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 |
| PARP9 | ENSG00000138496 | 0.00 | 0.00 | 0 | 0 |
| SPPL2A | ENSG00000138600 | 0.00 | 0.00 | 0 | 0 |
| APH1B | ENSG00000138613 | 0.00 | 0.00 | 0 | 0 |
| HCN4 | ENSG00000138622 | 0.00 | 0.00 | 0 | 0 |
| FGF5 | ENSG00000138675 | 0.00 | 0.00 | 0 | 0 |
| IL21 | ENSG00000138684 | 0.00 | 0.00 | 0 | 0 |
| TRPC3 | ENSG00000138741 | 0.00 | 0.00 | 0 | 0 |
| NAAA | ENSG00000138744 | 0.00 | 0.00 | 0 | 0 |
| CXCL9 | ENSG00000138755 | 0.00 | 0.00 | 0 | 0 |
| CNOT6L | ENSG00000138767 | 0.00 | 0.00 | 0 | 0 |
| ENPEP | ENSG00000138792 | 0.00 | 0.00 | 0 | 0 |
| CASP6 | ENSG00000138794 | 0.00 | 0.00 | 0 | 0 |
| SLC39A8 | ENSG00000138821 | 0.00 | 0.12 | 0 | 1 |
| MTTP | ENSG00000138823 | 0.00 | 0.00 | 0 | 0 |
| PDE6H | ENSG00000139053 | 0.00 | 0.00 | 0 | 0 |
| YARS2 | ENSG00000139131 | 0.00 | 0.00 | 0 | 0 |
| METTL20 | ENSG00000139160 | 0.00 | 0.00 | 0 | 0 |
| C1RL | ENSG00000139178 | 0.00 | 0.00 | 0 | 0 |
| VAMP1 | ENSG00000139190 | 0.00 | 0.00 | 0 | 0 |
| TAPBPL | ENSG00000139192 | 0.00 | 0.00 | 0 | 0 |
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