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 |
| TPSB2 | ENSG00000197253 | 0.00 | 0.00 | 0 | 0 |
| IL27 | ENSG00000197272 | 0.00 | 0.00 | 0 | 0 |
| GUCA2A | ENSG00000197273 | 0.00 | 0.00 | 0 | 0 |
| OR10D3 | ENSG00000197309 | 0.00 | 0.00 | 0 | 0 |
| SLC22A5 | ENSG00000197375 | 0.28 | 0.10 | 1 | 1 |
| OR8S1 | ENSG00000197376 | 0.00 | 0.00 | 0 | 0 |
| OR6N1 | ENSG00000197403 | 0.00 | 0.00 | 0 | 0 |
| C5AR1 | ENSG00000197405 | 0.00 | 0.00 | 0 | 0 |
| DIO3 | ENSG00000197406 | 0.00 | 0.00 | 0 | 0 |
| CYP2B6 | ENSG00000197408 | 0.00 | 0.00 | 0 | 0 |
| HIST1H3D | ENSG00000197409 | 0.00 | 0.00 | 0 | 0 |
| OR51D1 | ENSG00000197428 | 0.00 | 0.00 | 0 | 0 |
| OR13G1 | ENSG00000197437 | 0.00 | 0.00 | 0 | 0 |
| CYP2F1 | ENSG00000197446 | 0.00 | 0.00 | 0 | 0 |
| GSTK1 | ENSG00000197448 | 0.32 | 0.14 | 2 | 1 |
| OR2L5 | ENSG00000197454 | 0.00 | 0.00 | 0 | 0 |
| GYPE | ENSG00000197465 | 0.00 | 0.00 | 0 | 0 |
| COL13A1 | ENSG00000197467 | 0.00 | 0.00 | 0 | 0 |
| ADAM3A | ENSG00000197475 | 0.00 | 0.00 | 0 | 0 |
| GALP | ENSG00000197487 | 0.00 | 0.00 | 0 | 0 |
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