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 |
| LRRN3 | ENSG00000173114 | 0.00 | 0.00 | 0 | 0 |
| CYSLTR1 | ENSG00000173198 | 0.00 | 0.00 | 0 | 0 |
| PARP15 | ENSG00000173200 | 0.00 | 0.00 | 0 | 0 |
| ABCD2 | ENSG00000173208 | 0.00 | 0.00 | 0 | 0 |
| TUBB8P12 | ENSG00000173213 | 0.00 | 0.00 | 0 | 0 |
| KIAA1919 | ENSG00000173214 | 0.00 | 0.42 | 0 | 3 |
| LIPM | ENSG00000173239 | 0.00 | 0.12 | 0 | 1 |
| GPR151 | ENSG00000173250 | 0.00 | 0.00 | 0 | 0 |
| OR10K1 | ENSG00000173285 | 0.00 | 0.00 | 0 | 0 |
| GPR148 | ENSG00000173302 | 0.00 | 0.00 | 0 | 0 |
| MAP3K11 | ENSG00000173327 | 0.18 | 0.00 | 1 | 0 |
| CST9 | ENSG00000173335 | 0.00 | 0.00 | 0 | 0 |
| C1QB | ENSG00000173369 | 0.00 | 0.00 | 0 | 0 |
| C1QA | ENSG00000173372 | 0.00 | 0.00 | 0 | 0 |
| NDNF | ENSG00000173376 | 0.00 | 0.00 | 0 | 0 |
| OLR1 | ENSG00000173391 | 0.56 | 0.00 | 1 | 0 |
| RNASE8 | ENSG00000173431 | 0.00 | 0.00 | 0 | 0 |
| SAA1 | ENSG00000173432 | 0.00 | 0.00 | 0 | 0 |
| AGR3 | ENSG00000173467 | 0.00 | 0.00 | 0 | 0 |
| FKBP2 | ENSG00000173486 | 0.11 | 0.00 | 1 | 0 |
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