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 |
| ATP8B1 | ENSG00000081923 | 0.00 | 0.21 | 0 | 2 |
| IL12RB2 | ENSG00000081985 | 0.00 | 0.00 | 0 | 0 |
| STRADB | ENSG00000082146 | 0.00 | 0.00 | 0 | 0 |
| COL19A1 | ENSG00000082293 | 0.00 | 0.00 | 0 | 0 |
| OPRK1 | ENSG00000082556 | 0.00 | 0.00 | 0 | 0 |
| TRPM3 | ENSG00000083067 | 0.00 | 0.00 | 0 | 0 |
| P2RX5 | ENSG00000083454 | 0.00 | 0.12 | 0 | 1 |
| ITGAE | ENSG00000083457 | 0.00 | 0.12 | 0 | 1 |
| PPIE | ENSG00000084072 | 0.62 | 0.00 | 3 | 0 |
| SSH1 | ENSG00000084112 | 0.00 | 0.00 | 0 | 0 |
| GSTP1 | ENSG00000084207 | 0.50 | 0.00 | 1 | 0 |
| CAD | ENSG00000084774 | 0.00 | 0.00 | 0 | 0 |
| CD59 | ENSG00000085063 | 0.42 | 0.00 | 2 | 0 |
| FCN1 | ENSG00000085265 | 0.00 | 0.00 | 0 | 0 |
| OVGP1 | ENSG00000085465 | 0.00 | 0.10 | 0 | 1 |
| AKR1B1 | ENSG00000085662 | 0.11 | 0.00 | 1 | 0 |
| ORC1 | ENSG00000085840 | 0.00 | 0.00 | 0 | 0 |
| MGST2 | ENSG00000085871 | 0.00 | 0.00 | 0 | 0 |
| AQP6 | ENSG00000086159 | 0.00 | 0.00 | 0 | 0 |
| FOLH1 | ENSG00000086205 | 0.00 | 0.00 | 0 | 0 |
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