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 |
| OR5L2 | ENSG00000205030 | 0.00 | 0.00 | 0 | 0 |
| SLC35B4 | ENSG00000205060 | 0.11 | 0.16 | 1 | 1 |
| PSENEN | ENSG00000205155 | 0.00 | 0.00 | 0 | 0 |
| FABP9 | ENSG00000205186 | 0.00 | 0.00 | 0 | 0 |
| PSMB10 | ENSG00000205220 | 0.17 | 0.33 | 1 | 1 |
| VIT | ENSG00000205221 | 0.00 | 0.00 | 0 | 0 |
| OR6C68 | ENSG00000205327 | 0.00 | 0.00 | 0 | 0 |
| OR6C65 | ENSG00000205328 | 0.00 | 0.00 | 0 | 0 |
| OR6C3 | ENSG00000205329 | 0.00 | 0.00 | 0 | 0 |
| OR6C1 | ENSG00000205330 | 0.00 | 0.00 | 0 | 0 |
| SLCO6A1 | ENSG00000205359 | 0.00 | 0.00 | 0 | 0 |
| CFI | ENSG00000205403 | 0.00 | 0.00 | 0 | 0 |
| OR52E6 | ENSG00000205409 | 0.00 | 0.00 | 0 | 0 |
| OR52J3 | ENSG00000205495 | 0.00 | 0.00 | 0 | 0 |
| OR51A2 | ENSG00000205496 | 0.00 | 0.00 | 0 | 0 |
| OR51A4 | ENSG00000205497 | 0.00 | 0.00 | 0 | 0 |
| TMSB4X | ENSG00000205542 | 0.00 | 0.00 | 0 | 0 |
| SMN2 | ENSG00000205571 | 0.00 | 0.74 | 0 | 1 |
| HTN3 | ENSG00000205649 | 0.00 | 0.00 | 0 | 0 |
| ARSH | ENSG00000205667 | 0.00 | 0.00 | 0 | 0 |
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