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 |
| FYN | ENSG00000010810 | 0.00 | 0.26 | 0 | 2 |
| DPP7 | ENSG00000176978 | 0.17 | 0.52 | 1 | 3 |
| HSD17B2 | ENSG00000086696 | 0.00 | 0.00 | 0 | 0 |
| CLU | ENSG00000120885 | 0.00 | 0.10 | 0 | 1 |
| CHRDL2 | ENSG00000054938 | 0.00 | 0.00 | 0 | 0 |
| PYGO1 | ENSG00000171016 | 0.00 | 0.00 | 0 | 0 |
| DST | ENSG00000151914 | 0.00 | 0.00 | 0 | 0 |
| S1PR5 | ENSG00000180739 | 0.00 | 0.00 | 0 | 0 |
| PIP4K2A | ENSG00000150867 | 0.00 | 0.00 | 0 | 0 |
| SUCNR1 | ENSG00000198829 | 0.00 | 0.00 | 0 | 0 |
| PTPN21 | ENSG00000070778 | 0.00 | 0.10 | 0 | 1 |
| GRK5 | ENSG00000198873 | 0.00 | 0.13 | 0 | 1 |
| SPOCK3 | ENSG00000196104 | 0.00 | 0.00 | 0 | 0 |
| USP9X | ENSG00000124486 | 0.14 | 0.00 | 1 | 0 |
| FBN3 | ENSG00000142449 | 0.00 | 0.00 | 0 | 0 |
| CHST8 | ENSG00000124302 | 0.00 | 0.00 | 0 | 0 |
| ACKR3 | ENSG00000144476 | 0.00 | 0.77 | 0 | 3 |
| GRM8 | ENSG00000179603 | 0.00 | 0.00 | 0 | 0 |
| PXK | ENSG00000168297 | 0.00 | 0.66 | 0 | 4 |
| GUCY1A2 | ENSG00000152402 | 0.00 | 0.00 | 0 | 0 |
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