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 |
| CD4 | ENSG00000010610 | 0.00 | 0.00 | 0 | 0 |
| PXDNL | ENSG00000147485 | 0.00 | 0.00 | 0 | 0 |
| SLC39A9 | ENSG00000029364 | 0.00 | 0.94 | 0 | 5 |
| GLUD1 | ENSG00000148672 | 0.00 | 0.00 | 0 | 0 |
| MAP2K5 | ENSG00000137764 | 0.00 | 0.00 | 0 | 0 |
| C9 | ENSG00000113600 | 0.00 | 0.00 | 0 | 0 |
| PTPRJ | ENSG00000149177 | 0.00 | 0.00 | 0 | 0 |
| DHRS1 | ENSG00000157379 | 0.00 | 0.00 | 0 | 0 |
| ELAVL1 | ENSG00000066044 | 0.00 | 0.00 | 0 | 0 |
| RHCE | ENSG00000188672 | 0.00 | 0.34 | 0 | 2 |
| FUS | ENSG00000089280 | 0.10 | 0.00 | 1 | 0 |
| CYB5R1 | ENSG00000159348 | 0.11 | 0.00 | 1 | 0 |
| SIRT1 | ENSG00000096717 | 0.00 | 0.00 | 0 | 0 |
| SLC35A3 | ENSG00000117620 | 0.00 | 0.62 | 0 | 3 |
| SETD1B | ENSG00000139718 | 0.00 | 0.23 | 0 | 1 |
| NTSR1 | ENSG00000101188 | 0.00 | 0.00 | 0 | 0 |
| PCDH15 | ENSG00000150275 | 0.00 | 0.00 | 0 | 0 |
| KAT2A | ENSG00000108773 | 0.00 | 0.20 | 0 | 1 |
| ATF1 | ENSG00000123268 | 0.00 | 0.00 | 0 | 0 |
| EBPL | ENSG00000123179 | 0.00 | 0.35 | 0 | 2 |
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