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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| Overall_Gscore | No. of Cancer Types | ||||
| HGNC Symbol | Ensembl Gene ID | Amplification | Deletion | Amplification | Deletion |
| PLCG1 | ENSG00000124181 | 0.00 | 0.00 | 0 | 0 |
| MORC3 | ENSG00000159256 | 0.12 | 0.00 | 1 | 0 |
| CROT | ENSG00000005469 | 0.00 | 0.00 | 0 | 0 |
| HDAC5 | ENSG00000108840 | 0.00 | 0.36 | 0 | 2 |
| ASXL1 | ENSG00000171456 | 0.23 | 0.00 | 1 | 0 |
| PTAR1 | ENSG00000188647 | 0.00 | 0.11 | 0 | 1 |
| NR2C2 | ENSG00000177463 | 0.16 | 0.18 | 1 | 1 |
| PHF23 | ENSG00000040633 | 0.00 | 0.15 | 0 | 1 |
| SLC25A13 | ENSG00000004864 | 0.11 | 0.00 | 1 | 0 |
| IL10RB | ENSG00000243646 | 0.00 | 0.00 | 0 | 0 |
| PVRL3 | ENSG00000177707 | 0.00 | 0.00 | 0 | 0 |
| CYP19A1 | ENSG00000137869 | 0.00 | 0.00 | 0 | 0 |
| ADRA1D | ENSG00000171873 | 0.00 | 0.00 | 0 | 0 |
| CNP | ENSG00000173786 | 0.00 | 0.31 | 0 | 2 |
| KLHL7 | ENSG00000122550 | 0.13 | 0.00 | 1 | 0 |
| PA2G4 | ENSG00000170515 | 0.00 | 0.00 | 0 | 0 |
| CDK14 | ENSG00000058091 | 0.00 | 0.00 | 0 | 0 |
| NPEPL1 | ENSG00000215440 | 0.25 | 0.00 | 1 | 0 |
| BTN3A2 | ENSG00000186470 | 0.00 | 0.00 | 0 | 0 |
| AHCYL1 | ENSG00000168710 | 0.00 | 0.47 | 0 | 2 |
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