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 |
| UGT1A7 | ENSG00000244122 | 0.00 | 0.00 | 0 | 0 |
| P2RY11 | ENSG00000244165 | 0.00 | 0.00 | 0 | 0 |
| CFHR1 | ENSG00000244414 | 0.00 | 0.00 | 0 | 0 |
| IGKV3-15 | ENSG00000244437 | 0.00 | 0.00 | 0 | 0 |
| UGT1A4 | ENSG00000244474 | 0.00 | 0.00 | 0 | 0 |
| ASPRV1 | ENSG00000244617 | 0.00 | 0.00 | 0 | 0 |
| OR2AE1 | ENSG00000244623 | 0.00 | 0.00 | 0 | 0 |
| C4A | ENSG00000244731 | 0.00 | 0.00 | 0 | 0 |
| HBB | ENSG00000244734 | 0.00 | 0.00 | 0 | 0 |
| ADH1C | ENSG00000248144 | 0.00 | 0.11 | 0 | 1 |
| CDK11B | ENSG00000248333 | 0.00 | 1.62 | 0 | 8 |
| MTRNR2L5 | ENSG00000249860 | 0.00 | 0.00 | 0 | 0 |
| GYPB | ENSG00000250361 | 0.00 | 0.00 | 0 | 0 |
| CDK3 | ENSG00000250506 | 0.70 | 0.00 | 3 | 0 |
| OR7E85P | ENSG00000250884 | 0.00 | 0.00 | 0 | 0 |
| IGKV1D-39 | ENSG00000251546 | 0.00 | 0.00 | 0 | 0 |
| SLC10A5 | ENSG00000253598 | 0.00 | 0.00 | 0 | 0 |
| PRKDC | ENSG00000253729 | 1.15 | 0.00 | 3 | 0 |
| OR4D10 | ENSG00000254466 | 0.00 | 0.00 | 0 | 0 |
| INS | ENSG00000254647 | 0.00 | 0.00 | 0 | 0 |
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