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 |
| BRD2 | ENSG00000204256 | 0.00 | 0.00 | 0 | 0 |
| SLC14A2 | ENSG00000132874 | 0.00 | 0.00 | 0 | 0 |
| VSTM1 | ENSG00000189068 | 0.00 | 0.00 | 0 | 0 |
| MTRR | ENSG00000124275 | 0.00 | 0.00 | 0 | 0 |
| AMHR2 | ENSG00000135409 | 0.00 | 0.00 | 0 | 0 |
| RDH8 | ENSG00000080511 | 0.00 | 0.00 | 0 | 0 |
| RSPRY1 | ENSG00000159579 | 0.00 | 0.00 | 0 | 0 |
| IPP | ENSG00000197429 | 0.00 | 0.00 | 0 | 0 |
| KCNT1 | ENSG00000107147 | 0.00 | 0.24 | 0 | 1 |
| CHRND | ENSG00000135902 | 0.00 | 0.00 | 0 | 0 |
| ENOX2 | ENSG00000165675 | 0.00 | 0.00 | 0 | 0 |
| FKBP8 | ENSG00000105701 | 0.00 | 0.00 | 0 | 0 |
| ZCWPW2 | ENSG00000206559 | 0.00 | 0.00 | 0 | 0 |
| DUSP13 | ENSG00000079393 | 0.00 | 0.00 | 0 | 0 |
| GLP2R | ENSG00000065325 | 0.00 | 0.00 | 0 | 0 |
| PRDM13 | ENSG00000112238 | 0.00 | 0.00 | 0 | 0 |
| SCN11A | ENSG00000168356 | 0.00 | 0.00 | 0 | 0 |
| GH2 | ENSG00000136487 | 0.00 | 0.00 | 0 | 0 |
| PLA2G4D | ENSG00000159337 | 0.00 | 0.10 | 0 | 1 |
| AMPD1 | ENSG00000116748 | 0.00 | 0.00 | 0 | 0 |
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