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 |
| DOT1L | ENSG00000104885 | 0.00 | 0.97 | 0 | 2 |
| GSTM4 | ENSG00000168765 | 0.00 | 0.47 | 0 | 2 |
| SCGN | ENSG00000079689 | 0.00 | 0.00 | 0 | 0 |
| AZGP1 | ENSG00000160862 | 0.00 | 0.00 | 0 | 0 |
| ADAM15 | ENSG00000143537 | 0.61 | 0.00 | 3 | 0 |
| KLHL26 | ENSG00000167487 | 0.00 | 0.00 | 0 | 0 |
| PDZD2 | ENSG00000133401 | 0.00 | 0.00 | 0 | 0 |
| DUSP7 | ENSG00000164086 | 0.00 | 0.72 | 0 | 4 |
| BGN | ENSG00000182492 | 0.00 | 0.00 | 0 | 0 |
| MLLT10 | ENSG00000078403 | 0.00 | 0.00 | 0 | 0 |
| SUV420H1 | ENSG00000110066 | 0.70 | 0.10 | 1 | 1 |
| ALDH1A2 | ENSG00000128918 | 0.00 | 0.00 | 0 | 0 |
| FAAH2 | ENSG00000165591 | 0.00 | 0.00 | 0 | 0 |
| CYP4F3 | ENSG00000186529 | 0.00 | 0.00 | 0 | 0 |
| LBR | ENSG00000143815 | 0.10 | 0.24 | 1 | 1 |
| SLC25A42 | ENSG00000181035 | 0.00 | 0.00 | 0 | 0 |
| CAMKK1 | ENSG00000004660 | 0.00 | 0.00 | 0 | 0 |
| SLC6A15 | ENSG00000072041 | 0.00 | 0.00 | 0 | 0 |
| CDH5 | ENSG00000179776 | 0.00 | 0.00 | 0 | 0 |
| MYO3B | ENSG00000071909 | 0.00 | 0.00 | 0 | 0 |
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