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 |
| IFNA2 | ENSG00000188379 | 0.00 | 0.00 | 0 | 0 |
| PDCD1 | ENSG00000188389 | 0.00 | 0.32 | 0 | 1 |
| GPR21 | ENSG00000188394 | 0.00 | 0.00 | 0 | 0 |
| SELL | ENSG00000188404 | 0.00 | 0.00 | 0 | 0 |
| SERPINA5 | ENSG00000188488 | 0.00 | 0.00 | 0 | 0 |
| LCTL | ENSG00000188501 | 0.00 | 0.00 | 0 | 0 |
| KRTDAP | ENSG00000188508 | 0.00 | 0.00 | 0 | 0 |
| DUSP28 | ENSG00000188542 | 0.00 | 1.97 | 0 | 9 |
| OR2G6 | ENSG00000188558 | 0.00 | 0.00 | 0 | 0 |
| NDOR1 | ENSG00000188566 | 0.40 | 0.38 | 2 | 2 |
| RNASE9 | ENSG00000188655 | 0.00 | 0.00 | 0 | 0 |
| OR56A5 | ENSG00000188691 | 0.00 | 0.00 | 0 | 0 |
| QRFP | ENSG00000188710 | 0.00 | 0.00 | 0 | 0 |
| DUPD1 | ENSG00000188716 | 0.00 | 0.00 | 0 | 0 |
| OSTN | ENSG00000188729 | 0.00 | 0.00 | 0 | 0 |
| FZD9 | ENSG00000188763 | 0.00 | 0.00 | 0 | 0 |
| ADRB3 | ENSG00000188778 | 0.00 | 0.00 | 0 | 0 |
| CATSPER4 | ENSG00000188782 | 0.00 | 0.00 | 0 | 0 |
| PLA2G2E | ENSG00000188784 | 0.00 | 0.00 | 0 | 0 |
| CNR2 | ENSG00000188822 | 0.00 | 0.00 | 0 | 0 |
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