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 |
| OR8D1 | ENSG00000196341 | 0.00 | 0.00 | 0 | 0 |
| ADH7 | ENSG00000196344 | 0.00 | 0.00 | 0 | 0 |
| PRSS29P | ENSG00000196364 | 0.00 | 0.00 | 0 | 0 |
| EPHB4 | ENSG00000196411 | 0.00 | 0.00 | 0 | 0 |
| PRTN3 | ENSG00000196415 | 0.00 | 0.00 | 0 | 0 |
| FGF16 | ENSG00000196468 | 0.00 | 0.00 | 0 | 0 |
| SULT1A1 | ENSG00000196502 | 0.00 | 0.00 | 0 | 0 |
| OR2T3 | ENSG00000196539 | 0.00 | 0.00 | 0 | 0 |
| OR5AC2 | ENSG00000196578 | 0.00 | 0.00 | 0 | 0 |
| MMP1 | ENSG00000196611 | 0.00 | 0.00 | 0 | 0 |
| ADH1B | ENSG00000196616 | 0.00 | 0.11 | 0 | 1 |
| UGT2B15 | ENSG00000196620 | 0.00 | 0.00 | 0 | 0 |
| OR8B3 | ENSG00000196661 | 0.00 | 0.00 | 0 | 0 |
| TLR7 | ENSG00000196664 | 0.00 | 0.00 | 0 | 0 |
| TRPV1 | ENSG00000196689 | 0.00 | 0.12 | 0 | 1 |
| VKORC1L1 | ENSG00000196715 | 0.10 | 0.00 | 1 | 0 |
| OR14A16 | ENSG00000196772 | 0.00 | 0.00 | 0 | 0 |
| CD47 | ENSG00000196776 | 0.00 | 0.00 | 0 | 0 |
| OR52K1 | ENSG00000196778 | 0.00 | 0.00 | 0 | 0 |
| SPINK14 | ENSG00000196800 | 0.00 | 0.00 | 0 | 0 |
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