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 |
| ADM | ENSG00000148926 | 0.00 | 0.00 | 0 | 0 |
| SLC5A12 | ENSG00000148942 | 0.00 | 0.00 | 0 | 0 |
| SAA4 | ENSG00000148965 | 0.00 | 0.00 | 0 | 0 |
| SCGB1A1 | ENSG00000149021 | 0.00 | 0.00 | 0 | 0 |
| OR5F1 | ENSG00000149133 | 0.00 | 0.00 | 0 | 0 |
| SLC43A1 | ENSG00000149150 | 0.00 | 0.00 | 0 | 0 |
| ENDOD1 | ENSG00000149218 | 0.00 | 0.16 | 0 | 1 |
| NCAM1 | ENSG00000149294 | 0.00 | 0.24 | 0 | 1 |
| DRD2 | ENSG00000149295 | 0.00 | 0.00 | 0 | 0 |
| HTR3B | ENSG00000149305 | 0.00 | 0.00 | 0 | 0 |
| HYOU1 | ENSG00000149428 | 0.00 | 0.80 | 0 | 4 |
| GGTLC1 | ENSG00000149435 | 0.00 | 0.00 | 0 | 0 |
| ZP1 | ENSG00000149506 | 0.00 | 0.00 | 0 | 0 |
| ESAM | ENSG00000149564 | 0.00 | 0.00 | 0 | 0 |
| SCN2B | ENSG00000149575 | 0.00 | 0.00 | 0 | 0 |
| TMEM25 | ENSG00000149582 | 0.00 | 0.80 | 0 | 4 |
| SOGA1 | ENSG00000149639 | 0.00 | 0.00 | 0 | 0 |
| SPINT4 | ENSG00000149651 | 0.00 | 0.00 | 0 | 0 |
| GPHA2 | ENSG00000149735 | 0.00 | 0.00 | 0 | 0 |
| TAOK2 | ENSG00000149930 | 0.17 | 0.00 | 1 | 0 |
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