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 |
| TUB | ENSG00000166402 | 0.00 | 0.00 | 0 | 0 |
| TRIM66 | ENSG00000166436 | 0.00 | 0.00 | 0 | 0 |
| MFAP4 | ENSG00000166482 | 0.71 | 0.00 | 1 | 0 |
| WEE1 | ENSG00000166483 | 0.00 | 0.00 | 0 | 0 |
| MAPK7 | ENSG00000166484 | 0.81 | 0.23 | 2 | 1 |
| HDGFRP3 | ENSG00000166503 | 0.16 | 0.00 | 1 | 0 |
| CLEC3A | ENSG00000166509 | 0.00 | 0.00 | 0 | 0 |
| SLC38A8 | ENSG00000166558 | 0.00 | 0.00 | 0 | 0 |
| SEC11C | ENSG00000166562 | 0.00 | 0.42 | 0 | 4 |
| GALR1 | ENSG00000166573 | 0.00 | 0.00 | 0 | 0 |
| MC4R | ENSG00000166603 | 0.00 | 0.00 | 0 | 0 |
| SERPINB12 | ENSG00000166634 | 0.00 | 0.00 | 0 | 0 |
| CHRFAM7A | ENSG00000166664 | 0.00 | 0.00 | 0 | 0 |
| TMPRSS5 | ENSG00000166682 | 0.00 | 0.00 | 0 | 0 |
| HTR3A | ENSG00000166736 | 0.00 | 0.00 | 0 | 0 |
| NNMT | ENSG00000166741 | 0.00 | 0.57 | 0 | 3 |
| AGBL1 | ENSG00000166748 | 0.00 | 0.00 | 0 | 0 |
| CATSPER2 | ENSG00000166762 | 0.00 | 0.50 | 0 | 2 |
| PPIB | ENSG00000166794 | 0.14 | 0.00 | 1 | 0 |
| GPR182 | ENSG00000166856 | 0.00 | 0.00 | 0 | 0 |
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