Copy Number
The putative cancer-associated PDGs driven by SCNAs in each cancer type were identified by four criteria: 1) located in a peak region of a significantly recurrent focal SNCA locus estimated by the genomic identification of significant targets in cancer (GISTIC2) algorithm, (q≤0.25); 2) altered with high frequency and large amplitude (G-score ≥0.1); 3) mRNA reliably detected in at least 10% of tumor specimens in the given cancer type (90th percentile of FPKM value ≥1); and 4) mRNA significantly and positively correlated with copy numbers (Pearson P-value less than 0.001).
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| KIRC | KIRP | KICH | PRAD | BLCA | THYM | MESO | LUAD | LUSC | HNSC | ESCA | STAD | COAD | READ | PAAD | LIHC | CHOL | ACC | PCPG | THCA | BRCA | OV | CESC | UCEC | UCS | SARC | TGCT | LAML | DLBC | LGG | GBM | UVM | SKCM | |||||||||||||||||||||||||||||||||||
| HGNC Symbol | Ensembl Gene ID | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del | Amp | Del |
| ATP6V0C | ENSG00000185883 | 0.01 | 0.00 | 0.02 | 0.00 | 0.00 | 0.00 | 0.03 | 0.00 | 0.01 | 0.15 | 0.00 | 0.00 | 0.04 | 0.02 | 0.04 | 0.03 | 0.03 | 0.08 | 0.03 | 0.03 | 0.03 | 0.09 | 0.02 | 0.08 | 0.03 | 0.03 | 0.01 | 0.02 | 0.02 | 0.02 | 0.03 | 0.02 | 0.00 | 0.05 | 0.17 | 0.02 | 0.00 | 0.01 | 0.00 | 0.00 | 0.10 | 0.02 | 0.10 | 0.16 | 0.10 | 0.03 | 0.06 | 0.03 | 0.05 | 0.05 | 0.10 | 0.02 | 0.00 | 0.00 | 0.00 | 0.00 | 0.09 | 0.00 | 0.01 | 0.00 | 0.03 | 0.01 | 0.00 | 0.00 | 0.04 | 0.01 |
| IFITM1 | ENSG00000185885 | 0.01 | 0.00 | 0.00 | 0.00 | 0.01 | 0.03 | 0.00 | 0.02 | 0.01 | 0.13 | 0.00 | 0.00 | 0.02 | 0.05 | 0.03 | 0.08 | 0.02 | 0.16 | 0.03 | 0.08 | 0.02 | 0.15 | 0.04 | 0.07 | 0.01 | 0.03 | 0.01 | 0.03 | 0.03 | 0.06 | 0.07 | 0.03 | 0.03 | 0.01 | 0.04 | 0.07 | 0.02 | 0.07 | 0.00 | 0.00 | 0.03 | 0.14 | 0.06 | 0.50 | 0.01 | 0.07 | 0.06 | 0.10 | 0.11 | 0.18 | 0.03 | 0.26 | 0.02 | 0.07 | 0.00 | 0.00 | 0.05 | 0.00 | 0.01 | 0.11 | 0.03 | 0.07 | 0.00 | 0.00 | 0.02 | 0.03 |
| PRSS38 | ENSG00000185888 | 0.01 | 0.02 | 0.01 | 0.01 | 0.00 | 0.00 | 0.01 | 0.09 | 0.11 | 0.05 | 0.02 | 0.02 | 0.05 | 0.03 | 0.09 | 0.01 | 0.12 | 0.01 | 0.06 | 0.00 | 0.19 | 0.04 | 0.10 | 0.01 | 0.03 | 0.01 | 0.05 | 0.02 | 0.01 | 0.01 | 0.13 | 0.02 | 0.23 | 0.02 | 0.04 | 0.00 | 0.00 | 0.02 | 0.00 | 0.00 | 0.23 | 0.02 | 0.40 | 0.05 | 0.07 | 0.01 | 0.09 | 0.02 | 0.26 | 0.00 | 0.03 | 0.22 | 0.03 | 0.05 | 0.02 | 0.00 | 0.02 | 0.18 | 0.03 | 0.02 | 0.02 | 0.05 | 0.09 | 0.03 | 0.11 | 0.05 |
| FFAR3 | ENSG00000185897 | 0.00 | 0.00 | 0.03 | 0.00 | 0.00 | 0.02 | 0.01 | 0.01 | 0.19 | 0.02 | 0.00 | 0.00 | 0.11 | 0.02 | 0.24 | 0.00 | 0.45 | 0.02 | 0.08 | 0.01 | 0.22 | 0.03 | 0.09 | 0.04 | 0.05 | 0.00 | 0.04 | 0.01 | 0.11 | 0.00 | 0.05 | 0.02 | 0.13 | 0.01 | 0.01 | 0.02 | 0.00 | 0.03 | 0.00 | 0.00 | 0.14 | 0.02 | 0.65 | 0.05 | 0.21 | 0.01 | 0.18 | 0.02 | 1.44 | 0.01 | 0.29 | 0.05 | 0.01 | 0.02 | 0.00 | 0.01 | 0.08 | 0.00 | 0.02 | 0.01 | 0.03 | 0.03 | 0.00 | 0.00 | 0.06 | 0.01 |
| TAS2R60 | ENSG00000185899 | 0.02 | 0.01 | 0.05 | 0.00 | 0.05 | 0.02 | 0.02 | 0.03 | 0.05 | 0.03 | 0.00 | 0.01 | 0.04 | 0.05 | 0.07 | 0.02 | 0.08 | 0.07 | 0.02 | 0.15 | 0.03 | 0.20 | 0.02 | 0.10 | 0.03 | 0.00 | 0.02 | 0.03 | 0.02 | 0.05 | 0.04 | 0.05 | 0.00 | 0.11 | 0.06 | 0.06 | 0.00 | 0.02 | 0.00 | 0.00 | 0.08 | 0.05 | 0.55 | 0.05 | 0.03 | 0.09 | 0.05 | 0.05 | 0.10 | 0.14 | 0.13 | 0.11 | 0.02 | 0.04 | 0.00 | 0.05 | 0.02 | 0.09 | 0.10 | 0.01 | 0.04 | 0.02 | 0.00 | 0.03 | 0.21 | 0.02 |
| POMK | ENSG00000185900 | 0.00 | 0.02 | 0.01 | 0.00 | 0.00 | 0.00 | 0.04 | 0.05 | 0.17 | 0.08 | 0.00 | 0.00 | 0.04 | 0.02 | 0.17 | 0.06 | 0.33 | 0.04 | 0.13 | 0.03 | 0.34 | 0.08 | 0.07 | 0.05 | 0.14 | 0.05 | 0.07 | 0.06 | 0.03 | 0.01 | 0.04 | 0.05 | 0.00 | 0.02 | 0.09 | 0.01 | 0.01 | 0.02 | 0.00 | 0.00 | 0.28 | 0.07 | 0.29 | 0.05 | 0.07 | 0.04 | 0.16 | 0.02 | 1.02 | 0.08 | 0.12 | 0.07 | 0.02 | 0.00 | 0.01 | 0.00 | 0.03 | 0.03 | 0.01 | 0.01 | 0.00 | 0.01 | 0.00 | 0.00 | 0.06 | 0.02 |
| RTN4RL1 | ENSG00000185924 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.06 | 0.05 | 0.05 | 0.00 | 0.00 | 0.01 | 0.02 | 0.01 | 0.07 | 0.03 | 0.03 | 0.01 | 0.04 | 0.05 | 0.06 | 0.04 | 0.02 | 0.03 | 0.00 | 0.01 | 0.00 | 0.00 | 0.03 | 0.03 | 0.13 | 0.00 | 0.03 | 0.05 | 0.02 | 0.00 | 0.03 | 0.00 | 0.00 | 0.02 | 0.06 | 0.14 | 0.11 | 0.02 | 0.03 | 0.06 | 0.05 | 0.11 | 0.14 | 0.18 | 0.21 | 0.01 | 0.02 | 0.00 | 0.02 | 0.00 | 0.06 | 0.01 | 0.00 | 0.00 | 0.04 | 0.00 | 0.00 | 0.02 | 0.05 |
| OR4C46 | ENSG00000185926 | 0.00 | 0.00 | 0.00 | 0.01 | 0.05 | 0.00 | 0.00 | 0.03 | 0.09 | 0.04 | 0.02 | 0.01 | 0.00 | 0.03 | 0.03 | 0.03 | 0.06 | 0.03 | 0.06 | 0.01 | 0.06 | 0.05 | 0.02 | 0.04 | 0.00 | 0.01 | 0.01 | 0.02 | 0.00 | 0.01 | 0.01 | 0.02 | 0.00 | 0.07 | 0.07 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.05 | 0.07 | 0.07 | 0.06 | 0.03 | 0.02 | 0.02 | 0.03 | 0.21 | 0.03 | 0.06 | 0.05 | 0.00 | 0.03 | 0.00 | 0.00 | 0.00 | 0.02 | 0.01 | 0.02 | 0.01 | 0.02 | 0.03 | 0.02 | 0.02 | 0.04 |
| GRK1 | ENSG00000185974 | 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 | 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 | 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 | 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 |
| HTR3E | ENSG00000186038 | 0.05 | 0.00 | 0.03 | 0.01 | 0.00 | 0.01 | 0.03 | 0.03 | 0.17 | 0.01 | 0.00 | 0.00 | 0.00 | 0.09 | 0.15 | 0.05 | 1.90 | 0.00 | 0.68 | 0.00 | 0.67 | 0.02 | 0.24 | 0.01 | 0.04 | 0.00 | 0.06 | 0.03 | 0.03 | 0.01 | 0.11 | 0.02 | 0.12 | 0.01 | 0.12 | 0.00 | 0.00 | 0.10 | 0.00 | 0.00 | 0.19 | 0.02 | 1.12 | 0.02 | 0.63 | 0.00 | 0.34 | 0.01 | 0.76 | 0.09 | 0.11 | 0.10 | 0.22 | 0.00 | 0.00 | 0.01 | 0.06 | 0.00 | 0.07 | 0.00 | 0.20 | 0.02 | 0.00 | 0.00 | 0.02 | 0.05 |
| CD300LF | ENSG00000186074 | 0.02 | 0.00 | 0.05 | 0.00 | 0.02 | 0.00 | 0.03 | 0.03 | 0.21 | 0.00 | 0.00 | 0.01 | 0.09 | 0.02 | 0.16 | 0.02 | 0.23 | 0.01 | 0.07 | 0.03 | 0.20 | 0.06 | 0.12 | 0.03 | 0.03 | 0.01 | 0.05 | 0.04 | 0.05 | 0.10 | 0.25 | 0.00 | 0.08 | 0.01 | 0.08 | 0.02 | 0.02 | 0.00 | 0.00 | 0.00 | 0.37 | 0.04 | 0.31 | 0.03 | 0.20 | 0.03 | 0.14 | 0.01 | 0.39 | 0.03 | 0.25 | 0.04 | 0.03 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.07 | 0.00 | 0.05 | 0.01 | 0.14 | 0.01 | 0.24 | 0.02 |
| OR4F5 | ENSG00000186092 | 0.00 | 0.05 | 0.01 | 0.10 | 0.00 | 0.00 | 0.02 | 0.03 | 0.10 | 0.08 | 0.00 | 0.02 | 0.04 | 0.27 | 0.09 | 0.06 | 0.08 | 0.11 | 0.06 | 0.09 | 0.13 | 0.08 | 0.09 | 0.09 | 0.02 | 0.11 | 0.00 | 0.17 | 0.05 | 0.05 | 0.02 | 0.31 | 0.00 | 1.01 | 0.05 | 0.17 | 0.01 | 0.12 | 0.00 | 0.00 | 0.04 | 0.19 | 0.23 | 0.38 | 0.06 | 0.11 | 0.05 | 0.12 | 0.08 | 0.27 | 0.18 | 0.28 | 0.10 | 0.12 | 0.02 | 0.00 | 0.00 | 0.19 | 0.00 | 0.03 | 0.03 | 0.15 | 0.00 | 0.14 | 0.07 | 0.13 |
| AGBL4 | ENSG00000186094 | 0.00 | 0.02 | 0.02 | 0.03 | 0.00 | 0.00 | 0.01 | 0.06 | 0.10 | 0.05 | 0.00 | 0.02 | 0.06 | 0.04 | 0.06 | 0.06 | 0.07 | 0.03 | 0.06 | 0.02 | 0.04 | 0.04 | 0.02 | 0.07 | 0.04 | 0.25 | 0.02 | 0.16 | 0.01 | 0.03 | 0.01 | 0.09 | 0.00 | 0.25 | 0.02 | 0.05 | 0.00 | 0.17 | 0.00 | 0.00 | 0.07 | 0.05 | 0.31 | 0.10 | 0.11 | 0.02 | 0.06 | 0.03 | 0.09 | 0.07 | 0.14 | 0.04 | 0.07 | 0.05 | 0.02 | 0.00 | 0.00 | 0.03 | 0.00 | 0.03 | 0.02 | 0.03 | 0.00 | 0.07 | 0.05 | 0.03 |
| OR5D14 | ENSG00000186113 | 0.01 | 0.00 | 0.00 | 0.01 | 0.08 | 0.00 | 0.01 | 0.03 | 0.13 | 0.04 | 0.00 | 0.01 | 0.04 | 0.03 | 0.04 | 0.03 | 0.08 | 0.03 | 0.11 | 0.01 | 0.16 | 0.05 | 0.01 | 0.04 | 0.02 | 0.01 | 0.01 | 0.02 | 0.00 | 0.01 | 0.02 | 0.02 | 0.05 | 0.07 | 0.07 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.09 | 0.07 | 0.12 | 0.06 | 0.04 | 0.02 | 0.04 | 0.03 | 0.34 | 0.03 | 0.10 | 0.05 | 0.01 | 0.03 | 0.00 | 0.00 | 0.00 | 0.02 | 0.01 | 0.02 | 0.01 | 0.02 | 0.00 | 0.02 | 0.05 | 0.04 |
| OR5D18 | ENSG00000186119 | 0.01 | 0.00 | 0.00 | 0.01 | 0.08 | 0.00 | 0.01 | 0.03 | 0.13 | 0.04 | 0.00 | 0.01 | 0.04 | 0.03 | 0.04 | 0.03 | 0.08 | 0.03 | 0.11 | 0.01 | 0.16 | 0.05 | 0.01 | 0.04 | 0.02 | 0.01 | 0.01 | 0.02 | 0.00 | 0.01 | 0.02 | 0.02 | 0.05 | 0.07 | 0.07 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.09 | 0.07 | 0.12 | 0.06 | 0.04 | 0.02 | 0.04 | 0.03 | 0.34 | 0.03 | 0.10 | 0.05 | 0.01 | 0.03 | 0.00 | 0.00 | 0.00 | 0.02 | 0.01 | 0.02 | 0.01 | 0.02 | 0.00 | 0.02 | 0.05 | 0.04 |
| TAS2R42 | ENSG00000186136 | 0.01 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.16 | 0.04 | 0.08 | 0.01 | 0.00 | 0.00 | 0.05 | 0.04 | 0.10 | 0.12 | 0.01 | 0.09 | 0.03 | 0.05 | 0.04 | 0.03 | 0.08 | 0.01 | 0.03 | 0.03 | 0.03 | 0.01 | 0.06 | 0.00 | 0.06 | 0.14 | 0.05 | 0.03 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.11 | 0.06 | 0.32 | 0.10 | 0.01 | 0.02 | 0.04 | 0.03 | 0.04 | 0.03 | 0.12 | 0.16 | 0.54 | 0.00 | 0.00 | 0.03 | 0.00 | 0.04 | 0.09 | 0.01 | 0.01 | 0.05 | 0.00 | 0.01 | 0.04 | 0.03 |
| FFAR4 | ENSG00000186188 | 0.00 | 0.01 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.12 | 0.04 | 0.10 | 0.00 | 0.02 | 0.00 | 0.14 | 0.01 | 0.03 | 0.04 | 0.07 | 0.01 | 0.06 | 0.02 | 0.10 | 0.00 | 0.10 | 0.01 | 0.09 | 0.00 | 0.07 | 0.01 | 0.05 | 0.01 | 0.06 | 0.16 | 0.07 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.01 | 0.02 | 0.08 | 0.10 | 0.31 | 0.00 | 0.06 | 0.04 | 0.10 | 0.11 | 0.09 | 0.01 | 0.06 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.07 | 0.01 | 0.03 | 0.00 | 0.05 | 0.00 | 0.00 | 0.01 | 0.03 |
| BPIFB3 | ENSG00000186190 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.02 | 0.01 | 0.22 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.07 | 0.01 | 0.21 | 0.00 | 0.20 | 0.00 | 0.06 | 0.00 | 0.05 | 0.01 | 0.11 | 0.00 | 0.17 | 0.00 | 0.03 | 0.01 | 0.02 | 0.00 | 0.00 | 0.01 | 0.05 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.06 | 0.02 | 0.22 | 0.02 | 0.22 | 0.00 | 0.07 | 0.01 | 0.29 | 0.00 | 0.08 | 0.02 | 0.03 | 0.00 | 0.00 | 0.02 | 0.04 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 |
| BPIFB4 | ENSG00000186191 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.02 | 0.01 | 0.22 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.07 | 0.01 | 0.22 | 0.00 | 0.20 | 0.00 | 0.06 | 0.00 | 0.05 | 0.01 | 0.11 | 0.00 | 0.17 | 0.00 | 0.03 | 0.01 | 0.02 | 0.00 | 0.00 | 0.01 | 0.05 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.06 | 0.02 | 0.22 | 0.02 | 0.22 | 0.00 | 0.07 | 0.01 | 0.33 | 0.00 | 0.08 | 0.02 | 0.03 | 0.00 | 0.00 | 0.02 | 0.01 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 |
| BTLA | ENSG00000186265 | 0.00 | 0.01 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.03 | 0.05 | 0.02 | 0.00 | 0.01 | 0.00 | 0.00 | 0.04 | 0.02 | 0.13 | 0.03 | 0.05 | 0.01 | 0.09 | 0.05 | 0.06 | 0.02 | 0.00 | 0.00 | 0.01 | 0.02 | 0.00 | 0.00 | 0.02 | 0.01 | 0.00 | 0.01 | 0.10 | 0.02 | 0.00 | 0.05 | 0.00 | 0.00 | 0.06 | 0.02 | 0.38 | 0.04 | 0.05 | 0.01 | 0.04 | 0.01 | 0.03 | 0.08 | 0.10 | 0.04 | 0.01 | 0.01 | 0.00 | 0.00 | 0.04 | 0.00 | 0.00 | 0.03 | 0.01 | 0.05 | 0.00 | 0.00 | 0.02 | 0.04 |
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