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).

 

Summary of the G-score of the PDGs in each cancer type


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KIRCKIRPKICHPRADBLCATHYMMESOLUADLUSCHNSCESCASTADCOADREADPAADLIHCCHOLACCPCPGTHCABRCAOVCESCUCECUCSSARCTGCTLAMLDLBCLGGGBMUVMSKCM
 HGNC Symbol  Ensembl Gene ID  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del  Amp  Del 
OR1F12ENSG00000220721  0.00    0.01    0.00    0.01    0.00    0.00    0.01    0.01    0.18    0.02    0.00    0.00    0.02    0.05    0.06    0.02    0.06    0.06    0.02    0.04    0.09    0.09    0.07    0.05    0.04    0.02    0.06    0.02    0.02    0.03    0.10    0.01    0.06    0.01    0.04    0.00    0.00    0.00    0.00    0.00    0.09    0.03    0.34    0.05    0.08    0.03    0.05    0.01    0.26    0.02    0.04    0.05    0.01    0.01    0.00    0.00    0.05    0.01    0.01    0.01    0.00    0.01    0.13    0.00    0.14    0.01  
OR6B1ENSG00000221813  0.03    0.01    0.05    0.00    0.05    0.02    0.02    0.03    0.05    0.03    0.00    0.01    0.04    0.05    0.07    0.02    0.09    0.07    0.02    0.15    0.03    0.21    0.03    0.09    0.04    0.00    0.01    0.02    0.02    0.04    0.05    0.05    0.00    0.11    0.06    0.06    0.00    0.02    0.01    0.00    0.08    0.05    0.54    0.05    0.03    0.09    0.04    0.05    0.05    0.14    0.13    0.12    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.01    0.04    0.02    0.00    0.03    0.19    0.02  
OR2A5ENSG00000221836  0.03    0.01    0.05    0.00    0.05    0.02    0.02    0.03    0.05    0.03    0.00    0.01    0.04    0.03    0.07    0.02    0.09    0.07    0.02    0.15    0.07    0.21    0.03    0.09    0.04    0.00    0.01    0.02    0.02    0.04    0.05    0.05    0.00    0.11    0.06    0.06    0.00    0.02    0.00    0.00    0.08    0.05    0.53    0.05    0.03    0.09    0.04    0.05    0.07    0.14    0.13    0.12    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.01    0.04    0.02    0.00    0.03    0.19    0.02  
OR4A5ENSG00000221840  0.00    0.00    0.00    0.01    0.05    0.00    0.00    0.03    0.09    0.04    0.02    0.01    0.00    0.03    0.03    0.03    0.06    0.03    0.06    0.01    0.06    0.05    0.02    0.04    0.00    0.01    0.01    0.02    0.00    0.01    0.01    0.02    0.00    0.07    0.07    0.00    0.00    0.01    0.00    0.00    0.05    0.07    0.07    0.06    0.03    0.02    0.02    0.03    0.21    0.03    0.06    0.05    0.00    0.03    0.00    0.00    0.00    0.02    0.01    0.02    0.01    0.02    0.03    0.02    0.02    0.04  
TAS2R41ENSG00000221855  0.02    0.01    0.05    0.00    0.05    0.02    0.02    0.03    0.05    0.03    0.00    0.01    0.04    0.05    0.07    0.02    0.08    0.07    0.02    0.15    0.03    0.21    0.02    0.09    0.03    0.00    0.02    0.03    0.02    0.05    0.04    0.05    0.00    0.11    0.06    0.06    0.00    0.02    0.00    0.00    0.08    0.05    0.54    0.05    0.03    0.09    0.05    0.05    0.10    0.14    0.13    0.11    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.01    0.04    0.02    0.00    0.03    0.21    0.02  
OR2A12ENSG00000221858  0.03    0.01    0.05    0.00    0.05    0.02    0.02    0.03    0.05    0.04    0.00    0.01    0.04    0.03    0.07    0.02    0.09    0.07    0.02    0.15    0.08    0.21    0.03    0.09    0.04    0.00    0.01    0.02    0.02    0.04    0.05    0.05    0.00    0.11    0.06    0.06    0.00    0.02    0.00    0.00    0.08    0.05    0.53    0.05    0.03    0.09    0.04    0.05    0.07    0.14    0.13    0.12    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.01    0.04    0.02    0.00    0.03    0.19    0.02  
OR3A2ENSG00000221882  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.06    0.04    0.03    0.00    0.00    0.01    0.02    0.01    0.07    0.02    0.02    0.01    0.03    0.03    0.04    0.01    0.02    0.01    0.01    0.00    0.00    0.00    0.03    0.01    0.12    0.00    0.08    0.02    0.03    0.00    0.03    0.00    0.00    0.03    0.05    0.14    0.10    0.01    0.03    0.03    0.04    0.06    0.13    0.16    0.23    0.00    0.02    0.00    0.03    0.00    0.06    0.00    0.00    0.00    0.05    0.00    0.00    0.02    0.03  
HMSDENSG00000221887  0.00    0.01    0.00    0.00    0.00    0.00    0.00    0.10    0.01    0.09    0.00    0.00    0.00    0.02    0.03    0.09    0.05    0.06    0.02    0.15    0.06    0.19    0.02    0.16    0.00    0.12    0.01    0.12    0.01    0.08    0.02    0.06    0.00    0.10    0.01    0.02    0.00    0.00    0.00    0.00    0.08    0.05    0.07    0.34    0.02    0.03    0.00    0.07    0.01    0.11    0.09    0.07    0.00    0.07    0.00    0.00    0.10    0.00    0.01    0.02    0.00    0.03    0.00    0.01    0.03    0.01  
OR1C1ENSG00000221888  0.01    0.02    0.01    0.01    0.00    0.01    0.02    0.04    0.14    0.04    0.02    0.02    0.08    0.05    0.13    0.01    0.17    0.03    0.10    0.02    0.27    0.04    0.13    0.01    0.04    0.02    0.08    0.01    0.02    0.01    0.20    0.02    0.23    0.02    0.10    0.07    0.00    0.04    0.00    0.00    0.29    0.02    0.48    0.12    0.13    0.01    0.12    0.02    0.32    0.00    0.09    0.24    0.06    0.02    0.01    0.00    0.03    0.18    0.02    0.04    0.02    0.04    0.15    0.03    0.24    0.02  
OR2F2ENSG00000221910  0.02    0.01    0.05    0.00    0.05    0.02    0.02    0.03    0.05    0.03    0.00    0.01    0.04    0.05    0.07    0.02    0.09    0.07    0.02    0.15    0.03    0.21    0.03    0.09    0.04    0.00    0.01    0.02    0.02    0.04    0.05    0.05    0.00    0.11    0.06    0.06    0.00    0.02    0.01    0.00    0.08    0.05    0.54    0.05    0.03    0.09    0.04    0.05    0.05    0.14    0.13    0.12    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.01    0.04    0.02    0.00    0.03    0.20    0.02  
TRIM16ENSG00000221926  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.04    0.02    0.12    0.00    0.01    0.00    0.03    0.04    0.05    0.01    0.03    0.04    0.02    0.04    0.08    0.01    0.06    0.00    0.03    0.00    0.07    0.05    0.00    0.00    0.07    0.00    0.04    0.02    0.00    0.01    0.01    0.00    0.00    0.03    0.06    0.02    0.16    0.02    0.05    0.01    0.07    0.15    0.19    0.67    0.04    0.07    0.02    0.00    0.01    0.00    0.00    0.00    0.00    0.00    0.02    0.00    0.02    0.02    0.03  
OR6X1ENSG00000221931  0.00    0.01    0.00    0.05    0.02    0.02    0.02    0.06    0.03    0.10    0.00    0.00    0.13    0.06    0.05    0.09    0.05    0.10    0.04    0.14    0.05    0.13    0.05    0.08    0.01    0.01    0.01    0.03    0.01    0.02    0.00    0.09    0.00    0.19    0.00    0.04    0.00    0.05    0.00    0.00    0.03    0.22    0.17    0.17    0.04    0.31    0.04    0.07    0.05    0.17    0.02    0.23    0.00    0.24    0.03    0.00    0.13    0.02    0.06    0.01    0.01    0.01    0.00    0.07    0.00    0.26  
OR2A25ENSG00000221933  0.03    0.01    0.05    0.00    0.05    0.02    0.02    0.03    0.05    0.03    0.00    0.01    0.04    0.03    0.07    0.02    0.09    0.07    0.02    0.15    0.07    0.21    0.03    0.09    0.04    0.00    0.01    0.02    0.02    0.04    0.05    0.05    0.00    0.11    0.06    0.06    0.00    0.02    0.00    0.00    0.08    0.05    0.53    0.05    0.03    0.09    0.04    0.05    0.07    0.14    0.13    0.12    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.01    0.04    0.02    0.00    0.03    0.19    0.02  
TAS2R40ENSG00000221937  0.01    0.01    0.05    0.00    0.05    0.02    0.02    0.03    0.05    0.03    0.00    0.01    0.04    0.03    0.08    0.02    0.08    0.06    0.02    0.15    0.03    0.20    0.02    0.10    0.03    0.00    0.01    0.03    0.02    0.04    0.04    0.05    0.00    0.11    0.06    0.09    0.00    0.02    0.00    0.00    0.09    0.04    0.53    0.04    0.03    0.09    0.05    0.05    0.10    0.14    0.12    0.11    0.02    0.04    0.00    0.05    0.02    0.09    0.11    0.01    0.04    0.02    0.00    0.03    0.21    0.02  
OR2A14ENSG00000221938  0.03    0.01    0.05    0.00    0.05    0.02    0.03    0.03    0.05    0.04    0.00    0.01    0.04    0.03    0.07    0.02    0.10    0.07    0.02    0.15    0.08    0.21    0.03    0.09    0.02    0.01    0.01    0.02    0.02    0.04    0.05    0.05    0.00    0.11    0.06    0.06    0.00    0.02    0.00    0.00    0.08    0.05    0.53    0.05    0.03    0.09    0.04    0.05    0.07    0.14    0.13    0.12    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.01    0.04    0.02    0.00    0.03    0.19    0.02  
OR4C12ENSG00000221954  0.00    0.00    0.00    0.00    0.05    0.00    0.00    0.04    0.08    0.05    0.02    0.01    0.00    0.00    0.04    0.02    0.10    0.03    0.07    0.01    0.08    0.05    0.02    0.01    0.00    0.01    0.02    0.02    0.04    0.01    0.01    0.00    0.00    0.05    0.07    0.01    0.00    0.03    0.00    0.00    0.08    0.03    0.10    0.05    0.02    0.02    0.03    0.03    0.25    0.07    0.07    0.05    0.00    0.02    0.00    0.00    0.00    0.00    0.01    0.02    0.01    0.03    0.03    0.02    0.02    0.05  
KIR2DS4ENSG00000221957  0.01    0.00    0.00    0.02    0.00    0.00    0.03    0.00    0.20    0.02    0.00    0.00    0.01    0.04    0.05    0.05    0.09    0.09    0.05    0.02    0.12    0.03    0.10    0.03    0.02    0.02    0.01    0.04    0.03    0.04    0.06    0.02    0.02    0.07    0.21    0.00    0.00    0.03    0.00    0.00    0.15    0.03    0.17    0.26    0.12    0.06    0.06    0.05    0.25    0.10    0.05    0.18    0.00    0.06    0.01    0.00    0.13    0.03    0.01    0.18    0.02    0.12    0.00    0.00    0.04    0.04  
OR4E2ENSG00000221977  0.00    0.00    0.00    0.02    0.00    0.00    0.00    0.03    0.10    0.06    0.00    0.00    0.00    0.02    0.14    0.02    0.12    0.08    0.07    0.07    0.09    0.08    0.07    0.04    0.03    0.02    0.01    0.07    0.01    0.04    0.07    0.00    0.00    0.02    0.27    0.03    0.00    0.02    0.00    0.00    0.08    0.03    0.35    0.12    0.10    0.02    0.06    0.04    0.08    0.10    0.15    0.06    0.02    0.01    0.00    0.01    0.00    0.00    0.03    0.03    0.01    0.10    0.00    0.00    0.03    0.02  
OR2A2ENSG00000221989  0.03    0.01    0.05    0.00    0.05    0.02    0.02    0.03    0.05    0.04    0.00    0.01    0.04    0.03    0.07    0.02    0.09    0.07    0.02    0.15    0.08    0.21    0.03    0.09    0.04    0.01    0.01    0.02    0.02    0.04    0.05    0.05    0.00    0.11    0.06    0.06    0.00    0.02    0.00    0.00    0.08    0.05    0.53    0.05    0.03    0.09    0.04    0.05    0.07    0.14    0.13    0.12    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.01    0.04    0.02    0.00    0.03    0.19    0.02  
OR52B4ENSG00000221996  0.00    0.00    0.00    0.00    0.00    0.03    0.00    0.02    0.01    0.09    0.00    0.00    0.02    0.05    0.02    0.06    0.02    0.15    0.01    0.07    0.02    0.10    0.01    0.05    0.01    0.01    0.01    0.02    0.00    0.05    0.04    0.03    0.03    0.04    0.01    0.07    0.03    0.07    0.01    0.00    0.02    0.10    0.02    0.44    0.01    0.05    0.02    0.06    0.03    0.09    0.05    0.14    0.02    0.00    0.00    0.00    0.05    0.00    0.01    0.10    0.01    0.06    0.00    0.00    0.01    0.03  

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