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 |
| OR1L3 | ENSG00000171481 | 0.00 | 0.00 | 0 | 0 |
| SPACA5 | ENSG00000171489 | 0.00 | 0.00 | 0 | 0 |
| OR1L8 | ENSG00000171496 | 0.00 | 0.00 | 0 | 0 |
| PPID | ENSG00000171497 | 0.00 | 0.00 | 0 | 0 |
| OR1N2 | ENSG00000171501 | 0.00 | 0.00 | 0 | 0 |
| OR1N1 | ENSG00000171505 | 0.00 | 0.00 | 0 | 0 |
| PTGER4 | ENSG00000171522 | 0.21 | 0.00 | 1 | 0 |
| ECEL1 | ENSG00000171551 | 0.00 | 0.91 | 0 | 3 |
| OR2AT4 | ENSG00000171561 | 0.00 | 0.00 | 0 | 0 |
| PIK3CD | ENSG00000171608 | 0.00 | 1.21 | 0 | 2 |
| SLC25A33 | ENSG00000171612 | 0.00 | 2.09 | 0 | 6 |
| GPR82 | ENSG00000171657 | 0.00 | 0.00 | 0 | 0 |
| GPR34 | ENSG00000171659 | 0.00 | 0.00 | 0 | 0 |
| DEFB4A | ENSG00000171711 | 0.00 | 0.00 | 0 | 0 |
| HDAC3 | ENSG00000171720 | 0.30 | 0.15 | 1 | 1 |
| ANGPTL7 | ENSG00000171819 | 0.00 | 0.00 | 0 | 0 |
| IFNB1 | ENSG00000171855 | 0.00 | 0.00 | 0 | 0 |
| PRNP | ENSG00000171867 | 0.00 | 0.00 | 0 | 0 |
| OR10H3 | ENSG00000171936 | 0.00 | 0.00 | 0 | 0 |
| OR10H2 | ENSG00000171942 | 0.00 | 0.00 | 0 | 0 |
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