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 |
| AMH | ENSG00000104899 | 0.00 | 0.00 | 0 | 0 |
| DKKL1 | ENSG00000104901 | 0.00 | 0.00 | 0 | 0 |
| RETN | ENSG00000104918 | 0.00 | 0.00 | 0 | 0 |
| FCER2 | ENSG00000104921 | 0.00 | 0.00 | 0 | 0 |
| LILRB1 | ENSG00000104972 | 0.00 | 0.17 | 0 | 1 |
| LILRA1 | ENSG00000104974 | 0.00 | 0.17 | 0 | 1 |
| CCNE1 | ENSG00000105173 | 5.85 | 0.00 | 11 | 0 |
| EBI3 | ENSG00000105246 | 0.00 | 0.00 | 0 | 0 |
| APLP1 | ENSG00000105290 | 0.00 | 0.00 | 0 | 0 |
| SIGLEC8 | ENSG00000105366 | 0.00 | 0.00 | 0 | 0 |
| CD79A | ENSG00000105369 | 0.00 | 0.00 | 0 | 0 |
| ICAM4 | ENSG00000105371 | 0.00 | 0.00 | 0 | 0 |
| CD33 | ENSG00000105383 | 0.00 | 0.00 | 0 | 0 |
| SULT2A1 | ENSG00000105398 | 0.00 | 0.00 | 0 | 0 |
| CLEC11A | ENSG00000105472 | 0.00 | 0.00 | 0 | 0 |
| CARD8 | ENSG00000105483 | 0.00 | 0.55 | 0 | 2 |
| SIGLEC5 | ENSG00000105501 | 0.00 | 0.00 | 0 | 0 |
| FGF21 | ENSG00000105550 | 0.00 | 0.00 | 0 | 0 |
| LILRB5 | ENSG00000105609 | 0.00 | 0.00 | 0 | 0 |
| SLC5A5 | ENSG00000105641 | 0.00 | 0.00 | 0 | 0 |
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