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 |
| HNRNPA1 | ENSG00000135486 | 0.00 | 0.00 | 0 | 0 |
| MIP | ENSG00000135517 | 0.00 | 0.00 | 0 | 0 |
| KCNH3 | ENSG00000135519 | 0.00 | 0.00 | 0 | 0 |
| CD164 | ENSG00000135535 | 0.00 | 0.78 | 0 | 5 |
| TAAR5 | ENSG00000135569 | 0.00 | 0.00 | 0 | 0 |
| NMBR | ENSG00000135577 | 0.00 | 0.00 | 0 | 0 |
| SMPD2 | ENSG00000135587 | 0.00 | 0.63 | 0 | 4 |
| PRADC1 | ENSG00000135617 | 0.00 | 0.00 | 0 | 0 |
| KLHL36 | ENSG00000135686 | 0.00 | 0.45 | 0 | 2 |
| AGT | ENSG00000135744 | 0.40 | 0.00 | 2 | 0 |
| ABCB10 | ENSG00000135776 | 0.16 | 0.24 | 1 | 1 |
| RNASEL | ENSG00000135828 | 0.00 | 0.00 | 0 | 0 |
| GPR55 | ENSG00000135898 | 0.00 | 0.00 | 0 | 0 |
| HTR2B | ENSG00000135914 | 0.00 | 0.19 | 0 | 1 |
| SLC19A3 | ENSG00000135917 | 0.00 | 0.52 | 0 | 2 |
| WNT10A | ENSG00000135925 | 0.00 | 0.36 | 0 | 2 |
| MFSD9 | ENSG00000135953 | 0.00 | 0.00 | 0 | 0 |
| EDAR | ENSG00000135960 | 0.00 | 0.00 | 0 | 0 |
| GPR45 | ENSG00000135973 | 0.00 | 0.00 | 0 | 0 |
| ALDH1L2 | ENSG00000136010 | 0.00 | 0.00 | 0 | 0 |
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