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 |
| BTNL9 | ENSG00000165810 | 0.00 | 0.00 | 0 | 0 |
| PRAP1 | ENSG00000165828 | 0.00 | 0.00 | 0 | 0 |
| SLC39A13 | ENSG00000165915 | 0.00 | 0.15 | 0 | 1 |
| AGBL2 | ENSG00000165923 | 0.00 | 0.00 | 0 | 0 |
| SLC6A5 | ENSG00000165970 | 0.00 | 0.00 | 0 | 0 |
| LIPC | ENSG00000166035 | 0.00 | 0.00 | 0 | 0 |
| JAM3 | ENSG00000166086 | 0.00 | 0.65 | 0 | 3 |
| IL25 | ENSG00000166090 | 0.00 | 0.00 | 0 | 0 |
| ADAMTS15 | ENSG00000166106 | 0.00 | 0.37 | 0 | 2 |
| SVOP | ENSG00000166111 | 0.00 | 0.00 | 0 | 0 |
| AVPR1A | ENSG00000166148 | 0.00 | 0.00 | 0 | 0 |
| OPN1MW2 | ENSG00000166160 | 0.00 | 0.00 | 0 | 0 |
| SENP8 | ENSG00000166192 | 0.00 | 0.00 | 0 | 0 |
| SCN3B | ENSG00000166257 | 0.00 | 0.17 | 0 | 1 |
| C2 | ENSG00000166278 | 0.00 | 0.00 | 0 | 0 |
| ILK | ENSG00000166333 | 0.00 | 0.00 | 0 | 0 |
| TPP1 | ENSG00000166340 | 0.00 | 0.00 | 0 | 0 |
| OR10A5 | ENSG00000166363 | 0.00 | 0.00 | 0 | 0 |
| OR2D2 | ENSG00000166368 | 0.00 | 0.00 | 0 | 0 |
| SERPINB8 | ENSG00000166401 | 0.00 | 0.43 | 0 | 3 |
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