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 |
| GABBR2 | ENSG00000136928 | 0.00 | 0.00 | 0 | 0 |
| AKT2 | ENSG00000105221 | 0.00 | 0.11 | 0 | 1 |
| GPR160 | ENSG00000173890 | 1.41 | 0.00 | 4 | 0 |
| ACLY | ENSG00000131473 | 0.00 | 0.00 | 0 | 0 |
| C1QL1 | ENSG00000131094 | 0.00 | 0.00 | 0 | 0 |
| SLC7A6 | ENSG00000103064 | 0.16 | 0.32 | 1 | 1 |
| PIK3CB | ENSG00000051382 | 0.00 | 0.00 | 0 | 0 |
| P3H1 | ENSG00000117385 | 0.11 | 0.00 | 1 | 0 |
| HAPLN2 | ENSG00000132702 | 0.00 | 0.00 | 0 | 0 |
| CYP27B1 | ENSG00000111012 | 0.61 | 0.00 | 2 | 0 |
| SPON2 | ENSG00000159674 | 0.00 | 0.00 | 0 | 0 |
| ADGRB2 | ENSG00000121753 | 0.00 | 0.00 | 0 | 0 |
| CD69 | ENSG00000110848 | 0.00 | 0.00 | 0 | 0 |
| LOXL1 | ENSG00000129038 | 0.00 | 0.00 | 0 | 0 |
| GRM3 | ENSG00000198822 | 0.00 | 0.00 | 0 | 0 |
| TCIRG1 | ENSG00000110719 | 0.63 | 0.00 | 1 | 0 |
| NRBP1 | ENSG00000115216 | 0.00 | 0.00 | 0 | 0 |
| TPCN2 | ENSG00000162341 | 2.92 | 0.00 | 3 | 0 |
| TNFAIP6 | ENSG00000123610 | 0.00 | 0.00 | 0 | 0 |
| KCNK13 | ENSG00000152315 | 0.00 | 0.00 | 0 | 0 |
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