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 |
| OR8A1 | ENSG00000196119 | 0.00 | 0.00 | 0 | 0 |
| HLA-DRB1 | ENSG00000196126 | 0.00 | 0.00 | 0 | 0 |
| VN1R2 | ENSG00000196131 | 0.00 | 0.00 | 0 | 0 |
| AKR1C3 | ENSG00000196139 | 0.31 | 0.00 | 2 | 0 |
| OR11H13P | ENSG00000196143 | 0.00 | 0.00 | 0 | 0 |
| FAT4 | ENSG00000196159 | 0.00 | 0.00 | 0 | 0 |
| OR6K2 | ENSG00000196171 | 0.00 | 0.00 | 0 | 0 |
| OR10J1 | ENSG00000196184 | 0.00 | 0.00 | 0 | 0 |
| CTSE | ENSG00000196188 | 0.00 | 0.00 | 0 | 0 |
| TUBB | ENSG00000196230 | 0.00 | 0.00 | 0 | 0 |
| OR2T2 | ENSG00000196240 | 0.00 | 0.00 | 0 | 0 |
| OR2C3 | ENSG00000196242 | 0.00 | 0.00 | 0 | 0 |
| OR10S1 | ENSG00000196248 | 0.00 | 0.00 | 0 | 0 |
| SFTA2 | ENSG00000196260 | 0.00 | 0.00 | 0 | 0 |
| PPIA | ENSG00000196262 | 0.00 | 0.00 | 0 | 0 |
| OR10J3 | ENSG00000196266 | 0.00 | 0.00 | 0 | 0 |
| ATP2A1 | ENSG00000196296 | 0.19 | 0.00 | 1 | 0 |
| IARS | ENSG00000196305 | 0.00 | 0.16 | 0 | 1 |
| CGB7 | ENSG00000196337 | 0.00 | 0.00 | 0 | 0 |
| NLGN3 | ENSG00000196338 | 0.00 | 0.00 | 0 | 0 |
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