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 |
| NME8 | ENSG00000086288 | 0.00 | 0.00 | 0 | 0 |
| HSD17B14 | ENSG00000087076 | 0.00 | 0.00 | 0 | 0 |
| PSMC5 | ENSG00000087191 | 0.82 | 0.00 | 4 | 0 |
| MT3 | ENSG00000087250 | 0.00 | 0.00 | 0 | 0 |
| NID2 | ENSG00000087303 | 0.00 | 0.00 | 0 | 0 |
| PTHLH | ENSG00000087494 | 0.00 | 0.00 | 0 | 0 |
| SULT2B1 | ENSG00000088002 | 0.00 | 0.00 | 0 | 0 |
| DEFB127 | ENSG00000088782 | 0.00 | 0.00 | 0 | 0 |
| SIGLEC1 | ENSG00000088827 | 0.00 | 0.00 | 0 | 0 |
| FKBP1A | ENSG00000088832 | 0.30 | 0.00 | 1 | 0 |
| SLC4A11 | ENSG00000088836 | 0.40 | 0.00 | 2 | 0 |
| CPXM1 | ENSG00000088882 | 0.00 | 0.00 | 0 | 0 |
| F11 | ENSG00000088926 | 0.00 | 0.12 | 0 | 1 |
| P2RX7 | ENSG00000089041 | 0.00 | 0.00 | 0 | 0 |
| RBBP9 | ENSG00000089050 | 0.00 | 0.00 | 0 | 0 |
| SIRT4 | ENSG00000089163 | 0.00 | 0.17 | 0 | 1 |
| PEBP1 | ENSG00000089220 | 0.00 | 0.00 | 0 | 0 |
| ERP29 | ENSG00000089248 | 0.00 | 0.22 | 0 | 1 |
| HEPH | ENSG00000089472 | 0.00 | 0.00 | 0 | 0 |
| BIRC5 | ENSG00000089685 | 0.88 | 0.00 | 4 | 0 |
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