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 |
| MOCS3 | ENSG00000124217 | 0.00 | 0.00 | 0 | 0 |
| SEMG1 | ENSG00000124233 | 0.00 | 0.00 | 0 | 0 |
| KCNK15 | ENSG00000124249 | 0.00 | 0.00 | 0 | 0 |
| VAMP7 | ENSG00000124333 | 0.55 | 0.00 | 3 | 0 |
| IL9R | ENSG00000124334 | 0.00 | 0.00 | 0 | 0 |
| IL17C | ENSG00000124391 | 0.00 | 0.00 | 0 | 0 |
| CEACAM8 | ENSG00000124469 | 0.00 | 0.00 | 0 | 0 |
| NDP | ENSG00000124479 | 0.00 | 0.00 | 0 | 0 |
| CRISP2 | ENSG00000124490 | 0.00 | 0.00 | 0 | 0 |
| BTN2A2 | ENSG00000124508 | 0.00 | 0.00 | 0 | 0 |
| BTN1A1 | ENSG00000124557 | 0.00 | 0.00 | 0 | 0 |
| SLC17A3 | ENSG00000124564 | 0.00 | 0.00 | 0 | 0 |
| OR2B6 | ENSG00000124657 | 0.00 | 0.00 | 0 | 0 |
| TREM1 | ENSG00000124731 | 0.00 | 0.00 | 0 | 0 |
| CDKN1A | ENSG00000124762 | 0.00 | 0.00 | 0 | 0 |
| GLO1 | ENSG00000124767 | 0.00 | 0.00 | 0 | 0 |
| KCNK17 | ENSG00000124780 | 0.00 | 0.00 | 0 | 0 |
| SSR1 | ENSG00000124783 | 0.40 | 0.36 | 2 | 2 |
| CRISP1 | ENSG00000124812 | 0.00 | 0.00 | 0 | 0 |
| OPN5 | ENSG00000124818 | 0.00 | 0.00 | 0 | 0 |
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