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 
USP2ENSG00000036672  0.01    0.01    0.00    0.05    0.02    0.02    0.01    0.08    0.03    0.11    0.00    0.00    0.11    0.06    0.05    0.08    0.05    0.09    0.04    0.16    0.03    0.12    0.06    0.07    0.00    0.01    0.00    0.03    0.01    0.02    0.01    0.09    0.00    0.17    0.00    0.05    0.00    0.06    0.00    0.00    0.02    0.22    0.16    0.14    0.04    0.31    0.05    0.05    0.11    0.17    0.04    0.24    0.00    0.15    0.03    0.01    0.13    0.05    0.06    0.01    0.02    0.01    0.01    0.07    0.00    0.27  
MAPK15ENSG00000181085  0.02    0.00    0.02    0.01    0.06    0.00    0.05    0.02    0.19    0.03    0.02    0.00    0.10    0.04    0.25    0.01    0.36    0.02    0.28    0.01    0.41    0.03    0.20    0.02    0.15    0.03    0.24    0.03    0.13    0.01    0.35    0.01    0.25    0.01    0.09    0.00    0.01    0.03    0.00    0.01    0.41    0.04    1.50    0.04    0.21    0.01    0.12    0.02    0.24    0.03    0.19    0.08    0.05    0.03    0.02    0.00    0.26    0.01    0.17    0.05    0.03    0.03    0.50    0.00    0.24    0.02  
SPOCK2ENSG00000107742  0.00    0.01    0.00    0.01    0.03    0.00    0.01    0.04    0.04    0.03    0.00    0.00    0.01    0.00    0.03    0.02    0.08    0.03    0.04    0.03    0.08    0.02    0.15    0.02    0.03    0.03    0.09    0.03    0.01    0.00    0.04    0.02    0.25    0.01    0.02    0.01    0.00    0.00    0.00    0.01    0.11    0.03    0.19    0.12    0.00    0.01    0.10    0.03    0.25    0.03    0.05    0.11    0.01    0.00    0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.03    0.00    0.00    0.00    0.01  
HHATENSG00000054392  0.01    0.01    0.00    0.01    0.00    0.00    0.01    0.05    0.07    0.06    0.01    0.00    0.07    0.03    0.11    0.01    0.10    0.02    0.05    0.01    0.16    0.06    0.05    0.03    0.03    0.01    0.08    0.03    0.00    0.00    0.14    0.02    0.16    0.02    0.01    0.05    0.01    0.00    0.00    0.00    0.21    0.01    0.15    0.17    0.06    0.01    0.06    0.03    0.13    0.04    0.04    0.20    0.02    0.03    0.01    0.00    0.16    0.04    0.00    0.01    0.02    0.04    0.09    0.00    0.12    0.03  
SIRT5ENSG00000124523  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.01    0.41    0.04    0.00    0.01    0.02    0.02    0.08    0.01    0.09    0.07    0.05    0.05    0.13    0.17    0.03    0.09    0.02    0.03    0.01    0.03    0.00    0.07    0.15    0.01    0.06    0.03    0.01    0.01    0.00    0.01    0.00    0.00    0.19    0.03    0.51    0.05    0.09    0.05    0.07    0.02    0.28    0.02    0.06    0.13    0.04    0.03    0.00    0.00    0.05    0.04    0.01    0.03    0.01    0.02    0.25    0.00    0.22    0.00  
GABRA3ENSG00000011677  0.03    0.01    0.01    0.00    0.01    0.00    0.02    0.00    0.11    0.04    0.06    0.00    0.06    0.01    0.21    0.01    0.18    0.02    0.14    0.00    0.18    0.02    0.17    0.02    0.04    0.01    0.10    0.02    0.06    0.02    0.10    0.03    0.10    0.01    0.15    0.03    0.00    0.00    0.00    0.00    0.09    0.03    0.41    0.10    0.21    0.02    0.09    0.02    0.16    0.07    0.19    0.08    0.01    0.02    0.00    0.00    0.15    0.04    0.02    0.03    0.03    0.01    0.05    0.00    0.08    0.01  
ATP8A1ENSG00000124406  0.01    0.00    0.00    0.00    0.02    0.00    0.01    0.06    0.03    0.03    0.00    0.00    0.00    0.02    0.09    0.02    0.06    0.04    0.04    0.01    0.08    0.02    0.02    0.04    0.01    0.01    0.05    0.05    0.01    0.01    0.04    0.01    0.00    0.07    0.03    0.02    0.00    0.00    0.00    0.00    0.04    0.03    0.09    0.08    0.00    0.02    0.01    0.03    0.13    0.07    0.07    0.04    0.00    0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.02    0.02    0.05    0.00    0.07    0.02  
SLC16A5ENSG00000170190  0.02    0.00    0.05    0.00    0.02    0.00    0.03    0.02    0.22    0.00    0.00    0.01    0.09    0.02    0.17    0.01    0.24    0.01    0.09    0.03    0.26    0.06    0.13    0.03    0.03    0.01    0.04    0.02    0.05    0.09    0.26    0.00    0.08    0.01    0.13    0.02    0.02    0.01    0.00    0.00    0.37    0.03    0.36    0.03    0.25    0.02    0.16    0.01    0.54    0.00    0.25    0.03    0.04    0.00    0.00    0.00    0.00    0.00    0.07    0.00    0.06    0.01    0.14    0.01    0.24    0.02  
LTBP1ENSG00000049323  0.00    0.00    0.04    0.01    0.00    0.00    0.02    0.07    0.07    0.00    0.00    0.00    0.03    0.08    0.06    0.02    0.08    0.02    0.03    0.01    0.04    0.06    0.03    0.04    0.00    0.01    0.00    0.05    0.01    0.03    0.06    0.01    0.00    0.05    0.01    0.05    0.00    0.01    0.00    0.00    0.06    0.02    0.22    0.06    0.09    0.00    0.08    0.02    0.21    0.00    0.06    0.06    0.12    0.02    0.00    0.00    0.00    0.05    0.00    0.00    0.01    0.01    0.03    0.00    0.02    0.02  
BRD1ENSG00000100425  0.00    0.00    0.01    0.01    0.00    0.03    0.01    0.03    0.01    0.12    0.00    0.03    0.00    0.06    0.02    0.12    0.06    0.09    0.02    0.04    0.03    0.03    0.03    0.07    0.00    0.04    0.01    0.09    0.01    0.10    0.07    0.07    0.01    0.01    0.00    0.00    0.00    0.06    0.00    0.01    0.06    0.06    0.02    0.64    0.03    0.07    0.03    0.15    0.06    0.27    0.06    0.15    0.00    0.04    0.00    0.00    0.00    0.09    0.00    0.05    0.00    0.10    0.00    0.00    0.12    0.05  
ITGB4ENSG00000132470  0.02    0.00    0.05    0.00    0.02    0.00    0.04    0.03    0.21    0.00    0.00    0.01    0.09    0.02    0.16    0.01    0.25    0.02    0.10    0.03    0.23    0.07    0.11    0.04    0.04    0.01    0.06    0.02    0.04    0.10    0.26    0.00    0.08    0.01    0.14    0.02    0.02    0.01    0.00    0.00    0.37    0.03    0.35    0.03    0.23    0.02    0.24    0.01    0.81    0.00    0.24    0.02    0.04    0.00    0.00    0.00    0.02    0.00    0.09    0.00    0.07    0.01    0.17    0.01    0.24    0.02  
SYNJ2ENSG00000078269  0.00    0.06    0.00    0.01    0.00    0.05    0.00    0.03    0.03    0.08    0.00    0.02    0.00    0.15    0.01    0.07    0.07    0.05    0.03    0.03    0.09    0.06    0.06    0.07    0.02    0.01    0.03    0.03    0.00    0.03    0.01    0.11    0.00    0.18    0.14    0.03    0.00    0.02    0.00    0.00    0.06    0.12    0.05    0.45    0.00    0.09    0.05    0.04    0.08    0.05    0.23    0.04    0.01    0.05    0.00    0.00    0.06    0.02    0.00    0.05    0.01    0.11    0.05    0.10    0.02    0.15  
GPR39ENSG00000183840  0.01    0.00    0.00    0.00    0.00    0.00    0.01    0.18    0.06    0.04    0.00    0.01    0.00    0.02    0.02    0.01    0.07    0.03    0.05    0.04    0.08    0.11    0.05    0.05    0.00    0.02    0.01    0.00    0.02    0.01    0.01    0.03    0.10    0.03    0.06    0.04    0.00    0.00    0.00    0.00    0.02    0.06    0.09    0.17    0.04    0.02    0.02    0.01    0.07    0.00    0.13    0.03    0.01    0.01    0.00    0.00    0.00    0.12    0.00    0.01    0.01    0.01    0.00    0.00    0.02    0.00  
SREBF2ENSG00000198911  0.00    0.00    0.01    0.00    0.00    0.00    0.00    0.03    0.01    0.08    0.00    0.03    0.00    0.04    0.03    0.03    0.06    0.02    0.02    0.01    0.03    0.00    0.02    0.03    0.01    0.02    0.01    0.05    0.03    0.04    0.03    0.01    0.04    0.01    0.02    0.00    0.00    0.06    0.00    0.00    0.03    0.04    0.02    0.31    0.03    0.05    0.01    0.07    0.08    0.23    0.06    0.07    0.00    0.03    0.00    0.00    0.02    0.09    0.00    0.03    0.01    0.06    0.00    0.00    0.25    0.01  
PSMB7ENSG00000136930  0.00    0.00    0.01    0.00    0.00    0.00    0.03    0.01    0.02    0.03    0.00    0.01    0.00    0.02    0.04    0.02    0.05    0.03    0.07    0.01    0.10    0.02    0.09    0.02    0.01    0.01    0.05    0.02    0.00    0.01    0.03    0.04    0.06    0.04    0.16    0.05    0.01    0.00    0.00    0.00    0.07    0.03    0.11    0.14    0.02    0.01    0.02    0.04    0.05    0.16    0.11    0.04    0.02    0.02    0.01    0.00    0.05    0.05    0.02    0.00    0.04    0.02    0.00    0.00    0.02    0.03  
P4HTMENSG00000178467  0.00    0.18    0.00    0.02    0.05    0.00    0.00    0.02    0.03    0.16    0.00    0.01    0.00    0.55    0.01    0.06    0.00    0.09    0.00    0.07    0.00    0.11    0.01    0.11    0.00    0.05    0.02    0.10    0.00    0.04    0.03    0.07    0.00    0.24    0.01    0.03    0.00    0.03    0.00    0.00    0.01    0.17    0.06    0.21    0.00    0.06    0.03    0.06    0.02    0.31    0.03    0.16    0.02    0.03    0.00    0.01    0.00    0.13    0.00    0.05    0.01    0.04    0.00    0.03    0.01    0.05  
USP14ENSG00000101557  0.00    0.00    0.01    0.00    0.01    0.01    0.01    0.03    0.09    0.02    0.00    0.00    0.00    0.00    0.08    0.02    0.19    0.04    0.16    0.03    0.26    0.06    0.05    0.02    0.02    0.01    0.02    0.05    0.03    0.03    0.03    0.02    0.00    0.05    0.00    0.06    0.00    0.00    0.01    0.00    0.04    0.04    0.16    0.11    0.06    0.03    0.05    0.03    0.10    0.07    0.17    0.11    0.00    0.11    0.00    0.01    0.03    0.04    0.02    0.03    0.01    0.04    0.00    0.00    0.04    0.02  
LAMA4ENSG00000112769  0.00    0.04    0.00    0.00    0.00    0.00    0.00    0.28    0.02    0.12    0.00    0.01    0.00    0.14    0.02    0.05    0.04    0.04    0.02    0.03    0.05    0.08    0.05    0.07    0.01    0.03    0.02    0.04    0.00    0.04    0.00    0.08    0.00    0.12    0.09    0.02    0.00    0.00    0.00    0.00    0.13    0.09    0.08    0.26    0.01    0.02    0.05    0.02    0.17    0.03    0.21    0.06    0.01    0.04    0.00    0.00    0.01    0.21    0.01    0.03    0.01    0.07    0.05    0.03    0.02    0.14  
GPC3ENSG00000147257  0.01    0.01    0.01    0.00    0.00    0.00    0.01    0.00    0.12    0.03    0.05    0.00    0.05    0.04    0.13    0.02    0.09    0.03    0.06    0.01    0.11    0.01    0.15    0.01    0.04    0.00    0.07    0.02    0.04    0.00    0.08    0.07    0.02    0.01    0.03    0.00    0.00    0.00    0.00    0.00    0.07    0.02    0.24    0.05    0.11    0.01    0.02    0.01    0.04    0.17    0.06    0.15    0.00    0.02    0.00    0.00    0.06    0.05    0.01    0.02    0.01    0.01    0.00    0.00    0.03    0.01  
VIMENSG00000026025  0.00    0.01    0.03    0.00    0.00    0.00    0.01    0.03    0.12    0.03    0.00    0.00    0.03    0.07    0.03    0.04    0.04    0.06    0.02    0.03    0.04    0.03    0.03    0.04    0.00    0.02    0.00    0.00    0.03    0.00    0.00    0.01    0.00    0.05    0.00    0.06    0.00    0.00    0.00    0.00    0.10    0.01    0.20    0.05    0.02    0.01    0.05    0.01    0.30    0.00    0.03    0.07    0.00    0.00    0.00    0.00    0.04    0.00    0.02    0.00    0.01    0.01    0.00    0.02    0.02    0.01  

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