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 |
| RPS27 | ENSG00000177954 | 1.53 | 0.00 | 7 | 0 |
| GPR150 | ENSG00000178015 | 0.00 | 0.00 | 0 | 0 |
| IMPDH2 | ENSG00000178035 | 0.00 | 0.72 | 0 | 4 |
| PRSS42 | ENSG00000178055 | 0.00 | 0.00 | 0 | 0 |
| TSSK6 | ENSG00000178093 | 0.00 | 0.00 | 0 | 0 |
| SPINK6 | ENSG00000178172 | 0.00 | 0.00 | 0 | 0 |
| VN1R1 | ENSG00000178201 | 0.38 | 0.18 | 2 | 1 |
| OR2D3 | ENSG00000178358 | 0.00 | 0.00 | 0 | 0 |
| HTR1A | ENSG00000178394 | 0.00 | 0.00 | 0 | 0 |
| TUBAL3 | ENSG00000178462 | 0.18 | 0.00 | 1 | 0 |
| UCN3 | ENSG00000178473 | 0.00 | 0.00 | 0 | 0 |
| AMBN | ENSG00000178522 | 0.00 | 0.00 | 0 | 0 |
| SLC25A20 | ENSG00000178537 | 0.00 | 0.50 | 0 | 3 |
| CA8 | ENSG00000178538 | 0.52 | 0.00 | 3 | 0 |
| CD28 | ENSG00000178562 | 0.00 | 0.00 | 0 | 0 |
| OR6B3 | ENSG00000178586 | 0.00 | 0.00 | 0 | 0 |
| OTOS | ENSG00000178602 | 0.00 | 0.00 | 0 | 0 |
| GPR35 | ENSG00000178623 | 0.00 | 1.33 | 0 | 6 |
| DHFRL1 | ENSG00000178700 | 0.00 | 0.00 | 0 | 0 |
| THBD | ENSG00000178726 | 0.00 | 0.00 | 0 | 0 |
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