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 |
| ENPP7 | ENSG00000182156 | 0.00 | 0.00 | 0 | 0 |
| P2RY8 | ENSG00000182162 | 0.00 | 0.00 | 0 | 0 |
| MRGPRG | ENSG00000182170 | 0.00 | 0.00 | 0 | 0 |
| ATP6AP2 | ENSG00000182220 | 0.13 | 0.00 | 1 | 0 |
| KCNA4 | ENSG00000182255 | 0.00 | 0.00 | 0 | 0 |
| KCNJ14 | ENSG00000182324 | 0.18 | 0.33 | 1 | 1 |
| OR5P3 | ENSG00000182334 | 0.00 | 0.00 | 0 | 0 |
| IFNL1 | ENSG00000182393 | 0.00 | 0.00 | 0 | 0 |
| CDY2A | ENSG00000182415 | 0.00 | 0.00 | 0 | 0 |
| OTOL1 | ENSG00000182447 | 0.00 | 0.00 | 0 | 0 |
| KCNK4 | ENSG00000182450 | 0.00 | 0.00 | 0 | 0 |
| FES | ENSG00000182511 | 0.18 | 0.00 | 1 | 0 |
| MFSD5 | ENSG00000182544 | 0.00 | 0.00 | 0 | 0 |
| RNASE10 | ENSG00000182545 | 0.00 | 0.00 | 0 | 0 |
| NXPH3 | ENSG00000182575 | 0.00 | 0.00 | 0 | 0 |
| CSF1R | ENSG00000182578 | 0.00 | 0.00 | 0 | 0 |
| EPGN | ENSG00000182585 | 0.00 | 0.00 | 0 | 0 |
| OR2V2 | ENSG00000182613 | 0.00 | 0.00 | 0 | 0 |
| RXFP3 | ENSG00000182631 | 0.00 | 0.00 | 0 | 0 |
| OR10G7 | ENSG00000182634 | 0.00 | 0.00 | 0 | 0 |
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