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 |
| CCL20 | ENSG00000115009 | 0.00 | 0.19 | 0 | 1 |
| SLC35F5 | ENSG00000115084 | 0.00 | 0.00 | 0 | 0 |
| ZAP70 | ENSG00000115085 | 0.00 | 0.00 | 0 | 0 |
| TP53I3 | ENSG00000115129 | 0.17 | 0.12 | 1 | 1 |
| POMC | ENSG00000115138 | 0.00 | 0.00 | 0 | 0 |
| SLC30A3 | ENSG00000115194 | 0.00 | 0.00 | 0 | 0 |
| PCSK4 | ENSG00000115257 | 0.00 | 0.93 | 0 | 1 |
| GCG | ENSG00000115263 | 0.00 | 0.00 | 0 | 0 |
| HTRA2 | ENSG00000115317 | 0.00 | 0.00 | 0 | 0 |
| KCNJ13 | ENSG00000115474 | 0.00 | 0.00 | 0 | 0 |
| TXNDC9 | ENSG00000115514 | 0.00 | 0.00 | 0 | 0 |
| GNLY | ENSG00000115523 | 0.00 | 0.00 | 0 | 0 |
| PRKAG3 | ENSG00000115592 | 0.00 | 0.00 | 0 | 0 |
| WNT6 | ENSG00000115596 | 0.00 | 0.00 | 0 | 0 |
| IL1RL1 | ENSG00000115602 | 0.00 | 0.00 | 0 | 0 |
| SLC9A2 | ENSG00000115616 | 0.00 | 0.00 | 0 | 0 |
| ABCB6 | ENSG00000115657 | 0.00 | 0.52 | 0 | 2 |
| STK16 | ENSG00000115661 | 0.00 | 0.83 | 0 | 4 |
| SLC5A7 | ENSG00000115665 | 0.00 | 0.00 | 0 | 0 |
| PROC | ENSG00000115718 | 0.00 | 0.00 | 0 | 0 |
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