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 |
| KCNT2 | ENSG00000162687 | 0.00 | 0.00 | 0 | 0 |
| PRKACB | ENSG00000142875 | 0.00 | 0.00 | 0 | 0 |
| BMP4 | ENSG00000125378 | 0.00 | 0.00 | 0 | 0 |
| SLC38A6 | ENSG00000139974 | 0.00 | 0.24 | 0 | 1 |
| SMAD3 | ENSG00000166949 | 0.00 | 0.15 | 0 | 1 |
| TMPRSS9 | ENSG00000178297 | 0.00 | 0.00 | 0 | 0 |
| CPA2 | ENSG00000158516 | 0.00 | 0.00 | 0 | 0 |
| TNFSF8 | ENSG00000106952 | 0.00 | 0.00 | 0 | 0 |
| ABCG8 | ENSG00000143921 | 0.00 | 0.00 | 0 | 0 |
| RNF31 | ENSG00000092098 | 0.00 | 0.00 | 0 | 0 |
| SIGLEC6 | ENSG00000105492 | 0.00 | 0.00 | 0 | 0 |
| MSMB | ENSG00000263639 | 0.00 | 0.00 | 0 | 0 |
| SLIT3 | ENSG00000184347 | 0.00 | 0.00 | 0 | 0 |
| ADAL | ENSG00000168803 | 0.00 | 0.61 | 0 | 3 |
| DHRS2 | ENSG00000100867 | 0.00 | 0.00 | 0 | 0 |
| SNRK | ENSG00000163788 | 0.00 | 0.00 | 0 | 0 |
| PTPN2 | ENSG00000175354 | 0.00 | 0.00 | 0 | 0 |
| AHCYL2 | ENSG00000158467 | 0.12 | 0.00 | 1 | 0 |
| GRK6 | ENSG00000198055 | 0.54 | 0.11 | 3 | 1 |
| SLITRK4 | ENSG00000179542 | 0.00 | 0.00 | 0 | 0 |
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