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 |
| VN2R1P | ENSG00000174930 | 0.00 | 0.00 | 0 | 0 |
| OR5M3 | ENSG00000174937 | 0.00 | 0.00 | 0 | 0 |
| P2RY14 | ENSG00000174944 | 0.00 | 0.00 | 0 | 0 |
| GPR171 | ENSG00000174946 | 0.00 | 0.00 | 0 | 0 |
| GPR149 | ENSG00000174948 | 0.00 | 0.00 | 0 | 0 |
| CD164L2 | ENSG00000174950 | 0.00 | 0.00 | 0 | 0 |
| FUT1 | ENSG00000174951 | 0.00 | 0.55 | 0 | 2 |
| OR5J2 | ENSG00000174957 | 0.00 | 0.00 | 0 | 0 |
| OR10AG1 | ENSG00000174970 | 0.00 | 0.00 | 0 | 0 |
| OR4S2 | ENSG00000174982 | 0.00 | 0.00 | 0 | 0 |
| ZG16 | ENSG00000174992 | 0.00 | 0.00 | 0 | 0 |
| SLC22A1 | ENSG00000175003 | 0.00 | 0.00 | 0 | 0 |
| CHST2 | ENSG00000175040 | 0.00 | 0.00 | 0 | 0 |
| PDIK1L | ENSG00000175087 | 0.00 | 1.80 | 0 | 5 |
| RAG2 | ENSG00000175097 | 0.00 | 0.00 | 0 | 0 |
| WFDC5 | ENSG00000175121 | 0.00 | 0.00 | 0 | 0 |
| OR2T1 | ENSG00000175143 | 0.00 | 0.00 | 0 | 0 |
| INHBC | ENSG00000175189 | 0.00 | 0.00 | 0 | 0 |
| NPPA | ENSG00000175206 | 0.00 | 0.00 | 0 | 0 |
| CCNE2 | ENSG00000175305 | 0.39 | 0.00 | 1 | 0 |
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