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 |
| OR52E8 | ENSG00000183269 | 0.00 | 0.00 | 0 | 0 |
| OR5P2 | ENSG00000183303 | 0.00 | 0.00 | 0 | 0 |
| OR2T34 | ENSG00000183310 | 0.00 | 0.00 | 0 | 0 |
| OR52L1 | ENSG00000183313 | 0.00 | 0.00 | 0 | 0 |
| KIAA2026 | ENSG00000183354 | 0.42 | 0.32 | 2 | 2 |
| OVCH2 | ENSG00000183378 | 0.00 | 0.00 | 0 | 0 |
| OR56A4 | ENSG00000183389 | 0.00 | 0.00 | 0 | 0 |
| PMCH | ENSG00000183395 | 0.00 | 0.00 | 0 | 0 |
| RIPK4 | ENSG00000183421 | 0.00 | 0.17 | 0 | 1 |
| GPR132 | ENSG00000183484 | 0.37 | 0.00 | 1 | 0 |
| SETD3 | ENSG00000183576 | 0.19 | 0.31 | 1 | 1 |
| GKN2 | ENSG00000183607 | 0.00 | 0.00 | 0 | 0 |
| CCR3 | ENSG00000183625 | 0.00 | 0.00 | 0 | 0 |
| DGCR6 | ENSG00000183628 | 0.17 | 0.00 | 1 | 0 |
| KLHL25 | ENSG00000183655 | 0.33 | 0.00 | 2 | 0 |
| FAM19A1 | ENSG00000183662 | 0.00 | 0.00 | 0 | 0 |
| GPR1 | ENSG00000183671 | 0.00 | 0.00 | 0 | 0 |
| BMP8A | ENSG00000183682 | 0.76 | 0.00 | 1 | 0 |
| NOG | ENSG00000183691 | 0.00 | 0.00 | 0 | 0 |
| MRGPRX2 | ENSG00000183695 | 0.00 | 0.00 | 0 | 0 |
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