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 |
| OR1J1 | ENSG00000136834 | 0.00 | 0.00 | 0 | 0 |
| OR13C9 | ENSG00000136839 | 0.00 | 0.00 | 0 | 0 |
| ANGPTL2 | ENSG00000136859 | 0.00 | 0.00 | 0 | 0 |
| SLC31A2 | ENSG00000136867 | 0.00 | 0.00 | 0 | 0 |
| SLC31A1 | ENSG00000136868 | 0.00 | 0.15 | 0 | 1 |
| PRPF4 | ENSG00000136875 | 0.00 | 0.15 | 0 | 1 |
| ATP6V1G1 | ENSG00000136888 | 0.00 | 0.15 | 0 | 1 |
| TSTD2 | ENSG00000136925 | 0.00 | 0.00 | 0 | 0 |
| OR1L4 | ENSG00000136939 | 0.00 | 0.00 | 0 | 0 |
| CTSV | ENSG00000136943 | 0.00 | 0.00 | 0 | 0 |
| NOV | ENSG00000136999 | 0.53 | 0.00 | 1 | 0 |
| IL33 | ENSG00000137033 | 0.00 | 0.19 | 0 | 1 |
| CCL21 | ENSG00000137077 | 0.00 | 0.00 | 0 | 0 |
| SIT1 | ENSG00000137078 | 0.00 | 0.00 | 0 | 0 |
| IFNA21 | ENSG00000137080 | 0.00 | 0.00 | 0 | 0 |
| CD72 | ENSG00000137101 | 0.69 | 0.00 | 2 | 0 |
| ALDH1B1 | ENSG00000137124 | 0.00 | 0.00 | 0 | 0 |
| IGFBPL1 | ENSG00000137142 | 0.00 | 0.00 | 0 | 0 |
| PPIL1 | ENSG00000137168 | 0.00 | 0.00 | 0 | 0 |
| PIM1 | ENSG00000137193 | 0.00 | 0.00 | 0 | 0 |
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