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 |
| HMGCS2 | ENSG00000134240 | 0.00 | 0.00 | 0 | 0 |
| WNT2B | ENSG00000134245 | 0.00 | 0.14 | 0 | 1 |
| ADAM30 | ENSG00000134249 | 0.00 | 0.00 | 0 | 0 |
| NGF | ENSG00000134259 | 0.00 | 0.00 | 0 | 0 |
| FKBP11 | ENSG00000134285 | 0.00 | 0.00 | 0 | 0 |
| LDHA | ENSG00000134333 | 0.00 | 0.00 | 0 | 0 |
| SAA2 | ENSG00000134339 | 0.00 | 0.00 | 0 | 0 |
| FST | ENSG00000134363 | 0.00 | 0.00 | 0 | 0 |
| CFHR4 | ENSG00000134365 | 0.00 | 0.00 | 0 | 0 |
| CFHR5 | ENSG00000134389 | 0.00 | 0.00 | 0 | 0 |
| ERN2 | ENSG00000134398 | 0.00 | 0.00 | 0 | 0 |
| GRP | ENSG00000134443 | 0.00 | 0.00 | 0 | 0 |
| IL15RA | ENSG00000134470 | 0.19 | 0.00 | 1 | 0 |
| CCNH | ENSG00000134480 | 0.00 | 0.29 | 0 | 2 |
| KLRD1 | ENSG00000134539 | 0.00 | 0.00 | 0 | 0 |
| KLRC1 | ENSG00000134545 | 0.00 | 0.00 | 0 | 0 |
| SPX | ENSG00000134548 | 0.00 | 0.00 | 0 | 0 |
| ACP2 | ENSG00000134575 | 0.00 | 0.15 | 0 | 1 |
| STK26 | ENSG00000134602 | 0.00 | 0.00 | 0 | 0 |
| FOLH1B | ENSG00000134612 | 0.00 | 0.00 | 0 | 0 |
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