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 |
| WNT9B | ENSG00000158955 | 0.00 | 0.00 | 0 | 0 |
| OTOA | ENSG00000155719 | 0.00 | 0.00 | 0 | 0 |
| UTS2B | ENSG00000188958 | 0.00 | 0.00 | 0 | 0 |
| SLC12A1 | ENSG00000074803 | 0.00 | 0.00 | 0 | 0 |
| ESR2 | ENSG00000140009 | 0.00 | 0.00 | 0 | 0 |
| SERPINA12 | ENSG00000165953 | 0.00 | 0.00 | 0 | 0 |
| ZP2 | ENSG00000103310 | 0.00 | 0.00 | 0 | 0 |
| SERPINE3 | ENSG00000253309 | 0.00 | 0.00 | 0 | 0 |
| HTR3C | ENSG00000178084 | 0.00 | 0.00 | 0 | 0 |
| GRM4 | ENSG00000124493 | 0.00 | 0.00 | 0 | 0 |
| IL1RAPL2 | ENSG00000189108 | 0.00 | 0.00 | 0 | 0 |
| COL6A6 | ENSG00000206384 | 0.00 | 0.00 | 0 | 0 |
| LIPF | ENSG00000182333 | 0.00 | 0.00 | 0 | 0 |
| PSKH2 | ENSG00000147613 | 0.00 | 0.00 | 0 | 0 |
| PRMT8 | ENSG00000111218 | 0.00 | 0.00 | 0 | 0 |
| MRGPRE | ENSG00000184350 | 0.00 | 0.00 | 0 | 0 |
| FGF6 | ENSG00000111241 | 0.00 | 0.00 | 0 | 0 |
| CST9L | ENSG00000101435 | 0.00 | 0.00 | 0 | 0 |
| TEX14 | ENSG00000121101 | 0.00 | 0.00 | 0 | 0 |
| HRH4 | ENSG00000134489 | 0.00 | 0.00 | 0 | 0 |
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