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 |
| LTC4S | ENSG00000213316 | 0.00 | 0.00 | 0 | 0 |
| CHUK | ENSG00000213341 | 0.00 | 0.62 | 0 | 3 |
| GSTM2 | ENSG00000213366 | 0.00 | 0.13 | 0 | 1 |
| GPC2 | ENSG00000213420 | 0.00 | 0.00 | 0 | 0 |
| S1PR3 | ENSG00000213694 | 0.00 | 0.00 | 0 | 0 |
| SLC35F6 | ENSG00000213699 | 0.00 | 0.00 | 0 | 0 |
| UGT2B11 | ENSG00000213759 | 0.00 | 0.00 | 0 | 0 |
| KLRK1 | ENSG00000213809 | 0.00 | 0.00 | 0 | 0 |
| SLC23A3 | ENSG00000213901 | 0.00 | 0.66 | 0 | 3 |
| LTB4R | ENSG00000213903 | 0.00 | 0.00 | 0 | 0 |
| LTB4R2 | ENSG00000213906 | 0.00 | 0.00 | 0 | 0 |
| DNASE1 | ENSG00000213918 | 0.00 | 0.00 | 0 | 0 |
| CCL27 | ENSG00000213927 | 0.00 | 0.00 | 0 | 0 |
| IFNA7 | ENSG00000214042 | 0.00 | 0.00 | 0 | 0 |
| WEE2 | ENSG00000214102 | 0.00 | 0.00 | 0 | 0 |
| ANG | ENSG00000214274 | 0.00 | 0.00 | 0 | 0 |
| NPS | ENSG00000214285 | 0.00 | 0.00 | 0 | 0 |
| SPINK13 | ENSG00000214510 | 0.00 | 0.00 | 0 | 0 |
| DEFB113 | ENSG00000214642 | 0.00 | 0.00 | 0 | 0 |
| CAPN14 | ENSG00000214711 | 0.00 | 0.00 | 0 | 0 |
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