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 |
| ANKK1 | ENSG00000170209 | 0.01 | 0.01 | 0.00 | 0.07 | 0.02 | 0.02 | 0.00 | 0.10 | 0.02 | 0.11 | 0.00 | 0.00 | 0.02 | 0.17 | 0.03 | 0.09 | 0.04 | 0.09 | 0.03 | 0.16 | 0.04 | 0.13 | 0.04 | 0.09 | 0.01 | 0.02 | 0.00 | 0.04 | 0.01 | 0.01 | 0.01 | 0.08 | 0.01 | 0.20 | 0.00 | 0.07 | 0.00 | 0.06 | 0.00 | 0.00 | 0.02 | 0.24 | 0.15 | 0.16 | 0.04 | 0.30 | 0.02 | 0.07 | 0.09 | 0.20 | 0.02 | 0.24 | 0.00 | 0.17 | 0.02 | 0.00 | 0.10 | 0.01 | 0.02 | 0.01 | 0.01 | 0.01 | 0.00 | 0.04 | 0.03 | 0.27 |
| ADRA1B | ENSG00000170214 | 0.32 | 0.00 | 0.04 | 0.01 | 0.00 | 0.00 | 0.04 | 0.01 | 0.01 | 0.08 | 0.00 | 0.00 | 0.02 | 0.07 | 0.05 | 0.03 | 0.01 | 0.05 | 0.01 | 0.04 | 0.04 | 0.01 | 0.02 | 0.04 | 0.01 | 0.02 | 0.04 | 0.03 | 0.02 | 0.01 | 0.09 | 0.03 | 0.09 | 0.01 | 0.31 | 0.02 | 0.00 | 0.04 | 0.01 | 0.00 | 0.05 | 0.04 | 0.16 | 0.14 | 0.04 | 0.02 | 0.02 | 0.02 | 0.15 | 0.01 | 0.14 | 0.06 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0.00 | 0.01 | 0.07 | 0.01 | 0.03 | 0.03 | 0.00 | 0.01 | 0.12 |
| FABP6 | ENSG00000170231 | 0.32 | 0.00 | 0.04 | 0.01 | 0.02 | 0.00 | 0.04 | 0.01 | 0.01 | 0.08 | 0.00 | 0.00 | 0.02 | 0.07 | 0.05 | 0.03 | 0.02 | 0.05 | 0.01 | 0.04 | 0.04 | 0.01 | 0.03 | 0.04 | 0.01 | 0.02 | 0.04 | 0.03 | 0.02 | 0.01 | 0.10 | 0.03 | 0.09 | 0.01 | 0.21 | 0.02 | 0.00 | 0.03 | 0.01 | 0.00 | 0.05 | 0.04 | 0.16 | 0.14 | 0.04 | 0.02 | 0.02 | 0.02 | 0.15 | 0.01 | 0.14 | 0.07 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0.00 | 0.01 | 0.07 | 0.01 | 0.03 | 0.03 | 0.00 | 0.01 | 0.12 |
| MRGPRX1 | ENSG00000170255 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.03 | 0.01 | 0.01 | 0.02 | 0.07 | 0.00 | 0.00 | 0.02 | 0.05 | 0.02 | 0.03 | 0.06 | 0.06 | 0.02 | 0.04 | 0.05 | 0.03 | 0.02 | 0.02 | 0.02 | 0.00 | 0.02 | 0.01 | 0.00 | 0.02 | 0.04 | 0.01 | 0.00 | 0.03 | 0.00 | 0.02 | 0.06 | 0.04 | 0.00 | 0.00 | 0.07 | 0.05 | 0.03 | 0.23 | 0.01 | 0.04 | 0.03 | 0.03 | 0.01 | 0.04 | 0.09 | 0.07 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.03 | 0.00 | 0.01 | 0.00 | 0.00 | 0.02 | 0.01 |
| CRTAP | ENSG00000170275 | 0.00 | 0.18 | 0.00 | 0.01 | 0.08 | 0.00 | 0.01 | 0.01 | 0.16 | 0.03 | 0.00 | 0.03 | 0.02 | 0.19 | 0.01 | 0.03 | 0.02 | 0.04 | 0.00 | 0.04 | 0.07 | 0.04 | 0.06 | 0.06 | 0.00 | 0.03 | 0.03 | 0.02 | 0.01 | 0.02 | 0.06 | 0.01 | 0.00 | 0.16 | 0.05 | 0.01 | 0.01 | 0.03 | 0.00 | 0.00 | 0.06 | 0.06 | 0.11 | 0.17 | 0.04 | 0.02 | 0.04 | 0.03 | 0.15 | 0.13 | 0.11 | 0.05 | 0.05 | 0.04 | 0.00 | 0.01 | 0.04 | 0.09 | 0.02 | 0.01 | 0.00 | 0.03 | 0.00 | 0.03 | 0.04 | 0.04 |
| FABP4 | ENSG00000170323 | 0.01 | 0.00 | 0.01 | 0.00 | 0.06 | 0.00 | 0.10 | 0.01 | 0.16 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.22 | 0.01 | 0.13 | 0.02 | 0.06 | 0.00 | 0.12 | 0.01 | 0.11 | 0.00 | 0.11 | 0.00 | 0.16 | 0.01 | 0.01 | 0.01 | 0.11 | 0.00 | 0.19 | 0.01 | 0.06 | 0.00 | 0.01 | 0.01 | 0.00 | 0.00 | 0.27 | 0.01 | 0.25 | 0.10 | 0.04 | 0.01 | 0.05 | 0.01 | 0.15 | 0.02 | 0.19 | 0.05 | 0.14 | 0.00 | 0.00 | 0.00 | 0.08 | 0.00 | 0.02 | 0.01 | 0.01 | 0.01 | 0.22 | 0.00 | 0.12 | 0.01 |
| TMED10 | ENSG00000170348 | 0.01 | 0.03 | 0.00 | 0.00 | 0.00 | 0.05 | 0.01 | 0.04 | 0.05 | 0.04 | 0.00 | 0.01 | 0.00 | 0.06 | 0.04 | 0.05 | 0.06 | 0.03 | 0.05 | 0.01 | 0.14 | 0.02 | 0.07 | 0.04 | 0.00 | 0.03 | 0.01 | 0.03 | 0.03 | 0.01 | 0.03 | 0.10 | 0.00 | 0.28 | 0.04 | 0.03 | 0.01 | 0.04 | 0.00 | 0.00 | 0.01 | 0.10 | 0.13 | 0.18 | 0.05 | 0.03 | 0.04 | 0.02 | 0.04 | 0.06 | 0.07 | 0.11 | 0.03 | 0.01 | 0.00 | 0.00 | 0.04 | 0.00 | 0.00 | 0.12 | 0.01 | 0.08 | 0.03 | 0.00 | 0.00 | 0.05 |
| CST5 | ENSG00000170367 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.00 | 0.02 | 0.04 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.08 | 0.02 | 0.06 | 0.03 | 0.05 | 0.02 | 0.07 | 0.03 | 0.06 | 0.01 | 0.05 | 0.01 | 0.03 | 0.02 | 0.04 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.00 | 0.02 | 0.01 | 0.00 | 0.00 | 0.00 | 0.04 | 0.04 | 0.08 | 0.03 | 0.05 | 0.02 | 0.03 | 0.01 | 0.05 | 0.00 | 0.07 | 0.01 | 0.01 | 0.00 | 0.01 | 0.00 | 0.00 | 0.02 | 0.00 | 0.02 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.02 |
| CST2 | ENSG00000170369 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.00 | 0.02 | 0.04 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.08 | 0.02 | 0.06 | 0.03 | 0.05 | 0.02 | 0.07 | 0.03 | 0.04 | 0.01 | 0.05 | 0.01 | 0.03 | 0.02 | 0.04 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.00 | 0.02 | 0.01 | 0.00 | 0.00 | 0.00 | 0.04 | 0.03 | 0.08 | 0.04 | 0.04 | 0.02 | 0.03 | 0.01 | 0.05 | 0.00 | 0.07 | 0.01 | 0.01 | 0.00 | 0.01 | 0.00 | 0.00 | 0.02 | 0.00 | 0.02 | 0.00 | 0.01 | 0.00 | 0.00 | 0.02 | 0.02 |
| CST1 | ENSG00000170373 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.00 | 0.02 | 0.04 | 0.01 | 0.00 | 0.00 | 0.00 | 0.01 | 0.08 | 0.02 | 0.05 | 0.03 | 0.04 | 0.02 | 0.07 | 0.03 | 0.04 | 0.01 | 0.05 | 0.01 | 0.03 | 0.02 | 0.04 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.00 | 0.02 | 0.01 | 0.00 | 0.00 | 0.00 | 0.04 | 0.03 | 0.08 | 0.04 | 0.04 | 0.02 | 0.03 | 0.01 | 0.05 | 0.00 | 0.08 | 0.01 | 0.01 | 0.00 | 0.01 | 0.00 | 0.00 | 0.02 | 0.00 | 0.03 | 0.00 | 0.01 | 0.00 | 0.00 | 0.02 | 0.03 |
| SLC30A1 | ENSG00000170385 | 0.01 | 0.02 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.05 | 0.07 | 0.06 | 0.01 | 0.00 | 0.07 | 0.03 | 0.10 | 0.01 | 0.09 | 0.01 | 0.05 | 0.00 | 0.17 | 0.05 | 0.07 | 0.01 | 0.04 | 0.01 | 0.07 | 0.03 | 0.00 | 0.00 | 0.17 | 0.02 | 0.16 | 0.02 | 0.01 | 0.03 | 0.01 | 0.00 | 0.00 | 0.00 | 0.20 | 0.02 | 0.15 | 0.17 | 0.06 | 0.01 | 0.07 | 0.02 | 0.13 | 0.04 | 0.03 | 0.20 | 0.02 | 0.03 | 0.01 | 0.00 | 0.16 | 0.04 | 0.00 | 0.01 | 0.02 | 0.04 | 0.09 | 0.00 | 0.11 | 0.03 |
| SDR9C7 | ENSG00000170426 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.04 | 0.03 | 0.00 | 0.00 | 0.02 | 0.02 | 0.11 | 0.01 | 0.03 | 0.01 | 0.03 | 0.02 | 0.08 | 0.03 | 0.10 | 0.02 | 0.02 | 0.00 | 0.02 | 0.02 | 0.03 | 0.01 | 0.08 | 0.01 | 0.06 | 0.01 | 0.19 | 0.03 | 0.06 | 0.00 | 0.00 | 0.00 | 0.04 | 0.04 | 0.16 | 0.04 | 0.04 | 0.00 | 0.04 | 0.01 | 0.20 | 0.06 | 0.21 | 0.07 | 0.02 | 0.00 | 0.00 | 0.00 | 0.12 | 0.00 | 0.02 | 0.02 | 0.06 | 0.04 | 0.00 | 0.00 | 0.08 | 0.02 |
| CD14 | ENSG00000170458 | 0.30 | 0.00 | 0.03 | 0.01 | 0.00 | 0.00 | 0.03 | 0.02 | 0.02 | 0.03 | 0.00 | 0.00 | 0.00 | 0.04 | 0.02 | 0.04 | 0.01 | 0.03 | 0.01 | 0.03 | 0.04 | 0.02 | 0.02 | 0.05 | 0.01 | 0.02 | 0.02 | 0.02 | 0.02 | 0.01 | 0.09 | 0.02 | 0.09 | 0.01 | 0.27 | 0.02 | 0.00 | 0.05 | 0.01 | 0.00 | 0.04 | 0.02 | 0.15 | 0.11 | 0.03 | 0.01 | 0.02 | 0.02 | 0.12 | 0.01 | 0.07 | 0.04 | 0.00 | 0.00 | 0.00 | 0.10 | 0.04 | 0.00 | 0.00 | 0.04 | 0.02 | 0.02 | 0.00 | 0.03 | 0.03 | 0.13 |
| C14orf169 | ENSG00000170468 | 0.01 | 0.03 | 0.00 | 0.01 | 0.00 | 0.01 | 0.01 | 0.04 | 0.06 | 0.05 | 0.00 | 0.01 | 0.00 | 0.06 | 0.04 | 0.04 | 0.04 | 0.04 | 0.04 | 0.01 | 0.05 | 0.02 | 0.02 | 0.04 | 0.00 | 0.03 | 0.01 | 0.03 | 0.01 | 0.01 | 0.00 | 0.11 | 0.00 | 0.33 | 0.02 | 0.05 | 0.01 | 0.04 | 0.00 | 0.00 | 0.01 | 0.10 | 0.07 | 0.20 | 0.06 | 0.03 | 0.04 | 0.02 | 0.33 | 0.06 | 0.08 | 0.12 | 0.03 | 0.01 | 0.00 | 0.00 | 0.04 | 0.00 | 0.00 | 0.11 | 0.01 | 0.08 | 0.03 | 0.00 | 0.00 | 0.05 |
| KISS1 | ENSG00000170498 | 0.04 | 0.00 | 0.01 | 0.01 | 0.00 | 0.00 | 0.03 | 0.00 | 0.05 | 0.06 | 0.02 | 0.00 | 0.12 | 0.00 | 0.15 | 0.00 | 0.12 | 0.01 | 0.05 | 0.00 | 0.15 | 0.06 | 0.06 | 0.01 | 0.04 | 0.01 | 0.13 | 0.01 | 0.00 | 0.00 | 0.19 | 0.01 | 0.18 | 0.02 | 0.04 | 0.02 | 0.03 | 0.00 | 0.00 | 0.00 | 0.28 | 0.00 | 0.32 | 0.06 | 0.06 | 0.00 | 0.13 | 0.01 | 0.22 | 0.00 | 0.16 | 0.13 | 0.05 | 0.00 | 0.01 | 0.00 | 0.26 | 0.02 | 0.17 | 0.00 | 0.53 | 0.00 | 0.09 | 0.00 | 0.20 | 0.01 |
| ELOVL6 | ENSG00000170522 | 0.00 | 0.01 | 0.01 | 0.01 | 0.00 | 0.00 | 0.02 | 0.02 | 0.04 | 0.05 | 0.00 | 0.00 | 0.00 | 0.06 | 0.03 | 0.03 | 0.03 | 0.05 | 0.01 | 0.01 | 0.02 | 0.04 | 0.02 | 0.05 | 0.00 | 0.02 | 0.00 | 0.03 | 0.00 | 0.02 | 0.01 | 0.09 | 0.00 | 0.11 | 0.09 | 0.02 | 0.03 | 0.01 | 0.00 | 0.00 | 0.04 | 0.05 | 0.04 | 0.26 | 0.01 | 0.02 | 0.02 | 0.04 | 0.03 | 0.11 | 0.08 | 0.06 | 0.00 | 0.01 | 0.01 | 0.00 | 0.00 | 0.02 | 0.01 | 0.03 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.06 |
| SERPINB9 | ENSG00000170542 | 0.01 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.05 | 0.18 | 0.11 | 0.00 | 0.05 | 0.02 | 0.01 | 0.09 | 0.02 | 0.10 | 0.09 | 0.05 | 0.06 | 0.10 | 0.24 | 0.05 | 0.10 | 0.02 | 0.03 | 0.02 | 0.04 | 0.00 | 0.07 | 0.18 | 0.02 | 0.06 | 0.08 | 0.04 | 0.05 | 0.00 | 0.01 | 0.00 | 0.00 | 0.10 | 0.08 | 0.43 | 0.11 | 0.10 | 0.06 | 0.08 | 0.02 | 0.21 | 0.05 | 0.06 | 0.14 | 0.04 | 0.03 | 0.00 | 0.00 | 0.14 | 0.01 | 0.02 | 0.04 | 0.02 | 0.03 | 0.22 | 0.00 | 0.22 | 0.01 |
| OR9K2 | ENSG00000170605 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.01 | 0.07 | 0.02 | 0.00 | 0.00 | 0.02 | 0.02 | 0.08 | 0.01 | 0.04 | 0.02 | 0.01 | 0.02 | 0.06 | 0.03 | 0.05 | 0.02 | 0.02 | 0.00 | 0.02 | 0.01 | 0.00 | 0.03 | 0.02 | 0.01 | 0.17 | 0.01 | 0.27 | 0.00 | 0.06 | 0.00 | 0.00 | 0.00 | 0.05 | 0.04 | 0.15 | 0.04 | 0.06 | 0.00 | 0.04 | 0.01 | 0.14 | 0.09 | 0.21 | 0.08 | 0.01 | 0.00 | 0.00 | 0.00 | 0.12 | 0.00 | 0.01 | 0.04 | 0.04 | 0.05 | 0.08 | 0.00 | 0.06 | 0.03 |
| OR10A3 | ENSG00000170683 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.01 | 0.02 | 0.00 | 0.10 | 0.00 | 0.00 | 0.02 | 0.08 | 0.01 | 0.05 | 0.01 | 0.13 | 0.01 | 0.06 | 0.03 | 0.08 | 0.02 | 0.04 | 0.01 | 0.01 | 0.01 | 0.01 | 0.00 | 0.05 | 0.03 | 0.02 | 0.03 | 0.01 | 0.01 | 0.04 | 0.02 | 0.07 | 0.00 | 0.00 | 0.03 | 0.09 | 0.01 | 0.40 | 0.01 | 0.05 | 0.02 | 0.06 | 0.05 | 0.05 | 0.08 | 0.12 | 0.02 | 0.01 | 0.00 | 0.00 | 0.02 | 0.00 | 0.01 | 0.09 | 0.00 | 0.04 | 0.00 | 0.00 | 0.02 | 0.02 |
| OR5E1P | ENSG00000170688 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.03 | 0.01 | 0.02 | 0.00 | 0.10 | 0.03 | 0.00 | 0.02 | 0.08 | 0.01 | 0.06 | 0.01 | 0.14 | 0.01 | 0.06 | 0.04 | 0.08 | 0.02 | 0.04 | 0.01 | 0.01 | 0.01 | 0.02 | 0.00 | 0.05 | 0.03 | 0.02 | 0.03 | 0.01 | 0.01 | 0.04 | 0.02 | 0.07 | 0.00 | 0.00 | 0.03 | 0.09 | 0.01 | 0.41 | 0.01 | 0.07 | 0.02 | 0.07 | 0.06 | 0.05 | 0.07 | 0.12 | 0.02 | 0.01 | 0.00 | 0.00 | 0.02 | 0.00 | 0.01 | 0.09 | 0.00 | 0.04 | 0.00 | 0.00 | 0.02 | 0.02 |
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