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 |
| SLC25A44 | ENSG00000160785 | 0.98 | 0.00 | 4 | 0 |
| CCR5 | ENSG00000160791 | 0.00 | 0.00 | 0 | 0 |
| PTH1R | ENSG00000160801 | 0.00 | 0.00 | 0 | 0 |
| FCRL3 | ENSG00000160856 | 0.00 | 0.00 | 0 | 0 |
| CYP3A7 | ENSG00000160870 | 0.00 | 0.00 | 0 | 0 |
| CYP11B1 | ENSG00000160882 | 0.00 | 0.00 | 0 | 0 |
| LY6K | ENSG00000160886 | 0.00 | 0.00 | 0 | 0 |
| MUM1 | ENSG00000160953 | 0.00 | 1.49 | 0 | 4 |
| COL26A1 | ENSG00000160963 | 0.00 | 0.00 | 0 | 0 |
| PGLYRP2 | ENSG00000161031 | 0.00 | 0.00 | 0 | 0 |
| SCGB3A1 | ENSG00000161055 | 0.00 | 0.00 | 0 | 0 |
| DMKN | ENSG00000161249 | 0.00 | 0.00 | 0 | 0 |
| GRIN2C | ENSG00000161509 | 0.00 | 0.00 | 0 | 0 |
| KLHL10 | ENSG00000161594 | 0.00 | 0.00 | 0 | 0 |
| HCRT | ENSG00000161610 | 0.00 | 0.00 | 0 | 0 |
| DCD | ENSG00000161634 | 0.00 | 0.00 | 0 | 0 |
| SIGLEC11 | ENSG00000161640 | 0.00 | 0.00 | 0 | 0 |
| CD300LG | ENSG00000161649 | 0.00 | 0.00 | 0 | 0 |
| PLCD3 | ENSG00000161714 | 0.00 | 0.18 | 0 | 1 |
| AQP5 | ENSG00000161798 | 0.00 | 0.00 | 0 | 0 |
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