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 |
| GPR65 | ENSG00000140030 | 0.00 | 0.00 | 0 | 0 |
| SLC24A4 | ENSG00000140090 | 0.00 | 0.00 | 0 | 0 |
| SERPINA10 | ENSG00000140093 | 0.00 | 0.00 | 0 | 0 |
| WARS | ENSG00000140105 | 0.17 | 0.31 | 1 | 1 |
| SLC25A47 | ENSG00000140107 | 0.00 | 0.00 | 0 | 0 |
| SLC12A6 | ENSG00000140199 | 0.00 | 0.37 | 0 | 1 |
| MFAP1 | ENSG00000140259 | 0.00 | 0.61 | 0 | 3 |
| DUOX2 | ENSG00000140279 | 0.00 | 0.00 | 0 | 0 |
| FGF7 | ENSG00000140285 | 0.00 | 0.00 | 0 | 0 |
| HDC | ENSG00000140287 | 0.00 | 0.00 | 0 | 0 |
| BCL2A1 | ENSG00000140379 | 0.00 | 0.00 | 0 | 0 |
| MAN2C1 | ENSG00000140400 | 0.12 | 0.00 | 1 | 0 |
| CYP1A1 | ENSG00000140465 | 0.00 | 0.00 | 0 | 0 |
| ULK3 | ENSG00000140474 | 0.12 | 0.00 | 1 | 0 |
| PCSK6 | ENSG00000140479 | 1.38 | 0.00 | 6 | 0 |
| CYP1A2 | ENSG00000140505 | 0.00 | 0.00 | 0 | 0 |
| HAPLN3 | ENSG00000140511 | 0.18 | 0.00 | 1 | 0 |
| RLBP1 | ENSG00000140522 | 0.20 | 0.00 | 1 | 0 |
| MFGE8 | ENSG00000140545 | 0.19 | 0.00 | 1 | 0 |
| FURIN | ENSG00000140564 | 0.70 | 0.00 | 4 | 0 |
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