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 |
| IGFBP7 | ENSG00000163453 | 0.00 | 0.00 | 0 | 0 |
| CXCR1 | ENSG00000163464 | 0.00 | 0.00 | 0 | 0 |
| ADORA1 | ENSG00000163485 | 0.00 | 0.00 | 0 | 0 |
| NEK10 | ENSG00000163491 | 0.00 | 0.00 | 0 | 0 |
| IHH | ENSG00000163501 | 0.00 | 0.13 | 0 | 1 |
| RETNLB | ENSG00000163515 | 0.00 | 0.00 | 0 | 0 |
| FCRL4 | ENSG00000163518 | 0.00 | 0.00 | 0 | 0 |
| FCRL1 | ENSG00000163534 | 0.00 | 0.00 | 0 | 0 |
| SLC2A2 | ENSG00000163581 | 0.00 | 0.00 | 0 | 0 |
| FABP1 | ENSG00000163586 | 0.00 | 0.00 | 0 | 0 |
| ICOS | ENSG00000163600 | 0.00 | 0.00 | 0 | 0 |
| RYBP | ENSG00000163602 | 0.00 | 0.42 | 0 | 2 |
| PTX3 | ENSG00000163661 | 0.00 | 0.00 | 0 | 0 |
| DCLK3 | ENSG00000163673 | 0.00 | 0.00 | 0 | 0 |
| DNASE1L3 | ENSG00000163687 | 0.00 | 0.00 | 0 | 0 |
| PCOLCE2 | ENSG00000163710 | 0.00 | 0.00 | 0 | 0 |
| CXCL3 | ENSG00000163734 | 0.00 | 0.00 | 0 | 0 |
| CXCL5 | ENSG00000163735 | 0.00 | 0.00 | 0 | 0 |
| PPBP | ENSG00000163736 | 0.00 | 0.00 | 0 | 0 |
| PF4 | ENSG00000163737 | 0.00 | 0.00 | 0 | 0 |
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