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 |
| CPN2 | ENSG00000178772 | 0.00 | 0.00 | 0 | 0 |
| CD300LB | ENSG00000178789 | 0.00 | 0.00 | 0 | 0 |
| MPI | ENSG00000178802 | 0.12 | 0.00 | 1 | 0 |
| LGALS7B | ENSG00000178934 | 0.00 | 0.00 | 0 | 0 |
| TAS1R2 | ENSG00000179002 | 0.00 | 0.00 | 0 | 0 |
| OR13D1 | ENSG00000179055 | 0.00 | 0.00 | 0 | 0 |
| TAAR3 | ENSG00000179073 | 0.00 | 0.00 | 0 | 0 |
| HTR1F | ENSG00000179097 | 0.00 | 0.00 | 0 | 0 |
| CYP11B2 | ENSG00000179142 | 0.00 | 0.00 | 0 | 0 |
| ALOXE3 | ENSG00000179148 | 0.00 | 0.00 | 0 | 0 |
| DAND5 | ENSG00000179284 | 0.00 | 0.00 | 0 | 0 |
| CLK3 | ENSG00000179335 | 0.12 | 0.00 | 1 | 0 |
| VWA1 | ENSG00000179403 | 0.00 | 0.42 | 0 | 2 |
| OR6W1P | ENSG00000179420 | 0.00 | 0.00 | 0 | 0 |
| FJX1 | ENSG00000179431 | 0.28 | 0.00 | 2 | 0 |
| KLHL28 | ENSG00000179454 | 0.00 | 0.10 | 0 | 1 |
| OR9A2 | ENSG00000179468 | 0.00 | 0.00 | 0 | 0 |
| ALOX12B | ENSG00000179477 | 0.00 | 0.00 | 0 | 0 |
| SLC17A8 | ENSG00000179520 | 0.00 | 0.00 | 0 | 0 |
| HTR1D | ENSG00000179546 | 0.00 | 0.00 | 0 | 0 |
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