | 0.10 | 0.00 | 0.00 | 0.32 | 0.00 | 1.10 | 0.26 | 0.00 | 0.00 | 0.00 | 0.36 | 0.00 | 0.20 | 0.28 | 0.19 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.20 | 0.00 | 0.00 | 0.47 | 0.00 | 0.69 | 0.00 | 0.00 | 0.67 | 0.00 | 0.00 |
| RSPO4 | ENSG00000101282 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.65 | 0.00 | 0.55 | 0.26 | 0.20 | 0.00 | 0.27 | 0.00 | 0.74 | 0.20 | 0.00 | 0.75 | 0.21 | 0.00 | 0.00 | 0.57 | 0.00 | 0.00 | 0.00 | 0.00 | 0.24 | 0.54 | 0.00 | 0.00 | 0.00 | 0.22 | 0.00 | 0.00 |
| GNRH2 | ENSG00000125787 | 0.00 | 0.51 | 0.00 | 0.36 | 0.00 | 0.32 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.28 | 0.00 | 0.21 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.24 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
| CDC25B | ENSG00000101224 | 0.00 | 0.51 | 0.62 | 0.73 | 0.00 | 0.65 | 2.70 | 1.10 | 0.26 | 0.60 | 0.00 | 0.00 | 0.00 | 0.00 | 0.20 | 1.11 | 0.19 | 1.07 | 0.00 | 0.74 | 0.57 | 0.00 | 0.61 | 0.78 | 0.43 | 1.66 | 0.54 | 0.00 | 0.00 | 0.00 | 0.22 | 0.00 | 0.00 |
| RBBP9 | ENSG00000089050 | 1.11 | 0.25 | 0.21 | 0.36 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.36 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.25 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.44 | 0.00 | 0.00 |
| DNMT3B | ENSG00000088305 | 1.11 | 2.04 | 0.21 | 0.36 | 0.00 | 1.94 | 0.00 | 0.55 | 1.29 | 1.59 | 0.00 | 0.27 | 0.71 | 0.74 | 0.20 | 0.28 | 1.69 | 1.29 | 2.47 | 0.74 | 0.57 | 0.00 | 0.41 | 2.34 | 0.86 | 1.90 | 1.36 | 0.00 | 0.00 | 0.83 | 2.22 | 1.82 | 0.00 |
| GSS | ENSG00000100983 | 0.00 | 1.02 | 0.21 | 0.36 | 0.00 | 0.00 | 0.00 | 0.00 | 0.26 | 0.20 | 0.00 | 0.27 | 0.00 | 0.00 | 0.00 | 0.00 | 0.75 | 0.64 | 0.00 | 0.49 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 1.66 | 0.27 | 0.00 | 0.00 | 0.00 | 0.22 | 0.00 | 0.00 |
| SOGA1 | ENSG00000149639 | 1.11 | 1.27 | 0.62 | 0.73 | 0.00 | 0.65 | 2.70 | 0.55 | 0.26 | 1.39 | 0.00 | 0.27 | 0.71 | 0.74 | 0.00 | 1.11 | 1.51 | 2.15 | 0.00 | 1.47 | 0.57 | 0.00 | 0.20 | 3.91 | 0.00 | 1.18 | 1.08 | 0.69 | 0.20 | 1.65 | 3.77 | 0.00 | 0.00 |
| TOP1 | ENSG00000198900 | 2.22 | 1.78 | 0.31 | 0.73 | 0.00 | 1.29 | 0.00 | 0.55 | 0.52 | 0.40 | 0.00 | 0.54 | 0.00 | 0.74 | 0.00 | 0.28 | 0.94 | 1.50 | 0.00 | 0.98 | 0.00 | 0.00 | 0.00 | 0.78 | 0.00 | 1.42 | 1.08 | 0.69 | 0.00 | 0.00 | 1.77 | 0.00 | 0.00 |
| EMILIN3 | ENSG00000183798 | 0.00 | 2.04 | 0.21 | 0.73 | 0.00 | 0.00 | 0.00 | 1.10 | 0.26 | 0.40 | 0.00 | 0.00 | 0.36 | 0.00 | 0.00 | 0.83 | 1.51 | 1.29 | 0.00 | 0.25 | 0.00 | 0.00 | 0.61 | 0.00 | 0.43 | 2.61 | 0.81 | 0.00 | 0.00 | 0.00 | 1.33 | 0.00 | 0.00 |
| L3MBTL1 | ENSG00000185513 | 1.11 | 2.29 | 0.41 | 0.36 | 0.00 | 0.65 | 0.00 | 0.00 | 0.52 | 0.80 | 0.00 | 0.00 | 0.36 | 0.74 | 0.00 | 0.83 | 1.51 | 1.93 | 0.00 | 0.25 | 0.57 | 0.00 | 0.00 | 1.56 | 0.00 | 2.37 | 1.36 | 0.00 | 0.00 | 0.00 | 1.11 | 0.00 | 0.00 |
| HNF4A | ENSG00000101076 | 1.11 | 1.53 | 0.52 | 0.73 | 0.00 | 1.29 | 0.00 | 0.55 | 1.80 | 1.00 | 0.00 | 0.27 | 1.07 | 0.74 | 0.39 | 0.83 | 2.64 | 1.50 | 0.00 | 0.49 | 0.00 | 0.00 | 0.00 | 0.78 | 0.86 | 3.55 | 0.27 | 0.00 | 0.41 | 0.00 | 1.33 | 0.00 | 0.00 |
| WISP2 | ENSG00000064205 | 0.00 | 0.76 | 0.10 | 0.00 | 0.00 | 0.65 | 0.00 | 0.55 | 0.26 | 0.40 | 0.00 | 0.00 | 0.00 | 0.00 | 0.39 | 0.83 | 0.38 | 0.43 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 2.34 | 0.00 | 0.24 | 0.81 | 0.00 | 0.00 | 0.00 | 0.44 | 0.00 | 0.00 |
| SEMG2 | ENSG00000124157 | 0.00 | 1.27 | 0.52 | 1.09 | 0.00 | 1.29 | 0.00 | 1.10 | 0.77 | 0.20 | 0.00 | 0.27 | 0.36 | 0.00 | 0.39 | 0.83 | 1.51 | 2.15 | 1.23 | 0.49 | 0.57 | 0.56 | 0.00 | 2.34 | 0.00 | 6.16 | 1.36 | 0.00 | 0.00 | 0.00 | 1.33 | 0.00 | 0.00 |
| SPINT3 | ENSG00000101446 | 0.00 | 0.00 | 0.21 | 0.00 | 0.00 | 0.32 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.28 | 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 | 0.00 | 0.00 | 0.00 |
| TP53RK | ENSG00000172315 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.26 | 0.40 | 0.00 | 0.27 | 0.36 | 0.00 | 0.20 | 0.28 | 0.19 | 0.21 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.89 | 0.00 | 0.00 |
| NCOA3 | ENSG00000124151 | 0.00 | 2.80 | 0.93 | 0.36 | 0.00 | 0.97 | 0.00 | 1.10 | 0.77 | 1.39 | 1.54 | 1.08 | 0.71 | 0.74 | 0.59 | 1.94 | 2.26 | 1.93 | 0.00 | 2.21 | 0.00 | 0.00 | 0.20 | 1.56 | 0.00 | 4.50 | 1.63 | 0.00 | 0.20 | 0.00 | 1.55 | 0.00 | 0.00 |
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