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 |
| CXCL6 | ENSG00000124875 | 0.00 | 0.00 | 0 | 0 |
| EREG | ENSG00000124882 | 0.00 | 0.00 | 0 | 0 |
| SCGB1D2 | ENSG00000124935 | 0.00 | 0.00 | 0 | 0 |
| SCGB2A1 | ENSG00000124939 | 0.00 | 0.00 | 0 | 0 |
| WNT1 | ENSG00000125084 | 0.00 | 0.00 | 0 | 0 |
| GPR18 | ENSG00000125245 | 0.00 | 0.00 | 0 | 0 |
| SLC10A2 | ENSG00000125255 | 0.00 | 0.00 | 0 | 0 |
| AMELX | ENSG00000125363 | 0.00 | 0.00 | 0 | 0 |
| PTGER2 | ENSG00000125384 | 0.00 | 0.00 | 0 | 0 |
| SLC25A35 | ENSG00000125434 | 0.00 | 0.00 | 0 | 0 |
| SLC25A19 | ENSG00000125454 | 1.18 | 0.00 | 5 | 0 |
| KIR2DL1 | ENSG00000125498 | 0.00 | 0.00 | 0 | 0 |
| SRMS | ENSG00000125508 | 0.32 | 0.00 | 1 | 0 |
| NPBWR2 | ENSG00000125522 | 0.00 | 0.00 | 0 | 0 |
| IL1B | ENSG00000125538 | 0.00 | 0.00 | 0 | 0 |
| PLGLB2 | ENSG00000125551 | 0.00 | 0.00 | 0 | 0 |
| IL37 | ENSG00000125571 | 0.00 | 0.00 | 0 | 0 |
| PSPN | ENSG00000125650 | 0.00 | 0.00 | 0 | 0 |
| CLPP | ENSG00000125656 | 0.00 | 0.00 | 0 | 0 |
| GNRH2 | ENSG00000125787 | 0.00 | 0.00 | 0 | 0 |
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