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 |
| GP1BB | ENSG00000203618 | 0.00 | 0.00 | 0 | 0 |
| OR2T5 | ENSG00000203661 | 0.00 | 0.00 | 0 | 0 |
| OR2L2 | ENSG00000203663 | 0.00 | 0.00 | 0 | 0 |
| CAPN8 | ENSG00000203697 | 0.00 | 0.00 | 0 | 0 |
| CR1 | ENSG00000203710 | 0.00 | 0.00 | 0 | 0 |
| RAET1G | ENSG00000203722 | 0.00 | 0.00 | 0 | 0 |
| GPR52 | ENSG00000203737 | 0.00 | 0.00 | 0 | 0 |
| FCGR3A | ENSG00000203747 | 0.00 | 0.00 | 0 | 0 |
| OR6K3 | ENSG00000203757 | 0.00 | 0.00 | 0 | 0 |
| DDO | ENSG00000203797 | 0.00 | 0.24 | 0 | 2 |
| PNLIPRP3 | ENSG00000203837 | 0.00 | 0.00 | 0 | 0 |
| HIST2H3A | ENSG00000203852 | 0.28 | 0.00 | 1 | 0 |
| HSD3B1 | ENSG00000203857 | 0.00 | 0.00 | 0 | 0 |
| DEFB110 | ENSG00000203970 | 0.00 | 0.00 | 0 | 0 |
| LCN8 | ENSG00000204001 | 0.00 | 0.00 | 0 | 0 |
| LIPN | ENSG00000204020 | 0.00 | 0.00 | 0 | 0 |
| LIPK | ENSG00000204021 | 0.00 | 0.00 | 0 | 0 |
| LRIT2 | ENSG00000204033 | 0.00 | 0.00 | 0 | 0 |
| NPY4R | ENSG00000204174 | 0.00 | 0.00 | 0 | 0 |
| SYT15 | ENSG00000204176 | 0.00 | 0.00 | 0 | 0 |
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