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 |
| PHYKPL | ENSG00000175309 | 0.43 | 0.12 | 2 | 1 |
| CST6 | ENSG00000175315 | 0.00 | 0.00 | 0 | 0 |
| APOF | ENSG00000175336 | 0.00 | 0.00 | 0 | 0 |
| CHRNA7 | ENSG00000175344 | 0.00 | 0.10 | 0 | 1 |
| TMEM9B | ENSG00000175348 | 0.00 | 0.10 | 0 | 1 |
| OR10P1 | ENSG00000175398 | 0.00 | 0.00 | 0 | 0 |
| PCSK1 | ENSG00000175426 | 0.00 | 0.00 | 0 | 0 |
| LPL | ENSG00000175445 | 0.00 | 0.00 | 0 | 0 |
| OR52W1 | ENSG00000175485 | 0.00 | 0.00 | 0 | 0 |
| CLCF1 | ENSG00000175505 | 0.51 | 0.00 | 2 | 0 |
| GPR152 | ENSG00000175514 | 0.00 | 0.00 | 0 | 0 |
| PNLIP | ENSG00000175535 | 0.00 | 0.00 | 0 | 0 |
| UCP3 | ENSG00000175564 | 0.49 | 0.00 | 1 | 0 |
| UCP2 | ENSG00000175567 | 0.00 | 0.10 | 0 | 1 |
| OR4B1 | ENSG00000175619 | 0.00 | 0.00 | 0 | 0 |
| DRD5P2 | ENSG00000175658 | 0.00 | 0.00 | 0 | 0 |
| NR2F1 | ENSG00000175745 | 0.00 | 0.00 | 0 | 0 |
| AURKAIP1 | ENSG00000175756 | 0.00 | 1.62 | 0 | 8 |
| SLC35E3 | ENSG00000175782 | 0.68 | 0.00 | 3 | 0 |
| PRIMA1 | ENSG00000175785 | 0.00 | 0.00 | 0 | 0 |
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