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 |
| CXCR3 | ENSG00000186810 | 0.00 | 0.00 | 0 | 0 |
| LILRB4 | ENSG00000186818 | 0.00 | 0.17 | 0 | 1 |
| TNFRSF4 | ENSG00000186827 | 0.00 | 0.39 | 0 | 2 |
| QRFPR | ENSG00000186867 | 0.00 | 0.00 | 0 | 0 |
| OR13F1 | ENSG00000186881 | 0.00 | 0.00 | 0 | 0 |
| TNFRSF18 | ENSG00000186891 | 0.00 | 0.00 | 0 | 0 |
| SERPINA11 | ENSG00000186910 | 0.00 | 0.00 | 0 | 0 |
| P2RY4 | ENSG00000186912 | 0.00 | 0.00 | 0 | 0 |
| ZACN | ENSG00000186919 | 0.67 | 0.00 | 3 | 0 |
| OR13C8 | ENSG00000186943 | 0.00 | 0.00 | 0 | 0 |
| CYP4A11 | ENSG00000187048 | 0.00 | 0.00 | 0 | 0 |
| TMPRSS11A | ENSG00000187054 | 0.00 | 0.00 | 0 | 0 |
| OR2AK2 | ENSG00000187080 | 0.00 | 0.00 | 0 | 0 |
| PLCD1 | ENSG00000187091 | 0.00 | 0.18 | 0 | 1 |
| CCK | ENSG00000187094 | 0.00 | 0.00 | 0 | 0 |
| LILRA5 | ENSG00000187116 | 0.00 | 0.00 | 0 | 0 |
| LYPD6 | ENSG00000187123 | 0.00 | 0.00 | 0 | 0 |
| ANGPTL5 | ENSG00000187151 | 0.00 | 0.00 | 0 | 0 |
| FPR3 | ENSG00000187474 | 0.00 | 0.00 | 0 | 0 |
| SERPINA13P | ENSG00000187483 | 0.00 | 0.00 | 0 | 0 |
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