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 |
| CDKL3 | ENSG00000006837 | 0.28 | 0.00 | 1 | 0 |
| ADAM2 | ENSG00000104755 | 0.00 | 0.00 | 0 | 0 |
| MMP27 | ENSG00000137675 | 0.00 | 0.00 | 0 | 0 |
| MYH6 | ENSG00000197616 | 0.00 | 0.00 | 0 | 0 |
| TRPM5 | ENSG00000070985 | 0.00 | 0.00 | 0 | 0 |
| COLEC10 | ENSG00000184374 | 0.00 | 0.00 | 0 | 0 |
| PRDM12 | ENSG00000130711 | 0.00 | 0.00 | 0 | 0 |
| ADAM7 | ENSG00000069206 | 0.00 | 0.00 | 0 | 0 |
| CHRNA6 | ENSG00000147434 | 0.00 | 0.00 | 0 | 0 |
| LYZL1 | ENSG00000120563 | 0.00 | 0.00 | 0 | 0 |
| PZP | ENSG00000126838 | 0.00 | 0.00 | 0 | 0 |
| CGA | ENSG00000135346 | 0.00 | 0.00 | 0 | 0 |
| PSG1 | ENSG00000231924 | 0.00 | 0.00 | 0 | 0 |
| ESRRB | ENSG00000119715 | 0.00 | 0.00 | 0 | 0 |
| ABCA10 | ENSG00000154263 | 0.00 | 0.00 | 0 | 0 |
| CATSPER3 | ENSG00000152705 | 0.28 | 0.00 | 1 | 0 |
| TECTA | ENSG00000109927 | 0.00 | 0.00 | 0 | 0 |
| GABRR1 | ENSG00000146276 | 0.00 | 0.00 | 0 | 0 |
| SCN5A | ENSG00000183873 | 0.00 | 0.00 | 0 | 0 |
| TLL2 | ENSG00000095587 | 0.00 | 0.00 | 0 | 0 |
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