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 |
| YBX1 | ENSG00000065978 | 0.12 | 0.00 | 1 | 0 |
| CD84 | ENSG00000066294 | 0.00 | 0.00 | 0 | 0 |
| METTL22 | ENSG00000067365 | 0.26 | 0.00 | 1 | 0 |
| IARS2 | ENSG00000067704 | 0.00 | 0.33 | 0 | 2 |
| PDK3 | ENSG00000067992 | 0.00 | 0.00 | 0 | 0 |
| HYAL2 | ENSG00000068001 | 0.00 | 0.56 | 0 | 3 |
| PYGM | ENSG00000068976 | 0.00 | 0.00 | 0 | 0 |
| TRPC7 | ENSG00000069018 | 0.00 | 0.00 | 0 | 0 |
| GAL | ENSG00000069482 | 1.25 | 0.00 | 1 | 0 |
| MAOB | ENSG00000069535 | 0.00 | 0.00 | 0 | 0 |
| DRD4 | ENSG00000069696 | 0.00 | 0.65 | 0 | 2 |
| PLA2G10 | ENSG00000069764 | 0.00 | 0.00 | 0 | 0 |
| SCT | ENSG00000070031 | 0.00 | 0.00 | 0 | 0 |
| SLC44A1 | ENSG00000070214 | 0.00 | 0.00 | 0 | 0 |
| FGF22 | ENSG00000070388 | 0.00 | 0.00 | 0 | 0 |
| FSTL3 | ENSG00000070404 | 0.00 | 0.00 | 0 | 0 |
| CHAT | ENSG00000070748 | 0.00 | 0.00 | 0 | 0 |
| CSNK2A2 | ENSG00000070770 | 0.12 | 0.16 | 1 | 1 |
| CDC42 | ENSG00000070831 | 0.00 | 1.94 | 0 | 6 |
| EPHA8 | ENSG00000070886 | 0.00 | 0.00 | 0 | 0 |
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