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 |
| OR2AP1 | ENSG00000179615 | 0.00 | 0.00 | 0 | 0 |
| OR6C4 | ENSG00000179626 | 0.00 | 0.00 | 0 | 0 |
| OR6C2 | ENSG00000179695 | 0.00 | 0.00 | 0 | 0 |
| SYCN | ENSG00000179751 | 0.00 | 0.00 | 0 | 0 |
| MRGPRX4 | ENSG00000179817 | 0.00 | 0.00 | 0 | 0 |
| PDXDC1 | ENSG00000179889 | 0.00 | 0.00 | 0 | 0 |
| OR10A7 | ENSG00000179919 | 0.00 | 0.00 | 0 | 0 |
| GPBAR1 | ENSG00000179921 | 0.00 | 0.00 | 0 | 0 |
| CCR8 | ENSG00000179934 | 0.00 | 0.00 | 0 | 0 |
| SSC5D | ENSG00000179954 | 0.00 | 0.19 | 0 | 1 |
| ZADH2 | ENSG00000180011 | 0.00 | 0.97 | 0 | 5 |
| OR1E1 | ENSG00000180016 | 0.00 | 0.00 | 0 | 0 |
| OR3A4P | ENSG00000180068 | 0.00 | 0.00 | 0 | 0 |
| WFDC11 | ENSG00000180083 | 0.00 | 0.00 | 0 | 0 |
| OR3A1 | ENSG00000180090 | 0.00 | 0.00 | 0 | 0 |
| TDRD6 | ENSG00000180113 | 0.00 | 0.00 | 0 | 0 |
| CSNK1A1L | ENSG00000180138 | 0.00 | 0.00 | 0 | 0 |
| TH | ENSG00000180176 | 0.00 | 0.00 | 0 | 0 |
| RRH | ENSG00000180245 | 0.00 | 0.00 | 0 | 0 |
| SLC9A4 | ENSG00000180251 | 0.00 | 0.00 | 0 | 0 |
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