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 |
| LAMC1 | ENSG00000135862 | 0.00 | 0.00 | 0 | 0 |
| AAK1 | ENSG00000115977 | 0.00 | 0.00 | 0 | 0 |
| VRK1 | ENSG00000100749 | 0.00 | 0.00 | 0 | 0 |
| KCNJ12 | ENSG00000184185 | 0.00 | 0.00 | 0 | 0 |
| INSL3 | ENSG00000248099 | 0.00 | 0.00 | 0 | 0 |
| SCN2A | ENSG00000136531 | 0.00 | 0.00 | 0 | 0 |
| FCAMR | ENSG00000162897 | 0.00 | 0.00 | 0 | 0 |
| PI4KB | ENSG00000143393 | 2.42 | 0.00 | 9 | 0 |
| IGF2R | ENSG00000197081 | 0.00 | 0.77 | 0 | 3 |
| PIP | ENSG00000159763 | 0.00 | 0.00 | 0 | 0 |
| CHD2 | ENSG00000173575 | 0.38 | 0.00 | 2 | 0 |
| IL32 | ENSG00000008517 | 0.00 | 0.00 | 0 | 0 |
| PRKG2 | ENSG00000138669 | 0.00 | 0.00 | 0 | 0 |
| CR2 | ENSG00000117322 | 0.00 | 0.00 | 0 | 0 |
| ATP11B | ENSG00000058063 | 1.15 | 0.00 | 3 | 0 |
| KEAP1 | ENSG00000079999 | 0.81 | 0.00 | 1 | 0 |
| CEACAM1 | ENSG00000079385 | 0.00 | 0.00 | 0 | 0 |
| IGFBP5 | ENSG00000115461 | 0.00 | 0.12 | 0 | 1 |
| SLC8A1 | ENSG00000183023 | 0.00 | 0.00 | 0 | 0 |
| STK17B | ENSG00000081320 | 0.00 | 0.00 | 0 | 0 |
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