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 |
| SST | ENSG00000157005 | 0.00 | 0.00 | 0 | 0 |
| GHRL | ENSG00000157017 | 0.00 | 0.00 | 0 | 0 |
| EXOG | ENSG00000157036 | 0.00 | 0.18 | 0 | 1 |
| LYZL4 | ENSG00000157093 | 0.00 | 0.00 | 0 | 0 |
| SLC6A1 | ENSG00000157103 | 0.00 | 0.00 | 0 | 0 |
| KLHL40 | ENSG00000157119 | 0.00 | 0.00 | 0 | 0 |
| TIMP4 | ENSG00000157150 | 0.00 | 0.00 | 0 | 0 |
| C1orf27 | ENSG00000157181 | 0.00 | 0.00 | 0 | 0 |
| CDCP2 | ENSG00000157211 | 0.00 | 0.00 | 0 | 0 |
| HTR5A | ENSG00000157219 | 0.00 | 0.00 | 0 | 0 |
| FZD1 | ENSG00000157240 | 0.00 | 0.00 | 0 | 0 |
| IL34 | ENSG00000157368 | 0.00 | 0.00 | 0 | 0 |
| ARSE | ENSG00000157399 | 0.00 | 0.00 | 0 | 0 |
| CCNB2 | ENSG00000157456 | 0.00 | 0.00 | 0 | 0 |
| SLC35B2 | ENSG00000157593 | 0.30 | 0.00 | 2 | 0 |
| PSMG3 | ENSG00000157778 | 0.43 | 0.39 | 3 | 1 |
| SPPL3 | ENSG00000157837 | 0.00 | 0.44 | 0 | 2 |
| SLC30A2 | ENSG00000158014 | 0.00 | 0.21 | 0 | 1 |
| DUSP2 | ENSG00000158050 | 0.00 | 0.00 | 0 | 0 |
| XDH | ENSG00000158125 | 0.14 | 0.00 | 1 | 0 |
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