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 |
| OR4Q3 | ENSG00000182652 | 0.00 | 0.00 | 0.00 | 0.03 | 0.00 | 0.00 | 0.01 | 0.02 | 0.10 | 0.05 | 0.00 | 0.00 | 0.00 | 0.05 | 0.16 | 0.04 | 0.20 | 0.07 | 0.09 | 0.06 | 0.11 | 0.07 | 0.07 | 0.04 | 0.03 | 0.02 | 0.01 | 0.09 | 0.01 | 0.04 | 0.08 | 0.00 | 0.00 | 0.02 | 0.13 | 0.03 | 0.01 | 0.02 | 0.00 | 0.00 | 0.10 | 0.03 | 0.40 | 0.12 | 0.07 | 0.02 | 0.08 | 0.03 | 0.21 | 0.08 | 0.17 | 0.09 | 0.02 | 0.01 | 0.00 | 0.01 | 0.01 | 0.00 | 0.02 | 0.03 | 0.01 | 0.09 | 0.00 | 0.00 | 0.03 | 0.03 |
| GALR2 | ENSG00000182687 | 0.02 | 0.00 | 0.05 | 0.00 | 0.02 | 0.00 | 0.04 | 0.03 | 0.21 | 0.01 | 0.00 | 0.01 | 0.09 | 0.02 | 0.16 | 0.02 | 0.24 | 0.02 | 0.09 | 0.03 | 0.21 | 0.07 | 0.07 | 0.03 | 0.05 | 0.01 | 0.07 | 0.03 | 0.04 | 0.10 | 0.25 | 0.00 | 0.08 | 0.01 | 0.16 | 0.02 | 0.02 | 0.01 | 0.00 | 0.00 | 0.36 | 0.03 | 0.34 | 0.05 | 0.23 | 0.03 | 0.19 | 0.02 | 0.61 | 0.04 | 0.24 | 0.02 | 0.04 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.09 | 0.00 | 0.06 | 0.01 | 0.14 | 0.01 | 0.25 | 0.02 |
| IGIP | ENSG00000182700 | 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 | 0.01 | 0.04 | 0.01 | 0.03 | 0.01 | 0.03 | 0.06 | 0.03 | 0.01 | 0.05 | 0.01 | 0.02 | 0.02 | 0.02 | 0.02 | 0.01 | 0.09 | 0.02 | 0.09 | 0.01 | 0.36 | 0.02 | 0.00 | 0.05 | 0.01 | 0.00 | 0.04 | 0.02 | 0.15 | 0.11 | 0.03 | 0.01 | 0.03 | 0.02 | 0.15 | 0.01 | 0.07 | 0.04 | 0.00 | 0.00 | 0.00 | 0.10 | 0.04 | 0.00 | 0.01 | 0.04 | 0.02 | 0.02 | 0.00 | 0.03 | 0.04 | 0.14 |
| SLC35D3 | ENSG00000182747 | 0.00 | 0.05 | 0.00 | 0.01 | 0.00 | 0.05 | 0.01 | 0.01 | 0.08 | 0.05 | 0.00 | 0.01 | 0.00 | 0.14 | 0.04 | 0.04 | 0.05 | 0.03 | 0.07 | 0.02 | 0.14 | 0.01 | 0.11 | 0.02 | 0.02 | 0.00 | 0.04 | 0.02 | 0.03 | 0.02 | 0.01 | 0.08 | 0.00 | 0.10 | 0.15 | 0.02 | 0.00 | 0.02 | 0.00 | 0.00 | 0.09 | 0.06 | 0.07 | 0.28 | 0.02 | 0.04 | 0.05 | 0.02 | 0.08 | 0.03 | 0.38 | 0.03 | 0.01 | 0.04 | 0.00 | 0.00 | 0.00 | 0.25 | 0.00 | 0.05 | 0.01 | 0.12 | 0.00 | 0.09 | 0.01 | 0.14 |
| PAPPA | ENSG00000182752 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.00 | 0.03 | 0.01 | 0.03 | 0.03 | 0.00 | 0.00 | 0.02 | 0.00 | 0.06 | 0.02 | 0.06 | 0.01 | 0.05 | 0.01 | 0.12 | 0.01 | 0.06 | 0.02 | 0.01 | 0.01 | 0.04 | 0.02 | 0.00 | 0.01 | 0.03 | 0.05 | 0.06 | 0.04 | 0.09 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.05 | 0.04 | 0.10 | 0.11 | 0.03 | 0.00 | 0.01 | 0.04 | 0.00 | 0.15 | 0.09 | 0.04 | 0.03 | 0.01 | 0.00 | 0.00 | 0.05 | 0.00 | 0.00 | 0.01 | 0.03 | 0.01 | 0.00 | 0.00 | 0.02 | 0.01 |
| HCAR2 | ENSG00000182782 | 0.01 | 0.01 | 0.02 | 0.00 | 0.07 | 0.02 | 0.04 | 0.05 | 0.08 | 0.03 | 0.00 | 0.00 | 0.01 | 0.02 | 0.04 | 0.05 | 0.02 | 0.06 | 0.03 | 0.03 | 0.10 | 0.04 | 0.05 | 0.04 | 0.01 | 0.01 | 0.04 | 0.03 | 0.00 | 0.06 | 0.03 | 0.09 | 0.00 | 0.17 | 0.10 | 0.01 | 0.00 | 0.03 | 0.00 | 0.00 | 0.03 | 0.08 | 0.13 | 0.24 | 0.02 | 0.02 | 0.02 | 0.07 | 0.17 | 0.27 | 0.12 | 0.05 | 0.01 | 0.00 | 0.00 | 0.00 | 0.07 | 0.06 | 0.03 | 0.01 | 0.02 | 0.00 | 0.00 | 0.00 | 0.03 | 0.07 |
| OR2T29 | ENSG00000182783 | 0.01 | 0.02 | 0.01 | 0.01 | 0.00 | 0.01 | 0.02 | 0.04 | 0.14 | 0.04 | 0.02 | 0.02 | 0.08 | 0.05 | 0.13 | 0.01 | 0.17 | 0.03 | 0.10 | 0.02 | 0.27 | 0.04 | 0.13 | 0.01 | 0.04 | 0.02 | 0.08 | 0.01 | 0.02 | 0.01 | 0.20 | 0.02 | 0.23 | 0.02 | 0.10 | 0.07 | 0.00 | 0.04 | 0.00 | 0.00 | 0.29 | 0.02 | 0.48 | 0.12 | 0.13 | 0.01 | 0.12 | 0.02 | 0.32 | 0.00 | 0.09 | 0.24 | 0.06 | 0.02 | 0.01 | 0.00 | 0.03 | 0.18 | 0.02 | 0.04 | 0.02 | 0.04 | 0.15 | 0.03 | 0.24 | 0.02 |
| VMO1 | ENSG00000182853 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.09 | 0.05 | 0.03 | 0.00 | 0.00 | 0.00 | 0.02 | 0.01 | 0.05 | 0.02 | 0.02 | 0.02 | 0.03 | 0.05 | 0.05 | 0.03 | 0.02 | 0.00 | 0.01 | 0.00 | 0.01 | 0.00 | 0.03 | 0.01 | 0.12 | 0.02 | 0.03 | 0.02 | 0.04 | 0.00 | 0.03 | 0.00 | 0.00 | 0.02 | 0.05 | 0.12 | 0.06 | 0.01 | 0.03 | 0.04 | 0.03 | 0.13 | 0.12 | 0.17 | 0.25 | 0.00 | 0.02 | 0.00 | 0.02 | 0.00 | 0.06 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0.00 | 0.04 | 0.03 |
| OR4F15 | ENSG00000182854 | 0.00 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.02 | 0.03 | 0.07 | 0.03 | 0.03 | 0.00 | 0.06 | 0.00 | 0.07 | 0.02 | 0.27 | 0.02 | 0.11 | 0.01 | 0.21 | 0.03 | 0.22 | 0.01 | 0.05 | 0.01 | 0.08 | 0.02 | 0.07 | 0.00 | 0.14 | 0.07 | 0.05 | 0.01 | 0.16 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.21 | 0.04 | 0.44 | 0.08 | 0.17 | 0.02 | 0.07 | 0.02 | 0.14 | 0.04 | 0.29 | 0.09 | 0.01 | 0.01 | 0.00 | 0.00 | 0.06 | 0.00 | 0.03 | 0.01 | 0.02 | 0.02 | 0.00 | 0.00 | 0.20 | 0.03 |
| ADGRG3 | ENSG00000182885 | 0.00 | 0.01 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.05 | 0.01 | 0.04 | 0.00 | 0.00 | 0.00 | 0.01 | 0.05 | 0.03 | 0.04 | 0.01 | 0.03 | 0.03 | 0.10 | 0.01 | 0.03 | 0.04 | 0.02 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.03 | 0.02 | 0.00 | 0.01 | 0.06 | 0.06 | 0.00 | 0.02 | 0.00 | 0.00 | 0.02 | 0.04 | 0.05 | 0.14 | 0.00 | 0.07 | 0.03 | 0.07 | 0.00 | 0.16 | 0.02 | 0.05 | 0.12 | 0.01 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.01 | 0.01 | 0.02 | 0.00 | 0.03 | 0.02 | 0.04 |
| SLC25A18 | ENSG00000182902 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.00 | 0.01 | 0.04 | 0.15 | 0.06 | 0.03 | 0.00 | 0.07 | 0.05 | 0.06 | 0.04 | 0.14 | 0.08 | 0.06 | 0.04 | 0.06 | 0.10 | 0.04 | 0.04 | 0.01 | 0.01 | 0.06 | 0.03 | 0.00 | 0.02 | 0.01 | 0.04 | 0.08 | 0.10 | 0.06 | 0.07 | 0.00 | 0.01 | 0.02 | 0.00 | 0.05 | 0.06 | 0.14 | 0.09 | 0.04 | 0.01 | 0.06 | 0.05 | 0.31 | 0.09 | 0.10 | 0.06 | 0.10 | 0.01 | 0.01 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.01 | 0.02 | 0.00 | 0.00 | 0.09 | 0.03 |
| SPNS2 | ENSG00000183018 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.09 | 0.06 | 0.03 | 0.00 | 0.00 | 0.00 | 0.02 | 0.01 | 0.06 | 0.02 | 0.03 | 0.02 | 0.03 | 0.06 | 0.04 | 0.03 | 0.02 | 0.01 | 0.01 | 0.00 | 0.01 | 0.00 | 0.03 | 0.00 | 0.13 | 0.00 | 0.03 | 0.02 | 0.04 | 0.00 | 0.03 | 0.00 | 0.00 | 0.03 | 0.05 | 0.11 | 0.07 | 0.02 | 0.03 | 0.05 | 0.04 | 0.12 | 0.12 | 0.16 | 0.24 | 0.00 | 0.02 | 0.00 | 0.02 | 0.00 | 0.06 | 0.00 | 0.00 | 0.00 | 0.06 | 0.00 | 0.00 | 0.05 | 0.03 |
| OR1G1 | ENSG00000183024 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.06 | 0.04 | 0.03 | 0.00 | 0.00 | 0.01 | 0.02 | 0.01 | 0.07 | 0.02 | 0.02 | 0.01 | 0.03 | 0.03 | 0.04 | 0.01 | 0.03 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.00 | 0.13 | 0.00 | 0.03 | 0.02 | 0.03 | 0.00 | 0.03 | 0.00 | 0.00 | 0.03 | 0.05 | 0.14 | 0.09 | 0.02 | 0.03 | 0.03 | 0.04 | 0.06 | 0.13 | 0.16 | 0.22 | 0.00 | 0.02 | 0.00 | 0.02 | 0.00 | 0.06 | 0.00 | 0.00 | 0.00 | 0.04 | 0.00 | 0.00 | 0.02 | 0.04 |
| SLC25A21 | ENSG00000183032 | 0.02 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.06 | 0.02 | 0.04 | 0.08 | 0.00 | 0.00 | 0.00 | 0.05 | 0.74 | 0.01 | 0.23 | 0.07 | 0.10 | 0.04 | 0.25 | 0.07 | 0.11 | 0.04 | 0.03 | 0.03 | 0.02 | 0.03 | 0.02 | 0.01 | 0.05 | 0.04 | 0.05 | 0.12 | 0.07 | 0.03 | 0.00 | 0.02 | 0.00 | 0.00 | 0.15 | 0.02 | 0.15 | 0.12 | 0.10 | 0.01 | 0.04 | 0.03 | 0.03 | 0.03 | 0.24 | 0.05 | 0.03 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.01 | 0.08 | 0.00 | 0.00 | 0.01 | 0.01 |
| SLC25A10 | ENSG00000183048 | 0.02 | 0.00 | 0.05 | 0.00 | 0.02 | 0.00 | 0.03 | 0.02 | 0.21 | 0.00 | 0.00 | 0.00 | 0.12 | 0.02 | 0.18 | 0.02 | 0.19 | 0.06 | 0.07 | 0.06 | 0.13 | 0.09 | 0.11 | 0.04 | 0.05 | 0.00 | 0.05 | 0.02 | 0.02 | 0.09 | 0.31 | 0.01 | 0.15 | 0.01 | 0.18 | 0.00 | 0.04 | 0.01 | 0.00 | 0.00 | 0.34 | 0.04 | 0.40 | 0.06 | 0.10 | 0.09 | 0.20 | 0.01 | 0.67 | 0.07 | 0.18 | 0.11 | 0.06 | 0.01 | 0.00 | 0.00 | 0.00 | 0.00 | 0.07 | 0.01 | 0.04 | 0.01 | 0.14 | 0.00 | 0.24 | 0.02 |
| FREM3 | ENSG00000183090 | 0.03 | 0.02 | 0.00 | 0.01 | 0.06 | 0.00 | 0.02 | 0.01 | 0.10 | 0.07 | 0.00 | 0.00 | 0.00 | 0.01 | 0.04 | 0.03 | 0.05 | 0.10 | 0.03 | 0.04 | 0.14 | 0.03 | 0.08 | 0.04 | 0.01 | 0.02 | 0.02 | 0.02 | 0.00 | 0.02 | 0.06 | 0.05 | 0.00 | 0.03 | 0.08 | 0.05 | 0.00 | 0.03 | 0.00 | 0.00 | 0.07 | 0.03 | 0.13 | 0.15 | 0.03 | 0.05 | 0.04 | 0.03 | 0.04 | 0.11 | 0.12 | 0.08 | 0.00 | 0.01 | 0.00 | 0.00 | 0.03 | 0.03 | 0.01 | 0.07 | 0.00 | 0.02 | 0.00 | 0.00 | 0.03 | 0.03 |
| PTGDR2 | ENSG00000183134 | 0.01 | 0.00 | 0.00 | 0.01 | 0.09 | 0.00 | 0.01 | 0.01 | 0.12 | 0.01 | 0.00 | 0.00 | 0.07 | 0.02 | 0.06 | 0.03 | 0.06 | 0.02 | 0.12 | 0.02 | 0.13 | 0.03 | 0.04 | 0.03 | 0.01 | 0.01 | 0.05 | 0.02 | 0.00 | 0.02 | 0.03 | 0.02 | 0.04 | 0.09 | 0.06 | 0.00 | 0.02 | 0.00 | 0.00 | 0.00 | 0.12 | 0.07 | 0.11 | 0.05 | 0.05 | 0.03 | 0.04 | 0.02 | 0.14 | 0.14 | 0.06 | 0.02 | 0.00 | 0.05 | 0.00 | 0.00 | 0.00 | 0.02 | 0.00 | 0.02 | 0.00 | 0.03 | 0.00 | 0.00 | 0.05 | 0.04 |
| GABRR3 | ENSG00000183185 | 0.01 | 0.01 | 0.01 | 0.01 | 0.00 | 0.00 | 0.03 | 0.02 | 0.05 | 0.03 | 0.00 | 0.00 | 0.01 | 0.03 | 0.06 | 0.01 | 0.20 | 0.03 | 0.07 | 0.01 | 0.11 | 0.03 | 0.05 | 0.03 | 0.00 | 0.01 | 0.03 | 0.01 | 0.00 | 0.01 | 0.02 | 0.02 | 0.00 | 0.12 | 0.10 | 0.02 | 0.00 | 0.06 | 0.00 | 0.00 | 0.06 | 0.02 | 0.22 | 0.03 | 0.07 | 0.01 | 0.04 | 0.00 | 0.18 | 0.08 | 0.08 | 0.06 | 0.04 | 0.00 | 0.00 | 0.00 | 0.05 | 0.00 | 0.00 | 0.03 | 0.00 | 0.03 | 0.00 | 0.00 | 0.02 | 0.01 |
| CHST6 | ENSG00000183196 | 0.00 | 0.00 | 0.00 | 0.01 | 0.00 | 0.06 | 0.00 | 0.21 | 0.13 | 0.02 | 0.00 | 0.00 | 0.00 | 0.10 | 0.05 | 0.05 | 0.06 | 0.04 | 0.03 | 0.02 | 0.06 | 0.04 | 0.04 | 0.04 | 0.01 | 0.00 | 0.02 | 0.02 | 0.01 | 0.01 | 0.01 | 0.05 | 0.05 | 0.01 | 0.05 | 0.07 | 0.00 | 0.00 | 0.00 | 0.01 | 0.04 | 0.06 | 0.07 | 0.29 | 0.04 | 0.02 | 0.03 | 0.08 | 0.01 | 0.19 | 0.04 | 0.04 | 0.01 | 0.08 | 0.00 | 0.05 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.05 | 0.00 | 0.00 | 0.03 | 0.04 |
| OR51B4 | ENSG00000183251 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.03 | 0.00 | 0.02 | 0.01 | 0.09 | 0.00 | 0.00 | 0.02 | 0.09 | 0.01 | 0.06 | 0.01 | 0.14 | 0.02 | 0.06 | 0.02 | 0.10 | 0.02 | 0.05 | 0.01 | 0.01 | 0.01 | 0.02 | 0.00 | 0.05 | 0.03 | 0.02 | 0.03 | 0.01 | 0.01 | 0.07 | 0.03 | 0.08 | 0.00 | 0.00 | 0.02 | 0.10 | 0.01 | 0.43 | 0.01 | 0.05 | 0.02 | 0.07 | 0.03 | 0.09 | 0.03 | 0.16 | 0.02 | 0.00 | 0.00 | 0.00 | 0.05 | 0.00 | 0.01 | 0.10 | 0.01 | 0.05 | 0.00 | 0.00 | 0.01 | 0.03 |
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