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 |
| ULBP1 | ENSG00000111981 | 0.00 | 0.00 | 0 | 0 |
| TULP1 | ENSG00000112041 | 0.00 | 0.00 | 0 | 0 |
| SLC26A8 | ENSG00000112053 | 0.00 | 0.00 | 0 | 0 |
| SOD2 | ENSG00000112096 | 0.00 | 0.59 | 0 | 2 |
| IL17F | ENSG00000112116 | 0.00 | 0.00 | 0 | 0 |
| CD83 | ENSG00000112149 | 0.25 | 0.00 | 1 | 0 |
| GLP1R | ENSG00000112164 | 0.00 | 0.00 | 0 | 0 |
| TSPO2 | ENSG00000112212 | 0.00 | 0.00 | 0 | 0 |
| GPR63 | ENSG00000112218 | 0.00 | 0.00 | 0 | 0 |
| PTP4A1 | ENSG00000112245 | 0.89 | 0.00 | 5 | 0 |
| HDGFL1 | ENSG00000112273 | 0.00 | 0.00 | 0 | 0 |
| GMNN | ENSG00000112312 | 0.00 | 0.00 | 0 | 0 |
| NR2E1 | ENSG00000112333 | 0.00 | 0.00 | 0 | 0 |
| SLC17A2 | ENSG00000112337 | 0.00 | 0.00 | 0 | 0 |
| OR12D3 | ENSG00000112462 | 0.00 | 0.00 | 0 | 0 |
| SLC39A7 | ENSG00000112473 | 0.00 | 0.00 | 0 | 0 |
| CCR6 | ENSG00000112486 | 0.00 | 0.15 | 0 | 1 |
| SLC22A2 | ENSG00000112499 | 0.00 | 0.00 | 0 | 0 |
| PHF1 | ENSG00000112511 | 0.00 | 0.00 | 0 | 0 |
| WISP3 | ENSG00000112761 | 0.00 | 0.00 | 0 | 0 |
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