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 |
| ITLN1 | ENSG00000179914 | 0.00 | 0.00 | 0 | 0 |
| SLC27A5 | ENSG00000083807 | 0.00 | 0.65 | 0 | 2 |
| FASN | ENSG00000169710 | 0.86 | 0.11 | 4 | 1 |
| SERPINB5 | ENSG00000206075 | 0.00 | 0.22 | 0 | 2 |
| HM13 | ENSG00000101294 | 3.00 | 0.00 | 8 | 0 |
| FDFT1 | ENSG00000079459 | 0.54 | 0.63 | 1 | 4 |
| NR5A2 | ENSG00000116833 | 0.00 | 0.00 | 0 | 0 |
| IKBKB | ENSG00000104365 | 0.85 | 0.00 | 3 | 0 |
| SEZ6L2 | ENSG00000174938 | 0.17 | 0.00 | 1 | 0 |
| GRIN2D | ENSG00000105464 | 0.00 | 0.32 | 0 | 1 |
| ATP6V1D | ENSG00000100554 | 0.00 | 0.81 | 0 | 4 |
| PRKCA | ENSG00000154229 | 0.68 | 0.00 | 4 | 0 |
| SLC3A1 | ENSG00000138079 | 0.12 | 0.00 | 1 | 0 |
| HMGCS1 | ENSG00000112972 | 0.39 | 0.00 | 2 | 0 |
| RB1 | ENSG00000139687 | 0.00 | 3.85 | 0 | 13 |
| SLC6A17 | ENSG00000197106 | 0.00 | 0.00 | 0 | 0 |
| ROS1 | ENSG00000047936 | 0.00 | 0.00 | 0 | 0 |
| ADAM12 | ENSG00000148848 | 0.00 | 0.00 | 0 | 0 |
| STYK1 | ENSG00000060140 | 0.56 | 0.00 | 1 | 0 |
| RAF1 | ENSG00000132155 | 0.00 | 0.36 | 0 | 2 |
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