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 |
| CFH | ENSG00000000971 | 0.00 | 0.00 | 0 | 0 |
| FUCA2 | ENSG00000001036 | 0.00 | 0.39 | 0 | 3 |
| GCLC | ENSG00000001084 | 0.00 | 0.00 | 0 | 0 |
| CD99 | ENSG00000002586 | 0.00 | 0.00 | 0 | 0 |
| WNT16 | ENSG00000002745 | 0.00 | 0.00 | 0 | 0 |
| M6PR | ENSG00000003056 | 0.57 | 0.00 | 1 | 0 |
| KLHL13 | ENSG00000003096 | 0.00 | 0.00 | 0 | 0 |
| RBM5 | ENSG00000003756 | 0.00 | 0.94 | 0 | 5 |
| MTMR7 | ENSG00000003987 | 0.00 | 0.30 | 0 | 2 |
| CD38 | ENSG00000004468 | 0.00 | 0.00 | 0 | 0 |
| FKBP4 | ENSG00000004478 | 1.51 | 0.00 | 5 | 0 |
| PDK4 | ENSG00000004799 | 0.00 | 0.00 | 0 | 0 |
| SLC4A1 | ENSG00000004939 | 0.00 | 0.00 | 0 | 0 |
| CALCR | ENSG00000004948 | 0.00 | 0.00 | 0 | 0 |
| PRSS22 | ENSG00000005001 | 0.00 | 0.00 | 0 | 0 |
| SLC25A5 | ENSG00000005022 | 0.00 | 0.00 | 0 | 0 |
| SPPL2B | ENSG00000005206 | 0.00 | 0.75 | 0 | 1 |
| MSL3 | ENSG00000005302 | 0.12 | 0.00 | 1 | 0 |
| PON1 | ENSG00000005421 | 0.00 | 0.00 | 0 | 0 |
| ITGAL | ENSG00000005844 | 0.00 | 0.00 | 0 | 0 |
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