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 |
| PTGS2 | ENSG00000073756 | 0.00 | 0.00 | 0 | 0 |
| TSG101 | ENSG00000074319 | 0.00 | 0.00 | 0 | 0 |
| CA12 | ENSG00000074410 | 0.00 | 0.00 | 0 | 0 |
| MGLL | ENSG00000074416 | 0.00 | 0.00 | 0 | 0 |
| MYDGF | ENSG00000074842 | 0.00 | 0.71 | 0 | 1 |
| TUBE1 | ENSG00000074935 | 0.00 | 0.52 | 0 | 4 |
| TXK | ENSG00000074966 | 0.00 | 0.00 | 0 | 0 |
| TACR2 | ENSG00000075073 | 0.00 | 0.00 | 0 | 0 |
| WNT8B | ENSG00000075290 | 0.00 | 0.00 | 0 | 0 |
| SLC25A40 | ENSG00000075303 | 0.13 | 0.00 | 1 | 0 |
| FGF4 | ENSG00000075388 | 0.00 | 0.00 | 0 | 0 |
| CACNG5 | ENSG00000075429 | 0.00 | 0.00 | 0 | 0 |
| ATP12A | ENSG00000075673 | 0.00 | 0.00 | 0 | 0 |
| TUBA3D | ENSG00000075886 | 0.00 | 0.00 | 0 | 0 |
| SLC46A1 | ENSG00000076351 | 0.00 | 0.00 | 0 | 0 |
| MCAM | ENSG00000076706 | 0.00 | 0.12 | 0 | 1 |
| DNAJC10 | ENSG00000077232 | 0.12 | 0.00 | 1 | 0 |
| JADE1 | ENSG00000077684 | 0.00 | 0.00 | 0 | 0 |
| FKBP6 | ENSG00000077800 | 0.00 | 0.00 | 0 | 0 |
| CST7 | ENSG00000077984 | 0.00 | 0.00 | 0 | 0 |
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