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 |
| GP1BA | ENSG00000185245 | 0.00 | 0.00 | 0 | 0 |
| CDNF | ENSG00000185267 | 0.00 | 0.00 | 0 | 0 |
| IL3RA | ENSG00000185291 | 0.00 | 0.00 | 0 | 0 |
| SPPL2C | ENSG00000185294 | 0.00 | 0.00 | 0 | 0 |
| SFTPA2 | ENSG00000185303 | 0.20 | 0.00 | 1 | 0 |
| SCN10A | ENSG00000185313 | 0.00 | 0.00 | 0 | 0 |
| ATP6V0A2 | ENSG00000185344 | 0.00 | 0.21 | 0 | 1 |
| OR2V1 | ENSG00000185372 | 0.00 | 0.00 | 0 | 0 |
| OR7A17 | ENSG00000185385 | 0.00 | 0.00 | 0 | 0 |
| MAPK11 | ENSG00000185386 | 0.00 | 0.92 | 0 | 3 |
| L3MBTL1 | ENSG00000185513 | 0.00 | 0.00 | 0 | 0 |
| PDE6G | ENSG00000185527 | 0.00 | 0.00 | 0 | 0 |
| OLFML2A | ENSG00000185585 | 0.00 | 0.00 | 0 | 0 |
| PDIA2 | ENSG00000185615 | 0.00 | 0.00 | 0 | 0 |
| LMLN | ENSG00000185621 | 0.19 | 0.12 | 1 | 1 |
| PMEL | ENSG00000185664 | 0.00 | 0.00 | 0 | 0 |
| MORF4L1 | ENSG00000185787 | 0.13 | 0.00 | 1 | 0 |
| OR6C76 | ENSG00000185821 | 0.00 | 0.00 | 0 | 0 |
| EVI2B | ENSG00000185862 | 0.00 | 0.00 | 0 | 0 |
| TMPRSS11B | ENSG00000185873 | 0.00 | 0.00 | 0 | 0 |
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