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 |
| SLC25A16 | ENSG00000122912 | 0.00 | 0.00 | 0 | 0 |
| STYXL1 | ENSG00000127952 | 0.00 | 0.00 | 0 | 0 |
| OAS1 | ENSG00000089127 | 0.00 | 0.00 | 0 | 0 |
| TPCN1 | ENSG00000186815 | 0.00 | 0.00 | 0 | 0 |
| XPNPEP3 | ENSG00000196236 | 0.00 | 0.00 | 0 | 0 |
| SLC2A14 | ENSG00000173262 | 0.00 | 0.00 | 0 | 0 |
| NOX5 | ENSG00000255346 | 0.00 | 0.00 | 0 | 0 |
| CCNT1 | ENSG00000129315 | 0.00 | 0.00 | 0 | 0 |
| NPFFR2 | ENSG00000056291 | 0.00 | 0.00 | 0 | 0 |
| TAB1 | ENSG00000100324 | 0.00 | 0.00 | 0 | 0 |
| TPH1 | ENSG00000129167 | 0.00 | 0.00 | 0 | 0 |
| SVOPL | ENSG00000157703 | 0.00 | 0.00 | 0 | 0 |
| CD226 | ENSG00000150637 | 0.00 | 0.13 | 0 | 1 |
| TLK1 | ENSG00000198586 | 0.00 | 0.00 | 0 | 0 |
| NEK7 | ENSG00000151414 | 0.00 | 0.00 | 0 | 0 |
| GALNT1 | ENSG00000141429 | 0.00 | 0.00 | 0 | 0 |
| COL9A1 | ENSG00000112280 | 0.00 | 0.00 | 0 | 0 |
| NOS1 | ENSG00000089250 | 0.00 | 0.00 | 0 | 0 |
| CHD6 | ENSG00000124177 | 0.00 | 0.00 | 0 | 0 |
| SSTR3 | ENSG00000278195 | 0.00 | 0.00 | 0 | 0 |
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