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 |
| SLC6A11 | ENSG00000132164 | 0.00 | 0.00 | 0 | 0 |
| BAX | ENSG00000087088 | 0.00 | 0.33 | 0 | 1 |
| HPSE2 | ENSG00000172987 | 0.00 | 0.00 | 0 | 0 |
| NPR2 | ENSG00000159899 | 1.05 | 0.00 | 4 | 0 |
| NPNT | ENSG00000168743 | 0.00 | 0.00 | 0 | 0 |
| SLC16A13 | ENSG00000174327 | 0.00 | 0.00 | 0 | 0 |
| AMICA1 | ENSG00000160593 | 0.00 | 0.23 | 0 | 1 |
| TTBK2 | ENSG00000128881 | 0.00 | 0.49 | 0 | 2 |
| SLC39A11 | ENSG00000133195 | 0.94 | 0.00 | 4 | 0 |
| ALOX15B | ENSG00000179593 | 0.00 | 0.00 | 0 | 0 |
| FMO3 | ENSG00000007933 | 0.00 | 0.00 | 0 | 0 |
| APAF1 | ENSG00000120868 | 0.00 | 0.00 | 0 | 0 |
| SLC2A10 | ENSG00000197496 | 0.00 | 0.00 | 0 | 0 |
| CYP2C8 | ENSG00000138115 | 0.00 | 0.30 | 0 | 1 |
| CNTN2 | ENSG00000184144 | 0.00 | 0.00 | 0 | 0 |
| CPT1A | ENSG00000110090 | 1.35 | 0.00 | 1 | 0 |
| SLC9A5 | ENSG00000135740 | 0.00 | 0.00 | 0 | 0 |
| CAMK2G | ENSG00000148660 | 0.00 | 0.00 | 0 | 0 |
| GPR141 | ENSG00000187037 | 0.00 | 0.00 | 0 | 0 |
| PVRL1 | ENSG00000110400 | 0.00 | 0.44 | 0 | 2 |
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