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 |
| VCAM1 | ENSG00000162692 | 0.00 | 0.11 | 0 | 1 |
| EXTL2 | ENSG00000162694 | 0.00 | 0.23 | 0 | 2 |
| SLC30A7 | ENSG00000162695 | 0.00 | 0.61 | 0 | 3 |
| OR2M5 | ENSG00000162727 | 0.00 | 0.00 | 0 | 0 |
| KCNJ9 | ENSG00000162728 | 0.00 | 0.00 | 0 | 0 |
| SLAMF6 | ENSG00000162739 | 0.00 | 0.00 | 0 | 0 |
| OLFML2B | ENSG00000162745 | 0.00 | 0.00 | 0 | 0 |
| FCGR3B | ENSG00000162747 | 0.00 | 0.00 | 0 | 0 |
| FLVCR1 | ENSG00000162769 | 0.00 | 0.38 | 0 | 2 |
| OXER1 | ENSG00000162881 | 0.17 | 0.00 | 1 | 0 |
| IL20 | ENSG00000162891 | 0.00 | 0.00 | 0 | 0 |
| IL24 | ENSG00000162892 | 0.00 | 0.00 | 0 | 0 |
| PIGR | ENSG00000162896 | 0.00 | 0.00 | 0 | 0 |
| KCNF1 | ENSG00000162975 | 0.16 | 0.00 | 1 | 0 |
| FRZB | ENSG00000162998 | 0.00 | 0.00 | 0 | 0 |
| DUSP19 | ENSG00000162999 | 0.12 | 0.00 | 1 | 0 |
| H3F3A | ENSG00000163041 | 0.00 | 0.24 | 0 | 1 |
| INHBB | ENSG00000163083 | 0.00 | 0.00 | 0 | 0 |
| BIRC8 | ENSG00000163098 | 0.00 | 0.00 | 0 | 0 |
| HPGDS | ENSG00000163106 | 0.00 | 0.00 | 0 | 0 |
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