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 |
| SULT1C2 | ENSG00000198203 | 0.00 | 0.00 | 0 | 0 |
| RPS6KL1 | ENSG00000198208 | 0.00 | 0.22 | 0 | 2 |
| TUBB3 | ENSG00000198211 | 0.00 | 0.00 | 0 | 0 |
| CSF2RA | ENSG00000198223 | 0.00 | 0.00 | 0 | 0 |
| FKBP1C | ENSG00000198225 | 0.00 | 0.00 | 0 | 0 |
| STYX | ENSG00000198252 | 0.00 | 0.00 | 0 | 0 |
| OR5B21 | ENSG00000198283 | 0.00 | 0.00 | 0 | 0 |
| PIM3 | ENSG00000198355 | 0.00 | 1.30 | 0 | 6 |
| OR14L1P | ENSG00000198452 | 0.00 | 0.00 | 0 | 0 |
| HLA-DRB5 | ENSG00000198502 | 0.00 | 0.00 | 0 | 0 |
| CNGA1 | ENSG00000198515 | 0.00 | 0.00 | 0 | 0 |
| SLC34A3 | ENSG00000198569 | 0.00 | 0.00 | 0 | 0 |
| MMP17 | ENSG00000198598 | 0.00 | 0.30 | 0 | 1 |
| OR2M2 | ENSG00000198601 | 0.00 | 0.00 | 0 | 0 |
| AKR1C4 | ENSG00000198610 | 0.00 | 0.00 | 0 | 0 |
| KLHL9 | ENSG00000198642 | 0.00 | 2.26 | 0 | 2 |
| CALM1 | ENSG00000198668 | 0.00 | 0.31 | 0 | 1 |
| LPA | ENSG00000198670 | 0.00 | 0.00 | 0 | 0 |
| OR10G6 | ENSG00000198674 | 0.00 | 0.00 | 0 | 0 |
| SLC9A6 | ENSG00000198689 | 0.13 | 0.00 | 1 | 0 |
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