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 |
| PPM1B | ENSG00000138032 | 0.00 | 0.00 | 0 | 0 |
| IDE | ENSG00000119912 | 0.00 | 0.46 | 0 | 2 |
| GUCY2F | ENSG00000101890 | 0.00 | 0.00 | 0 | 0 |
| UMPS | ENSG00000114491 | 0.00 | 0.00 | 0 | 0 |
| PI4K2A | ENSG00000155252 | 0.00 | 0.49 | 0 | 2 |
| APP | ENSG00000142192 | 0.00 | 0.15 | 0 | 1 |
| DHRS4 | ENSG00000157326 | 0.00 | 0.00 | 0 | 0 |
| CLEC4M | ENSG00000104938 | 0.00 | 0.00 | 0 | 0 |
| SCYL2 | ENSG00000136021 | 0.00 | 0.00 | 0 | 0 |
| PRMT3 | ENSG00000185238 | 0.00 | 0.00 | 0 | 0 |
| CD82 | ENSG00000085117 | 0.19 | 0.00 | 1 | 0 |
| MAP3K10 | ENSG00000130758 | 0.00 | 0.11 | 0 | 1 |
| DPP8 | ENSG00000074603 | 0.00 | 0.00 | 0 | 0 |
| P2RX4 | ENSG00000135124 | 0.00 | 0.00 | 0 | 0 |
| ATP9A | ENSG00000054793 | 0.00 | 0.00 | 0 | 0 |
| ABCA9 | ENSG00000154258 | 0.00 | 0.00 | 0 | 0 |
| POLB | ENSG00000070501 | 0.83 | 0.00 | 3 | 0 |
| DHRS4L2 | ENSG00000187630 | 0.00 | 0.00 | 0 | 0 |
| MTMR4 | ENSG00000108389 | 0.00 | 0.15 | 0 | 1 |
| BRD7 | ENSG00000166164 | 0.00 | 0.14 | 0 | 1 |
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