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 |
| PARP2 | ENSG00000129484 | 0.00 | 0.00 | 0 | 0 |
| EGLN3 | ENSG00000129521 | 0.00 | 0.00 | 0 | 0 |
| RNASE1 | ENSG00000129538 | 0.00 | 0.00 | 0 | 0 |
| ITFG1 | ENSG00000129636 | 0.00 | 0.14 | 0 | 1 |
| CHRNA10 | ENSG00000129749 | 0.00 | 0.00 | 0 | 0 |
| CDY2B | ENSG00000129873 | 0.00 | 0.00 | 0 | 0 |
| INS-IGF2 | ENSG00000129965 | 0.00 | 0.00 | 0 | 0 |
| TNNI3 | ENSG00000129991 | 0.17 | 0.00 | 1 | 0 |
| KCNA5 | ENSG00000130037 | 0.57 | 0.00 | 1 | 0 |
| APOC1 | ENSG00000130208 | 0.00 | 0.00 | 0 | 0 |
| DPP6 | ENSG00000130226 | 0.11 | 0.00 | 1 | 0 |
| ATP8B3 | ENSG00000130270 | 0.00 | 0.17 | 0 | 1 |
| BST2 | ENSG00000130303 | 0.00 | 0.00 | 0 | 0 |
| RTN4IP1 | ENSG00000130347 | 0.00 | 0.54 | 0 | 4 |
| MAS1 | ENSG00000130368 | 0.00 | 0.00 | 0 | 0 |
| BMP15 | ENSG00000130385 | 0.00 | 0.00 | 0 | 0 |
| EPO | ENSG00000130427 | 0.00 | 0.00 | 0 | 0 |
| CACNG6 | ENSG00000130433 | 0.00 | 0.00 | 0 | 0 |
| GDF15 | ENSG00000130513 | 0.00 | 0.00 | 0 | 0 |
| HRC | ENSG00000130528 | 0.00 | 0.00 | 0 | 0 |
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