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 |
| GLRB | ENSG00000109738 | 0.00 | 0.00 | 0 | 0 |
| BST1 | ENSG00000109743 | 0.00 | 0.00 | 0 | 0 |
| HGFAC | ENSG00000109758 | 0.00 | 0.00 | 0 | 0 |
| CTSC | ENSG00000109861 | 0.00 | 0.19 | 0 | 1 |
| CRTAM | ENSG00000109943 | 0.00 | 0.00 | 0 | 0 |
| DCPS | ENSG00000110063 | 0.13 | 1.03 | 1 | 5 |
| CCKBR | ENSG00000110148 | 0.00 | 0.00 | 0 | 0 |
| HPX | ENSG00000110169 | 0.00 | 0.00 | 0 | 0 |
| FOLR1 | ENSG00000110195 | 0.00 | 0.00 | 0 | 0 |
| FOLR3 | ENSG00000110203 | 0.00 | 0.00 | 0 | 0 |
| APOA4 | ENSG00000110244 | 0.00 | 0.00 | 0 | 0 |
| APOC3 | ENSG00000110245 | 0.00 | 0.00 | 0 | 0 |
| SLC15A3 | ENSG00000110446 | 0.00 | 0.00 | 0 | 0 |
| SLC22A18 | ENSG00000110628 | 0.00 | 0.16 | 0 | 1 |
| CD81 | ENSG00000110651 | 0.00 | 0.31 | 0 | 2 |
| CALCA | ENSG00000110680 | 0.00 | 0.00 | 0 | 0 |
| AIP | ENSG00000110711 | 0.57 | 0.00 | 2 | 0 |
| PTPN5 | ENSG00000110786 | 0.00 | 0.00 | 0 | 0 |
| P3H3 | ENSG00000110811 | 0.60 | 0.00 | 1 | 0 |
| SELPLG | ENSG00000110876 | 0.00 | 0.00 | 0 | 0 |
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