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 |
| GABRA1 | ENSG00000022355 | 0.00 | 0.00 | 0 | 0 |
| DUSP12 | ENSG00000081721 | 0.52 | 0.00 | 3 | 0 |
| OPCML | ENSG00000183715 | 0.00 | 0.00 | 0 | 0 |
| GIPR | ENSG00000010310 | 0.00 | 0.00 | 0 | 0 |
| CRELD2 | ENSG00000184164 | 0.00 | 1.57 | 0 | 7 |
| PLXNC1 | ENSG00000136040 | 0.00 | 0.00 | 0 | 0 |
| PIK3R4 | ENSG00000196455 | 0.00 | 0.00 | 0 | 0 |
| IL11RA | ENSG00000137070 | 0.16 | 0.00 | 1 | 0 |
| SLC25A32 | ENSG00000164933 | 0.56 | 0.00 | 2 | 0 |
| ADAMTS19 | ENSG00000145808 | 0.00 | 0.00 | 0 | 0 |
| PTPN11 | ENSG00000179295 | 0.00 | 0.00 | 0 | 0 |
| REG3A | ENSG00000172016 | 0.00 | 0.00 | 0 | 0 |
| PRKCD | ENSG00000163932 | 0.00 | 0.72 | 0 | 4 |
| PTGS1 | ENSG00000095303 | 0.00 | 0.00 | 0 | 0 |
| ATP13A3 | ENSG00000133657 | 0.17 | 0.11 | 1 | 1 |
| TNFRSF1B | ENSG00000028137 | 0.00 | 1.39 | 0 | 3 |
| SULT1B1 | ENSG00000173597 | 0.00 | 0.00 | 0 | 0 |
| SLC16A10 | ENSG00000112394 | 0.00 | 0.00 | 0 | 0 |
| SLC46A2 | ENSG00000119457 | 0.00 | 0.00 | 0 | 0 |
| RECQL | ENSG00000004700 | 0.63 | 0.00 | 1 | 0 |
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