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 |
| ODC1 | ENSG00000115758 | 0.16 | 0.16 | 1 | 1 |
| SLC25A12 | ENSG00000115840 | 0.00 | 0.00 | 0 | 0 |
| PLCL1 | ENSG00000115896 | 0.00 | 0.00 | 0 | 0 |
| SLC1A4 | ENSG00000115902 | 0.00 | 0.00 | 0 | 0 |
| KYNU | ENSG00000115919 | 0.00 | 0.00 | 0 | 0 |
| PLEK | ENSG00000115956 | 0.00 | 0.00 | 0 | 0 |
| PCYOX1 | ENSG00000116005 | 0.00 | 0.00 | 0 | 0 |
| KISS1R | ENSG00000116014 | 0.00 | 0.00 | 0 | 0 |
| CD207 | ENSG00000116031 | 0.00 | 0.00 | 0 | 0 |
| ATP6V1B1 | ENSG00000116039 | 0.00 | 0.00 | 0 | 0 |
| MSH6 | ENSG00000116062 | 0.00 | 0.00 | 0 | 0 |
| SPR | ENSG00000116096 | 0.00 | 0.00 | 0 | 0 |
| GPX7 | ENSG00000116157 | 0.00 | 0.00 | 0 | 0 |
| TPSG1 | ENSG00000116176 | 0.00 | 0.00 | 0 | 0 |
| ICMT | ENSG00000116237 | 0.00 | 1.89 | 0 | 9 |
| CHD5 | ENSG00000116254 | 0.00 | 0.12 | 0 | 1 |
| QSOX1 | ENSG00000116260 | 0.00 | 0.00 | 0 | 0 |
| PHF13 | ENSG00000116273 | 0.00 | 1.20 | 0 | 5 |
| PARK7 | ENSG00000116288 | 0.00 | 2.83 | 0 | 9 |
| OPRD1 | ENSG00000116329 | 0.00 | 0.00 | 0 | 0 |
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