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 |
| OR7E5P | ENSG00000214880 | 0.00 | 0.00 | 0 | 0 |
| GPR33 | ENSG00000214943 | 0.00 | 0.00 | 0 | 0 |
| COL28A1 | ENSG00000215018 | 0.23 | 0.00 | 2 | 0 |
| PRSS41 | ENSG00000215148 | 0.00 | 0.00 | 0 | 0 |
| MUC5AC | ENSG00000215182 | 0.00 | 0.00 | 0 | 0 |
| MSMP | ENSG00000215183 | 0.00 | 0.00 | 0 | 0 |
| KCNU1 | ENSG00000215262 | 0.00 | 0.00 | 0 | 0 |
| DDX3X | ENSG00000215301 | 0.00 | 0.00 | 0 | 0 |
| DEFB116 | ENSG00000215545 | 0.00 | 0.00 | 0 | 0 |
| DEFB115 | ENSG00000215547 | 0.00 | 0.00 | 0 | 0 |
| GCGR | ENSG00000215644 | 0.00 | 0.00 | 0 | 0 |
| TNFRSF25 | ENSG00000215788 | 0.00 | 0.73 | 0 | 4 |
| SLC35E2 | ENSG00000215790 | 0.00 | 0.81 | 0 | 4 |
| RPTN | ENSG00000215853 | 0.00 | 0.00 | 0 | 0 |
| MMP23A | ENSG00000215914 | 0.00 | 0.11 | 0 | 1 |
| IFI30 | ENSG00000216490 | 0.00 | 0.00 | 0 | 0 |
| CKLF | ENSG00000217555 | 0.15 | 0.14 | 1 | 1 |
| TDRD15 | ENSG00000218819 | 0.00 | 0.00 | 0 | 0 |
| FAM19A5 | ENSG00000219438 | 0.00 | 0.12 | 0 | 1 |
| VAMP2 | ENSG00000220205 | 0.00 | 0.16 | 0 | 1 |
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