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 |
| MAMDC2 | ENSG00000165072 | 0.00 | 0.00 | 0 | 0 |
| IL18RAP | ENSG00000115607 | 0.00 | 0.00 | 0 | 0 |
| PLA2G6 | ENSG00000184381 | 0.00 | 0.00 | 0 | 0 |
| ATP7A | ENSG00000165240 | 0.00 | 0.00 | 0 | 0 |
| TACR1 | ENSG00000115353 | 0.00 | 0.00 | 0 | 0 |
| MALT1 | ENSG00000172175 | 0.00 | 0.31 | 0 | 3 |
| GPC5 | ENSG00000179399 | 0.00 | 0.00 | 0 | 0 |
| NTN1 | ENSG00000065320 | 0.00 | 0.00 | 0 | 0 |
| USP7 | ENSG00000187555 | 0.29 | 0.00 | 1 | 0 |
| EZH1 | ENSG00000108799 | 0.00 | 0.34 | 0 | 2 |
| SLC8A2 | ENSG00000118160 | 0.13 | 0.00 | 1 | 0 |
| CNTNAP2 | ENSG00000174469 | 0.00 | 0.00 | 0 | 0 |
| PDE3B | ENSG00000152270 | 0.00 | 0.00 | 0 | 0 |
| FKBP7 | ENSG00000079150 | 0.13 | 0.00 | 1 | 0 |
| L3MBTL4 | ENSG00000154655 | 0.00 | 0.00 | 0 | 0 |
| FBLN5 | ENSG00000140092 | 0.00 | 0.00 | 0 | 0 |
| SLC35G2 | ENSG00000168917 | 0.00 | 0.00 | 0 | 0 |
| TET3 | ENSG00000187605 | 0.00 | 0.00 | 0 | 0 |
| FETUB | ENSG00000090512 | 0.00 | 0.00 | 0 | 0 |
| HDAC11 | ENSG00000163517 | 0.00 | 0.00 | 0 | 0 |
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