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 |
| GLRA3 | ENSG00000145451 | 0.00 | 0.00 | 0 | 0 |
| CYP4V2 | ENSG00000145476 | 0.00 | 0.92 | 0 | 5 |
| SRD5A1 | ENSG00000145545 | 0.00 | 0.00 | 0 | 0 |
| PLK2 | ENSG00000145632 | 0.00 | 0.00 | 0 | 0 |
| HAPLN1 | ENSG00000145681 | 0.00 | 0.00 | 0 | 0 |
| BHMT | ENSG00000145692 | 0.00 | 0.00 | 0 | 0 |
| CRHBP | ENSG00000145708 | 0.00 | 0.00 | 0 | 0 |
| TSLP | ENSG00000145777 | 0.00 | 0.00 | 0 | 0 |
| CXCL14 | ENSG00000145824 | 0.28 | 0.00 | 1 | 0 |
| LECT2 | ENSG00000145826 | 0.00 | 0.00 | 0 | 0 |
| SLC25A48 | ENSG00000145832 | 0.28 | 0.00 | 1 | 0 |
| IL9 | ENSG00000145839 | 0.00 | 0.00 | 0 | 0 |
| GABRA6 | ENSG00000145863 | 0.00 | 0.00 | 0 | 0 |
| GABRB2 | ENSG00000145864 | 0.00 | 0.00 | 0 | 0 |
| SPINK7 | ENSG00000145879 | 0.00 | 0.00 | 0 | 0 |
| PCYOX1L | ENSG00000145882 | 0.00 | 0.14 | 0 | 1 |
| MYLK4 | ENSG00000145949 | 0.00 | 0.00 | 0 | 0 |
| PLA2G7 | ENSG00000146070 | 0.00 | 0.00 | 0 | 0 |
| TPBG | ENSG00000146242 | 0.00 | 0.00 | 0 | 0 |
| PRSS35 | ENSG00000146250 | 0.00 | 0.12 | 0 | 1 |
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