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 |
| ATP6V1C1 | ENSG00000155097 | 0.57 | 0.00 | 2 | 0 |
| ATP1A1 | ENSG00000163399 | 0.00 | 0.64 | 0 | 4 |
| DLK1 | ENSG00000185559 | 0.00 | 0.00 | 0 | 0 |
| RXRG | ENSG00000143171 | 0.00 | 0.00 | 0 | 0 |
| P2RY6 | ENSG00000171631 | 0.60 | 0.00 | 1 | 0 |
| OR51E2 | ENSG00000167332 | 0.00 | 0.00 | 0 | 0 |
| TNFRSF10A | ENSG00000104689 | 0.00 | 1.15 | 0 | 7 |
| ALB | ENSG00000163631 | 0.00 | 0.00 | 0 | 0 |
| RGS4 | ENSG00000117152 | 0.00 | 0.00 | 0 | 0 |
| ATP6V1H | ENSG00000047249 | 1.45 | 0.00 | 4 | 0 |
| KCNJ10 | ENSG00000177807 | 0.00 | 0.00 | 0 | 0 |
| CEACAM6 | ENSG00000086548 | 0.00 | 0.00 | 0 | 0 |
| ITGB6 | ENSG00000115221 | 0.00 | 0.00 | 0 | 0 |
| POSTN | ENSG00000133110 | 0.00 | 0.00 | 0 | 0 |
| GLRX3 | ENSG00000108010 | 0.00 | 0.50 | 0 | 4 |
| JAK3 | ENSG00000105639 | 0.00 | 0.00 | 0 | 0 |
| DUSP10 | ENSG00000143507 | 0.00 | 0.00 | 0 | 0 |
| PDGFRB | ENSG00000113721 | 0.00 | 0.00 | 0 | 0 |
| SERPINA1 | ENSG00000197249 | 0.00 | 0.00 | 0 | 0 |
| RORC | ENSG00000143365 | 0.22 | 0.00 | 1 | 0 |
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