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 |
| PGA3 | ENSG00000229859 | 0.00 | 0.00 | 0 | 0 |
| PRPS1L1 | ENSG00000229937 | 0.00 | 0.00 | 0 | 0 |
| OR5H6 | ENSG00000230301 | 0.00 | 0.00 | 0 | 0 |
| OR5H1 | ENSG00000231192 | 0.00 | 0.00 | 0 | 0 |
| SBK3 | ENSG00000231274 | 0.00 | 0.00 | 0 | 0 |
| CYP21A2 | ENSG00000231852 | 0.00 | 0.00 | 0 | 0 |
| OR5K2 | ENSG00000231861 | 0.00 | 0.00 | 0 | 0 |
| PRH1 | ENSG00000231887 | 0.55 | 0.16 | 1 | 1 |
| OR2H5P | ENSG00000232173 | 0.00 | 0.00 | 0 | 0 |
| MTRNR2L4 | ENSG00000232196 | 0.00 | 0.00 | 0 | 0 |
| OR52I1 | ENSG00000232268 | 0.00 | 0.00 | 0 | 0 |
| OR5K1 | ENSG00000232382 | 0.00 | 0.00 | 0 | 0 |
| TNF | ENSG00000232810 | 0.00 | 0.00 | 0 | 0 |
| GPX1 | ENSG00000233276 | 0.00 | 0.70 | 0 | 4 |
| OR5H15 | ENSG00000233412 | 0.00 | 0.00 | 0 | 0 |
| OR10G8 | ENSG00000234560 | 0.00 | 0.00 | 0 | 0 |
| IFNA17 | ENSG00000234829 | 0.00 | 0.00 | 0 | 0 |
| APOC2 | ENSG00000234906 | 0.00 | 0.00 | 0 | 0 |
| KDM4E | ENSG00000235268 | 0.00 | 0.00 | 0 | 0 |
| OR5H14 | ENSG00000236032 | 0.00 | 0.00 | 0 | 0 |
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