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 |
| FIGF | ENSG00000165197 | 0.00 | 0.00 | 0 | 0 |
| OR1Q1 | ENSG00000165202 | 0.00 | 0.00 | 0 | 0 |
| OR1K1 | ENSG00000165204 | 0.00 | 0.00 | 0 | 0 |
| WNK2 | ENSG00000165238 | 0.00 | 0.16 | 0 | 1 |
| NLGN4Y | ENSG00000165246 | 0.00 | 0.00 | 0 | 0 |
| FAT3 | ENSG00000165323 | 0.00 | 0.00 | 0 | 0 |
| SLC7A3 | ENSG00000165349 | 0.00 | 0.00 | 0 | 0 |
| GPR101 | ENSG00000165370 | 0.00 | 0.00 | 0 | 0 |
| FOLR2 | ENSG00000165457 | 0.00 | 0.00 | 0 | 0 |
| INPPL1 | ENSG00000165458 | 0.88 | 0.10 | 1 | 1 |
| MBL2 | ENSG00000165471 | 0.00 | 0.00 | 0 | 0 |
| KBTBD6 | ENSG00000165572 | 0.00 | 0.40 | 0 | 2 |
| OXGR1 | ENSG00000165621 | 0.14 | 0.00 | 1 | 0 |
| UCMA | ENSG00000165623 | 0.00 | 0.00 | 0 | 0 |
| COMTD1 | ENSG00000165644 | 0.89 | 0.00 | 2 | 0 |
| SLC18A2 | ENSG00000165646 | 0.00 | 0.00 | 0 | 0 |
| STK32C | ENSG00000165752 | 0.00 | 0.26 | 0 | 2 |
| OR4K2 | ENSG00000165762 | 0.00 | 0.00 | 0 | 0 |
| SLC39A2 | ENSG00000165794 | 0.00 | 0.00 | 0 | 0 |
| RNASE7 | ENSG00000165799 | 0.00 | 0.00 | 0 | 0 |
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