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 
IGKV5-2ENSG00000211599  0.00    0.00    0.00    0.02    0.00    0.00    0.01    0.03    0.07    0.01    0.00    0.00    0.00    0.02    0.03    0.02    0.09    0.02    0.07    0.02    0.10    0.01    0.01    0.01    0.00    0.00    0.01    0.02    0.00    0.01    0.02    0.02    0.00    0.02    0.08    0.01    0.00    0.01    0.00    0.00    0.04    0.02    0.11    0.05    0.04    0.01    0.05    0.02    0.08    0.02    0.20    0.05    0.01    0.04    0.00    0.00    0.00    0.04    0.00    0.00    0.00    0.01    0.00    0.00    0.03    0.01  
IGLV4-69ENSG00000211637  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV4-60ENSG00000211639  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV10-54ENSG00000211642  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV1-51ENSG00000211644  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV7-46ENSG00000211649  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV5-45ENSG00000211650  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV1-44ENSG00000211651  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV7-43ENSG00000211652  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV1-40ENSG00000211653  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV1-36ENSG00000211655  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV3-27ENSG00000211658  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV3-25ENSG00000211659  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV2-23ENSG00000211660  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.04    0.03    0.01    0.03    0.05    0.14    0.03    0.26    0.03    0.09    0.01    0.06    0.02    0.06    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.06    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.24    0.08    0.04    0.00    0.07    0.03    0.32    0.03    0.18    0.05    0.25    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.03    0.03    0.00    0.00    0.12    0.03  
IGLV2-11ENSG00000211668  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.20    0.04    0.02    0.01    0.01    0.05    0.10    0.03    0.18    0.03    0.05    0.01    0.07    0.02    0.04    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.04    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.19    0.08    0.02    0.00    0.07    0.03    0.39    0.03    0.14    0.05    0.22    0.02    0.00    0.00    0.00    0.00    0.02    0.01    0.01    0.03    0.00    0.00    0.10    0.03  
IGLC2ENSG00000211677  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.20    0.04    0.02    0.01    0.01    0.05    0.10    0.03    0.18    0.03    0.05    0.01    0.07    0.02    0.04    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.04    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.19    0.08    0.02    0.00    0.07    0.03    0.39    0.03    0.14    0.05    0.22    0.02    0.00    0.00    0.00    0.00    0.02    0.01    0.01    0.03    0.00    0.00    0.10    0.03  
IGLC3ENSG00000211679  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.20    0.04    0.02    0.01    0.01    0.05    0.10    0.03    0.18    0.03    0.05    0.01    0.07    0.02    0.04    0.02    0.02    0.01    0.05    0.05    0.00    0.04    0.01    0.04    0.03    0.05    0.04    0.06    0.00    0.01    0.00    0.00    0.06    0.04    0.19    0.08    0.02    0.00    0.07    0.03    0.39    0.03    0.14    0.05    0.22    0.02    0.00    0.00    0.00    0.00    0.02    0.01    0.01    0.03    0.00    0.00    0.10    0.03  
IGHA2ENSG00000211890  0.00    0.02    0.01    0.01    0.01    0.04    0.02    0.03    0.08    0.07    0.00    0.00    0.00    0.07    0.06    0.07    0.20    0.03    0.07    0.05    0.09    0.08    0.03    0.07    0.01    0.03    0.03    0.04    0.02    0.02    0.01    0.14    0.04    0.31    0.16    0.00    0.01    0.03    0.00    0.00    0.07    0.07    0.37    0.17    0.07    0.08    0.09    0.02    0.07    0.05    0.14    0.06    0.03    0.01    0.00    0.00    0.08    0.03    0.01    0.07    0.02    0.05    0.03    0.03    0.01    0.07  
IGHEENSG00000211891  0.00    0.02    0.01    0.01    0.01    0.04    0.02    0.03    0.08    0.07    0.00    0.00    0.00    0.07    0.06    0.07    0.20    0.03    0.07    0.05    0.09    0.08    0.03    0.07    0.01    0.03    0.03    0.04    0.02    0.02    0.01    0.14    0.04    0.31    0.16    0.00    0.01    0.03    0.00    0.00    0.07    0.07    0.37    0.17    0.07    0.08    0.09    0.02    0.07    0.05    0.14    0.06    0.03    0.01    0.00    0.00    0.08    0.03    0.01    0.07    0.02    0.05    0.03    0.03    0.01    0.07  
IGHG4ENSG00000211892  0.00    0.02    0.01    0.01    0.01    0.04    0.02    0.03    0.08    0.07    0.00    0.00    0.00    0.07    0.06    0.07    0.20    0.03    0.07    0.05    0.09    0.08    0.03    0.07    0.01    0.03    0.03    0.04    0.02    0.02    0.01    0.14    0.04    0.31    0.16    0.00    0.01    0.03    0.00    0.00    0.07    0.07    0.37    0.17    0.07    0.08    0.09    0.02    0.07    0.05    0.14    0.06    0.03    0.01    0.00    0.00    0.08    0.03    0.01    0.07    0.02    0.05    0.03    0.03    0.01    0.07  

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