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 |
| BMPR2 | ENSG00000204217 | 0.00 | 0.00 | 0 | 0 |
| INPP5E | ENSG00000148384 | 0.00 | 0.36 | 0 | 2 |
| NR1D1 | ENSG00000126368 | 0.00 | 0.00 | 0 | 0 |
| TCF20 | ENSG00000100207 | 0.00 | 0.23 | 0 | 1 |
| INSRR | ENSG00000027644 | 0.00 | 0.00 | 0 | 0 |
| PLAA | ENSG00000137055 | 0.00 | 0.25 | 0 | 2 |
| ADK | ENSG00000156110 | 0.00 | 0.00 | 0 | 0 |
| BAZ2A | ENSG00000076108 | 0.00 | 0.00 | 0 | 0 |
| ADAM9 | ENSG00000168615 | 0.00 | 0.00 | 0 | 0 |
| BPNT1 | ENSG00000162813 | 0.00 | 0.33 | 0 | 2 |
| CAPN15 | ENSG00000103326 | 0.00 | 0.33 | 0 | 2 |
| MAST3 | ENSG00000099308 | 0.00 | 0.00 | 0 | 0 |
| NEK1 | ENSG00000137601 | 0.00 | 0.00 | 0 | 0 |
| SLC41A1 | ENSG00000133065 | 0.12 | 0.00 | 1 | 0 |
| CORIN | ENSG00000145244 | 0.00 | 0.00 | 0 | 0 |
| GNPTG | ENSG00000090581 | 0.00 | 0.31 | 0 | 2 |
| CALR | ENSG00000179218 | 0.14 | 0.00 | 1 | 0 |
| BOK | ENSG00000176720 | 0.00 | 1.90 | 0 | 7 |
| MAN2A2 | ENSG00000196547 | 0.59 | 0.00 | 3 | 0 |
| PRKX | ENSG00000183943 | 0.00 | 0.00 | 0 | 0 |
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