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 
OR4M1ENSG00000176299  0.00    0.00    0.00    0.03    0.00    0.00    0.01    0.02    0.10    0.05    0.00    0.00    0.00    0.05    0.16    0.04    0.20    0.07    0.09    0.06    0.11    0.07    0.07    0.04    0.03    0.02    0.01    0.09    0.01    0.04    0.08    0.00    0.00    0.02    0.13    0.03    0.01    0.02    0.00    0.00    0.10    0.03    0.40    0.12    0.07    0.02    0.08    0.03    0.21    0.08    0.17    0.09    0.02    0.01    0.00    0.01    0.01    0.00    0.02    0.03    0.01    0.09    0.00    0.00    0.03    0.03  
OR4H12PENSG00000176312  0.00    0.00    0.00    0.03    0.00    0.00    0.01    0.02    0.10    0.05    0.00    0.00    0.00    0.05    0.16    0.04    0.20    0.07    0.09    0.06    0.11    0.07    0.07    0.04    0.03    0.02    0.01    0.09    0.01    0.04    0.08    0.00    0.00    0.02    0.13    0.03    0.01    0.02    0.00    0.00    0.10    0.03    0.40    0.12    0.07    0.02    0.08    0.03    0.21    0.08    0.17    0.09    0.02    0.01    0.00    0.01    0.01    0.00    0.02    0.03    0.01    0.09    0.00    0.00    0.03    0.03  
TAC4ENSG00000176358  0.00    0.00    0.03    0.00    0.00    0.00    0.02    0.01    0.12    0.01    0.00    0.00    0.09    0.00    0.09    0.00    0.10    0.01    0.02    0.01    0.14    0.01    0.10    0.01    0.03    0.01    0.06    0.04    0.04    0.02    0.05    0.01    0.02    0.01    0.04    0.04    0.01    0.04    0.00    0.00    0.46    0.03    0.16    0.04    0.06    0.00    0.06    0.03    0.19    0.02    0.11    0.05    0.02    0.00    0.00    0.00    0.00    0.00    0.02    0.01    0.02    0.01    0.03    0.03    0.12    0.01  
RNPEPENSG00000176393  0.02    0.00    0.00    0.00    0.00    0.00    0.01    0.01    0.04    0.09    0.02    0.00    0.10    0.00    0.13    0.01    0.08    0.01    0.05    0.01    0.16    0.05    0.07    0.02    0.04    0.01    0.07    0.06    0.01    0.00    0.19    0.01    0.18    0.02    0.06    0.04    0.02    0.00    0.00    0.00    0.22    0.01    0.34    0.07    0.06    0.00    0.13    0.02    0.23    0.03    0.09    0.12    0.08    0.00    0.01    0.00    0.26    0.02    0.00    0.01    0.03    0.01    0.09    0.00    0.19    0.01  
CLEC14AENSG00000176435  0.00    0.00    0.00    0.00    0.00    0.00    0.03    0.00    0.02    0.06    0.00    0.00    0.00    0.02    0.57    0.01    0.14    0.06    0.05    0.03    0.21    0.04    0.10    0.01    0.03    0.02    0.02    0.03    0.01    0.01    0.04    0.04    0.05    0.07    0.09    0.02    0.01    0.01    0.00    0.00    0.14    0.02    0.12    0.11    0.08    0.01    0.04    0.02    0.01    0.03    0.18    0.04    0.02    0.01    0.00    0.00    0.00    0.00    0.01    0.00    0.00    0.08    0.00    0.00    0.01    0.01  
OR5AN1ENSG00000176495  0.01    0.00    0.00    0.01    0.09    0.00    0.02    0.01    0.10    0.02    0.00    0.00    0.07    0.04    0.03    0.03    0.07    0.02    0.10    0.03    0.09    0.04    0.01    0.04    0.01    0.01    0.03    0.02    0.00    0.02    0.02    0.02    0.04    0.07    0.06    0.00    0.02    0.02    0.00    0.00    0.11    0.07    0.12    0.05    0.05    0.02    0.04    0.02    0.14    0.17    0.05    0.05    0.00    0.07    0.00    0.00    0.00    0.02    0.00    0.02    0.00    0.03    0.00    0.00    0.06    0.03  
OR10AC1ENSG00000176510  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    0.05    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    0.04    0.05    0.10    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    0.21    0.02  
OR4C5ENSG00000176540  0.00    0.00    0.00    0.00    0.05    0.00    0.01    0.07    0.04    0.05    0.00    0.02    0.00    0.01    0.04    0.02    0.08    0.03    0.06    0.02    0.08    0.07    0.04    0.01    0.00    0.01    0.02    0.01    0.01    0.02    0.02    0.00    0.00    0.11    0.07    0.02    0.00    0.04    0.00    0.00    0.08    0.03    0.10    0.06    0.05    0.03    0.03    0.02    0.05    0.07    0.09    0.07    0.00    0.04    0.00    0.00    0.00    0.00    0.00    0.02    0.01    0.04    0.00    0.02    0.01    0.04  
OR4C3ENSG00000176547  0.00    0.00    0.00    0.00    0.05    0.00    0.00    0.07    0.04    0.05    0.00    0.01    0.00    0.01    0.04    0.02    0.08    0.03    0.05    0.02    0.08    0.05    0.04    0.01    0.00    0.01    0.02    0.00    0.01    0.02    0.02    0.00    0.00    0.07    0.07    0.02    0.00    0.03    0.00    0.00    0.07    0.03    0.09    0.06    0.05    0.03    0.03    0.02    0.05    0.07    0.09    0.07    0.00    0.04    0.00    0.00    0.00    0.00    0.01    0.02    0.01    0.04    0.00    0.02    0.01    0.04  
OR4S1ENSG00000176555  0.01    0.00    0.00    0.00    0.05    0.00    0.00    0.07    0.04    0.05    0.00    0.01    0.00    0.01    0.04    0.02    0.08    0.03    0.05    0.02    0.08    0.05    0.04    0.01    0.00    0.01    0.02    0.00    0.01    0.02    0.02    0.00    0.00    0.07    0.07    0.02    0.00    0.03    0.00    0.00    0.07    0.03    0.09    0.06    0.05    0.03    0.03    0.02    0.05    0.07    0.09    0.07    0.00    0.04    0.00    0.00    0.00    0.00    0.01    0.02    0.01    0.04    0.00    0.02    0.01    0.04  
OR4X1ENSG00000176567  0.01    0.00    0.00    0.00    0.05    0.00    0.00    0.07    0.04    0.05    0.00    0.01    0.00    0.02    0.04    0.02    0.08    0.03    0.05    0.02    0.08    0.04    0.04    0.01    0.00    0.01    0.03    0.00    0.01    0.02    0.02    0.00    0.00    0.07    0.07    0.02    0.00    0.03    0.00    0.00    0.07    0.03    0.09    0.06    0.05    0.03    0.03    0.02    0.05    0.07    0.09    0.07    0.00    0.04    0.00    0.00    0.00    0.00    0.01    0.02    0.01    0.04    0.00    0.02    0.01    0.04  
KBTBD11ENSG00000176595  0.00    0.02    0.00    0.01    0.04    0.01    0.01    0.09    0.01    0.14    0.00    0.00    0.04    0.06    0.03    0.08    0.02    0.18    0.02    0.09    0.07    0.09    0.05    0.06    0.02    0.10    0.00    0.24    0.02    0.05    0.02    0.12    0.00    0.01    0.04    0.05    0.00    0.04    0.00    0.00    0.04    0.19    0.06    0.49    0.00    0.08    0.01    0.11    0.10    0.24    0.06    0.22    0.06    0.03    0.00    0.00    0.03    0.04    0.01    0.02    0.01    0.03    0.00    0.01    0.04    0.06  
OR4F17ENSG00000176695  0.00    0.01    0.00    0.02    0.00    0.00    0.00    0.02    0.02    0.15    0.05    0.00    0.03    0.09    0.03    0.11    0.03    0.16    0.02    0.15    0.07    0.19    0.04    0.08    0.02    0.05    0.01    0.09    0.02    0.07    0.02    0.13    0.00    0.03    0.12    0.01    0.01    0.01    0.00    0.01    0.03    0.17    0.03    0.90    0.05    0.22    0.03    0.26    0.00    0.84    0.21    0.27    0.01    0.01    0.02    0.02    0.05    0.00    0.04    0.02    0.07    0.02    0.01    0.03    0.03    0.07  
OR51V1ENSG00000176742  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    0.01    0.06    0.02    0.14    0.01    0.06    0.02    0.11    0.03    0.06    0.01    0.01    0.01    0.02    0.00    0.05    0.03    0.03    0.03    0.01    0.01    0.07    0.03    0.07    0.00    0.00    0.02    0.10    0.01    0.43    0.01    0.05    0.02    0.07    0.03    0.09    0.04    0.14    0.02    0.00    0.00    0.00    0.05    0.00    0.01    0.10    0.01    0.05    0.00    0.00    0.01    0.03  
OR52Z1ENSG00000176748  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    0.01    0.06    0.02    0.14    0.01    0.06    0.02    0.11    0.03    0.06    0.01    0.01    0.01    0.02    0.00    0.05    0.03    0.03    0.03    0.01    0.01    0.07    0.03    0.07    0.00    0.00    0.02    0.10    0.01    0.43    0.01    0.05    0.02    0.07    0.03    0.09    0.04    0.13    0.02    0.00    0.00    0.00    0.05    0.00    0.01    0.10    0.01    0.05    0.00    0.00    0.01    0.03  
CDK5R1ENSG00000176749  0.00    0.00    0.01    0.00    0.00    0.00    0.00    0.02    0.23    0.02    0.01    0.01    0.00    0.05    0.07    0.01    0.05    0.03    0.04    0.02    0.17    0.00    0.15    0.01    0.05    0.01    0.07    0.01    0.08    0.02    0.05    0.03    0.08    0.01    0.01    0.07    0.00    0.18    0.00    0.00    0.17    0.08    0.04    0.19    0.01    0.02    0.06    0.06    0.15    0.07    0.04    0.16    0.00    0.01    0.00    0.01    0.04    0.00    0.00    0.02    0.01    0.03    0.00    0.03    0.03    0.03  
DEFB104AENSG00000176782  0.00    0.02    0.01    0.01    0.00    0.01    0.01    0.12    0.01    0.15    0.00    0.00    0.02    0.04    0.03    0.07    0.01    0.14    0.00    0.08    0.09    0.08    0.12    0.04    0.02    0.10    0.00    0.20    0.01    0.05    0.01    0.14    0.00    0.01    0.04    0.02    0.00    0.02    0.00    0.00    0.02    0.16    0.03    0.42    0.01    0.05    0.00    0.09    0.13    0.28    0.05    0.13    0.01    0.01    0.00    0.00    0.00    0.08    0.00    0.01    0.01    0.02    0.00    0.01    0.02    0.03  
OR52E2ENSG00000176787  0.00    0.00    0.00    0.00    0.00    0.03    0.00    0.02    0.01    0.09    0.00    0.00    0.03    0.05    0.01    0.06    0.02    0.14    0.01    0.07    0.04    0.10    0.02    0.05    0.01    0.01    0.01    0.02    0.00    0.05    0.03    0.03    0.03    0.01    0.01    0.07    0.03    0.07    0.00    0.00    0.02    0.10    0.01    0.43    0.01    0.05    0.02    0.07    0.03    0.09    0.04    0.13    0.02    0.00    0.00    0.00    0.05    0.00    0.01    0.10    0.01    0.05    0.00    0.00    0.01    0.03  
DEFB103AENSG00000176797  0.00    0.02    0.01    0.01    0.00    0.01    0.01    0.12    0.01    0.15    0.00    0.00    0.02    0.04    0.03    0.07    0.01    0.14    0.00    0.08    0.09    0.08    0.12    0.04    0.02    0.10    0.00    0.20    0.01    0.05    0.01    0.14    0.00    0.01    0.04    0.02    0.00    0.02    0.00    0.00    0.02    0.16    0.03    0.42    0.01    0.05    0.00    0.09    0.13    0.28    0.05    0.13    0.01    0.01    0.00    0.00    0.00    0.08    0.00    0.01    0.01    0.02    0.00    0.01    0.02    0.03  
OR51L1ENSG00000176798  0.00    0.00    0.00    0.00    0.00    0.03    0.00    0.02    0.01    0.09    0.00    0.00    0.03    0.05    0.01    0.06    0.02    0.14    0.01    0.07    0.04    0.10    0.02    0.05    0.01    0.01    0.01    0.02    0.00    0.05    0.03    0.03    0.03    0.01    0.01    0.07    0.03    0.07    0.00    0.00    0.02    0.10    0.01    0.43    0.01    0.05    0.02    0.07    0.03    0.09    0.04    0.13    0.02    0.00    0.00    0.00    0.05    0.00    0.01    0.10    0.01    0.05    0.00    0.00    0.01    0.03  

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