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 |
| CHRNG | ENSG00000196811 | 0.00 | 0.00 | 0 | 0 |
| OR11G2 | ENSG00000196832 | 0.00 | 0.00 | 0 | 0 |
| ADA | ENSG00000196839 | 0.00 | 0.00 | 0 | 0 |
| LAMB3 | ENSG00000196878 | 0.00 | 0.00 | 0 | 0 |
| FLNA | ENSG00000196924 | 0.15 | 0.00 | 1 | 0 |
| OR2L8 | ENSG00000196936 | 0.00 | 0.00 | 0 | 0 |
| FAM3C | ENSG00000196937 | 0.00 | 0.00 | 0 | 0 |
| OR2T4 | ENSG00000196944 | 0.00 | 0.00 | 0 | 0 |
| SLC39A10 | ENSG00000196950 | 0.00 | 0.00 | 0 | 0 |
| CASP4 | ENSG00000196954 | 0.13 | 0.33 | 1 | 2 |
| HIST1H4C | ENSG00000197061 | 0.00 | 0.00 | 0 | 0 |
| IFNL3 | ENSG00000197110 | 0.00 | 0.00 | 0 | 0 |
| SLC25A29 | ENSG00000197119 | 0.18 | 0.00 | 1 | 0 |
| OR8B8 | ENSG00000197125 | 0.00 | 0.00 | 0 | 0 |
| HIST1H3J | ENSG00000197153 | 0.00 | 0.00 | 0 | 0 |
| SULT1A2 | ENSG00000197165 | 0.00 | 0.00 | 0 | 0 |
| NEK5 | ENSG00000197168 | 0.00 | 0.00 | 0 | 0 |
| ADGRA1 | ENSG00000197177 | 0.00 | 0.13 | 0 | 1 |
| OR1J2 | ENSG00000197233 | 0.00 | 0.00 | 0 | 0 |
| HIST1H4J | ENSG00000197238 | 0.00 | 0.00 | 0 | 0 |
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