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 |
| INSL6 | ENSG00000120210 | 0.00 | 0.00 | 0 | 0 |
| INSL4 | ENSG00000120211 | 0.00 | 0.00 | 0 | 0 |
| CD274 | ENSG00000120217 | 0.91 | 0.19 | 4 | 1 |
| IFNA6 | ENSG00000120235 | 0.00 | 0.00 | 0 | 0 |
| IFNA8 | ENSG00000120242 | 0.00 | 0.00 | 0 | 0 |
| GRIA2 | ENSG00000120251 | 0.00 | 0.00 | 0 | 0 |
| PCMT1 | ENSG00000120265 | 0.00 | 0.47 | 0 | 3 |
| PCDHB10 | ENSG00000120324 | 0.30 | 0.14 | 1 | 1 |
| SLC25A2 | ENSG00000120329 | 0.00 | 0.00 | 0 | 0 |
| TNN | ENSG00000120332 | 0.00 | 0.00 | 0 | 0 |
| GPR31 | ENSG00000120436 | 0.00 | 0.00 | 0 | 0 |
| MASTL | ENSG00000120539 | 0.00 | 0.00 | 0 | 0 |
| TNFSF11 | ENSG00000120659 | 0.00 | 0.22 | 0 | 1 |
| KBTBD7 | ENSG00000120696 | 0.00 | 0.40 | 0 | 2 |
| DUSP4 | ENSG00000120875 | 0.00 | 0.00 | 0 | 0 |
| CHRNA2 | ENSG00000120903 | 0.00 | 0.00 | 0 | 0 |
| ADRA1A | ENSG00000120907 | 0.00 | 0.11 | 0 | 1 |
| NPPB | ENSG00000120937 | 0.00 | 0.00 | 0 | 0 |
| COPS5 | ENSG00000121022 | 0.62 | 0.00 | 3 | 0 |
| RDH10 | ENSG00000121039 | 0.39 | 0.00 | 2 | 0 |
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