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 |
| SLC35G4 | ENSG00000236396 | 0.00 | 0.00 | 0 | 0 |
| TAS2R39 | ENSG00000236398 | 0.00 | 0.00 | 0 | 0 |
| IFNA4 | ENSG00000236637 | 0.00 | 0.00 | 0 | 0 |
| OR10G9 | ENSG00000236981 | 0.00 | 0.00 | 0 | 0 |
| TAAR9 | ENSG00000237110 | 0.00 | 0.00 | 0 | 0 |
| PATE4 | ENSG00000237353 | 0.00 | 0.00 | 0 | 0 |
| OR4A47 | ENSG00000237388 | 0.00 | 0.00 | 0 | 0 |
| PRSS56 | ENSG00000237412 | 0.00 | 0.00 | 0 | 0 |
| OR7E24 | ENSG00000237521 | 0.00 | 0.00 | 0 | 0 |
| HLA-DQA2 | ENSG00000237541 | 0.00 | 0.00 | 0 | 0 |
| AMY1A | ENSG00000237763 | 0.00 | 0.12 | 0 | 1 |
| OR2W3 | ENSG00000238243 | 0.00 | 0.00 | 0 | 0 |
| OR1J4 | ENSG00000239590 | 0.00 | 0.00 | 0 | 0 |
| TNFSF12 | ENSG00000239697 | 0.00 | 0.16 | 0 | 1 |
| APOBEC3G | ENSG00000239713 | 0.00 | 0.00 | 0 | 0 |
| TLR9 | ENSG00000239732 | 0.00 | 0.00 | 0 | 0 |
| DEFA3 | ENSG00000239839 | 0.00 | 0.00 | 0 | 0 |
| IGKV3-20 | ENSG00000239951 | 0.00 | 0.00 | 0 | 0 |
| LILRA4 | ENSG00000239961 | 0.00 | 0.17 | 0 | 1 |
| LILRA2 | ENSG00000239998 | 0.00 | 0.17 | 0 | 1 |
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