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 |
| SLC13A3 | ENSG00000158296 | 0.15 | 0.00 | 1 | 0 |
| RHBDL2 | ENSG00000158315 | 0.11 | 0.00 | 1 | 0 |
| HIST1H4H | ENSG00000158406 | 0.00 | 0.00 | 0 | 0 |
| CD1D | ENSG00000158473 | 0.00 | 0.00 | 0 | 0 |
| CD1B | ENSG00000158485 | 0.00 | 0.00 | 0 | 0 |
| CD1E | ENSG00000158488 | 0.00 | 0.00 | 0 | 0 |
| CPA5 | ENSG00000158525 | 0.00 | 0.00 | 0 | 0 |
| SLAMF8 | ENSG00000158714 | 0.00 | 0.00 | 0 | 0 |
| DUSP23 | ENSG00000158716 | 0.27 | 0.00 | 1 | 0 |
| OR10J6P | ENSG00000158731 | 0.00 | 0.00 | 0 | 0 |
| NBL1 | ENSG00000158747 | 0.00 | 0.53 | 0 | 3 |
| HTR6 | ENSG00000158748 | 0.00 | 0.00 | 0 | 0 |
| ITLN2 | ENSG00000158764 | 0.00 | 0.00 | 0 | 0 |
| PLA2G2F | ENSG00000158786 | 0.00 | 0.00 | 0 | 0 |
| EDA | ENSG00000158813 | 0.00 | 0.00 | 0 | 0 |
| FGF17 | ENSG00000158815 | 0.00 | 0.00 | 0 | 0 |
| CDA | ENSG00000158825 | 0.00 | 1.31 | 0 | 2 |
| PINK1 | ENSG00000158828 | 0.00 | 2.21 | 0 | 7 |
| ADAMTS4 | ENSG00000158859 | 0.00 | 0.00 | 0 | 0 |
| APOA2 | ENSG00000158874 | 0.00 | 0.00 | 0 | 0 |
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