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 |
| CNTFR | ENSG00000122756 | 0.00 | 0.00 | 0 | 0 |
| PRKCG | ENSG00000126583 | 0.00 | 0.00 | 0 | 0 |
| DAPK1 | ENSG00000196730 | 0.00 | 0.00 | 0 | 0 |
| NOS3 | ENSG00000164867 | 0.00 | 0.00 | 0 | 0 |
| CTSF | ENSG00000174080 | 0.00 | 0.00 | 0 | 0 |
| CACNA2D1 | ENSG00000153956 | 0.00 | 0.00 | 0 | 0 |
| SIGLEC7 | ENSG00000168995 | 0.00 | 0.00 | 0 | 0 |
| PGC | ENSG00000096088 | 0.00 | 0.00 | 0 | 0 |
| COL11A2 | ENSG00000204248 | 0.00 | 0.00 | 0 | 0 |
| ALDH2 | ENSG00000111275 | 0.00 | 0.00 | 0 | 0 |
| GRIK5 | ENSG00000105737 | 0.00 | 0.00 | 0 | 0 |
| GSTA1 | ENSG00000243955 | 0.00 | 0.00 | 0 | 0 |
| SLC22A7 | ENSG00000137204 | 0.00 | 0.00 | 0 | 0 |
| GUSB | ENSG00000169919 | 0.10 | 0.00 | 1 | 0 |
| EPHA10 | ENSG00000183317 | 0.00 | 0.00 | 0 | 0 |
| HLA-A | ENSG00000206503 | 0.00 | 0.00 | 0 | 0 |
| ENGASE | ENSG00000167280 | 0.86 | 0.00 | 4 | 0 |
| UGT2B7 | ENSG00000171234 | 0.00 | 0.00 | 0 | 0 |
| CIT | ENSG00000122966 | 0.00 | 0.00 | 0 | 0 |
| RORB | ENSG00000198963 | 0.00 | 0.00 | 0 | 0 |
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