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 |
| SRPX2 | ENSG00000102359 | 0.00 | 0.00 | 0 | 0 |
| GLA | ENSG00000102393 | 0.00 | 0.00 | 0 | 0 |
| ACP5 | ENSG00000102575 | 0.00 | 0.00 | 0 | 0 |
| SLC25A15 | ENSG00000102743 | 0.00 | 0.22 | 0 | 1 |
| FLT1 | ENSG00000102755 | 0.00 | 0.00 | 0 | 0 |
| MAPK3 | ENSG00000102882 | 0.17 | 0.00 | 1 | 0 |
| CBLN1 | ENSG00000102924 | 0.00 | 0.00 | 0 | 0 |
| CCL22 | ENSG00000102962 | 0.00 | 0.00 | 0 | 0 |
| DHODH | ENSG00000102967 | 0.15 | 0.16 | 1 | 1 |
| CCL17 | ENSG00000102970 | 0.00 | 0.00 | 0 | 0 |
| POLR2C | ENSG00000102978 | 0.12 | 0.16 | 1 | 1 |
| PRSS54 | ENSG00000103023 | 0.00 | 0.00 | 0 | 0 |
| PSMD7 | ENSG00000103035 | 0.12 | 0.22 | 1 | 1 |
| SETD6 | ENSG00000103037 | 0.12 | 0.16 | 1 | 1 |
| HAS3 | ENSG00000103044 | 0.00 | 0.33 | 0 | 1 |
| HSDL1 | ENSG00000103160 | 0.00 | 0.81 | 0 | 4 |
| WFDC1 | ENSG00000103175 | 0.00 | 0.28 | 0 | 1 |
| CRISPLD2 | ENSG00000103196 | 0.00 | 0.28 | 0 | 1 |
| METRN | ENSG00000103260 | 0.00 | 0.14 | 0 | 1 |
| MEFV | ENSG00000103313 | 0.00 | 0.00 | 0 | 0 |
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