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 |
| MAP3K15 | ENSG00000180815 | 0.00 | 0.00 | 0 | 0 |
| CXCR2 | ENSG00000180871 | 0.00 | 0.19 | 0 | 1 |
| DEFB112 | ENSG00000180872 | 0.00 | 0.00 | 0 | 0 |
| GREM2 | ENSG00000180875 | 0.00 | 0.23 | 0 | 1 |
| OXTR | ENSG00000180914 | 0.00 | 0.18 | 0 | 1 |
| OR56B4 | ENSG00000180919 | 0.00 | 0.00 | 0 | 0 |
| GPR62 | ENSG00000180929 | 0.00 | 0.00 | 0 | 0 |
| OR56A1 | ENSG00000180934 | 0.00 | 0.00 | 0 | 0 |
| OR52E4 | ENSG00000180974 | 0.00 | 0.00 | 0 | 0 |
| OR52N2 | ENSG00000180988 | 0.00 | 0.00 | 0 | 0 |
| OR52N1 | ENSG00000181001 | 0.00 | 0.00 | 0 | 0 |
| OR52N5 | ENSG00000181009 | 0.00 | 0.00 | 0 | 0 |
| NQO1 | ENSG00000181019 | 0.27 | 0.00 | 2 | 0 |
| OR56B1 | ENSG00000181023 | 0.00 | 0.00 | 0 | 0 |
| FKRP | ENSG00000181027 | 0.00 | 0.51 | 0 | 2 |
| FCRL6 | ENSG00000181036 | 0.00 | 0.00 | 0 | 0 |
| OR52N4 | ENSG00000181074 | 0.00 | 0.00 | 0 | 0 |
| ADIPOQ | ENSG00000181092 | 0.00 | 0.00 | 0 | 0 |
| MUC16 | ENSG00000181143 | 0.00 | 0.00 | 0 | 0 |
| OR8G2P | ENSG00000181214 | 0.00 | 0.00 | 0 | 0 |
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