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 
OR8A1ENSG00000196119  0.00    0.01    0.00    0.05    0.00    0.02    0.02    0.06    0.03    0.10    0.00    0.00    0.11    0.06    0.05    0.09    0.04    0.10    0.04    0.14    0.05    0.15    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    0.06    0.00    0.05    0.00    0.00    0.02    0.22    0.19    0.17    0.04    0.31    0.04    0.07    0.05    0.17    0.05    0.24    0.00    0.24    0.03    0.00    0.13    0.02    0.07    0.01    0.01    0.02    0.00    0.07    0.00    0.26  
HLA-DRB1ENSG00000196126  0.01    0.00    0.00    0.02    0.00    0.00    0.01    0.00    0.09    0.04    0.00    0.00    0.02    0.02    0.08    0.02    0.05    0.05    0.03    0.04    0.15    0.05    0.09    0.04    0.03    0.02    0.06    0.02    0.04    0.01    0.08    0.01    0.05    0.03    0.03    0.03    0.00    0.00    0.00    0.00    0.09    0.03    0.28    0.06    0.09    0.01    0.05    0.01    0.05    0.03    0.05    0.07    0.00    0.01    0.00    0.00    0.02    0.17    0.01    0.01    0.01    0.01    0.11    0.00    0.11    0.01  
VN1R2ENSG00000196131  0.01    0.00    0.00    0.02    0.00    0.00    0.02    0.00    0.19    0.03    0.00    0.00    0.01    0.06    0.02    0.06    0.07    0.09    0.02    0.02    0.09    0.03    0.09    0.03    0.02    0.03    0.01    0.04    0.03    0.04    0.05    0.03    0.00    0.07    0.22    0.00    0.00    0.03    0.00    0.00    0.14    0.03    0.12    0.27    0.10    0.06    0.05    0.05    0.45    0.10    0.07    0.17    0.00    0.06    0.01    0.00    0.13    0.06    0.01    0.17    0.02    0.14    0.00    0.00    0.04    0.03  
AKR1C3ENSG00000196139  0.01    0.01    0.03    0.01    0.00    0.00    0.01    0.03    0.35    0.03    0.00    0.00    0.02    0.14    0.13    0.07    0.07    0.13    0.03    0.07    0.15    0.10    0.09    0.03    0.03    0.03    0.02    0.00    0.03    0.03    0.06    0.03    0.00    0.05    0.00    0.03    0.01    0.00    0.00    0.00    0.18    0.02    0.35    0.11    0.03    0.02    0.04    0.01    0.15    0.00    0.06    0.10    0.01    0.04    0.00    0.00    0.07    0.07    0.06    0.01    0.03    0.01    0.00    0.02    0.03    0.03  
OR11H13PENSG00000196143  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  
FAT4ENSG00000196159  0.00    0.01    0.00    0.01    0.00    0.00    0.02    0.09    0.03    0.07    0.00    0.00    0.00    0.03    0.02    0.04    0.03    0.07    0.03    0.03    0.02    0.08    0.02    0.06    0.01    0.04    0.02    0.02    0.00    0.02    0.05    0.06    0.00    0.09    0.11    0.05    0.00    0.04    0.00    0.00    0.05    0.04    0.04    0.24    0.01    0.04    0.01    0.04    0.04    0.14    0.07    0.08    0.00    0.01    0.00    0.00    0.00    0.03    0.01    0.04    0.00    0.02    0.00    0.00    0.02    0.03  
OR6K2ENSG00000196171  0.03    0.00    0.01    0.01    0.00    0.03    0.02    0.06    0.41    0.01    0.02    0.00    0.11    0.00    0.27    0.00    0.25    0.00    0.06    0.00    0.24    0.00    0.12    0.00    0.03    0.00    0.11    0.00    0.07    0.00    0.28    0.00    0.35    0.01    0.16    0.00    0.04    0.00    0.00    0.00    0.23    0.01    0.38    0.02    0.15    0.00    0.13    0.00    0.28    0.00    0.39    0.01    0.10    0.00    0.00    0.00    0.24    0.00    0.01    0.00    0.02    0.00    0.00    0.00    0.16    0.02  
OR10J1ENSG00000196184  0.03    0.00    0.01    0.01    0.00    0.03    0.02    0.05    0.56    0.01    0.02    0.00    0.10    0.01    0.27    0.00    0.25    0.00    0.05    0.00    0.27    0.00    0.12    0.00    0.03    0.00    0.11    0.00    0.06    0.00    0.29    0.00    0.30    0.01    0.16    0.00    0.04    0.00    0.00    0.00    0.25    0.01    0.38    0.02    0.17    0.00    0.13    0.00    0.28    0.00    0.42    0.02    0.10    0.00    0.00    0.00    0.24    0.00    0.01    0.00    0.01    0.00    0.00    0.00    0.15    0.01  
CTSEENSG00000196188  0.01    0.00    0.00    0.01    0.00    0.00    0.02    0.02    0.06    0.06    0.01    0.00    0.10    0.00    0.12    0.01    0.09    0.01    0.05    0.00    0.19    0.08    0.05    0.01    0.04    0.00    0.12    0.02    0.00    0.00    0.19    0.01    0.18    0.02    0.01    0.03    0.01    0.00    0.00    0.00    0.26    0.01    0.27    0.10    0.07    0.00    0.15    0.01    0.46    0.04    0.05    0.18    0.03    0.02    0.01    0.00    0.21    0.10    0.00    0.01    0.04    0.02    0.09    0.00    0.16    0.02  
TUBBENSG00000196230  0.01    0.00    0.00    0.01    0.00    0.00    0.01    0.00    0.18    0.01    0.00    0.00    0.02    0.02    0.10    0.01    0.07    0.04    0.04    0.04    0.19    0.04    0.15    0.04    0.04    0.01    0.08    0.01    0.03    0.01    0.13    0.01    0.08    0.03    0.04    0.00    0.00    0.00    0.00    0.00    0.09    0.02    0.32    0.05    0.18    0.02    0.07    0.01    0.21    0.03    0.05    0.06    0.01    0.01    0.00    0.00    0.05    0.04    0.01    0.00    0.00    0.01    0.13    0.00    0.13    0.01  
OR2T2ENSG00000196240  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  
OR2C3ENSG00000196242  0.01    0.02    0.01    0.01    0.00    0.01    0.02    0.03    0.13    0.04    0.02    0.02    0.08    0.04    0.13    0.01    0.17    0.03    0.10    0.02    0.27    0.04    0.14    0.01    0.04    0.02    0.09    0.02    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    0.47    0.12    0.13    0.01    0.12    0.02    0.32    0.00    0.09    0.25    0.06    0.02    0.01    0.00    0.03    0.18    0.01    0.04    0.02    0.05    0.15    0.03    0.25    0.02  
OR10S1ENSG00000196248  0.00    0.01    0.00    0.05    0.02    0.02    0.02    0.06    0.03    0.09    0.00    0.00    0.13    0.06    0.05    0.09    0.05    0.10    0.05    0.14    0.05    0.15    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    0.19    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    0.01    0.26  
SFTA2ENSG00000196260  0.01    0.00    0.00    0.01    0.00    0.00    0.01    0.00    0.17    0.02    0.00    0.00    0.02    0.02    0.09    0.01    0.07    0.05    0.04    0.04    0.20    0.05    0.12    0.04    0.04    0.01    0.07    0.01    0.03    0.01    0.12    0.01    0.08    0.03    0.04    0.00    0.00    0.00    0.00    0.00    0.09    0.03    0.31    0.06    0.17    0.01    0.05    0.01    0.16    0.03    0.08    0.05    0.01    0.01    0.01    0.00    0.05    0.14    0.01    0.00    0.00    0.01    0.13    0.00    0.13    0.01  
PPIAENSG00000196262  0.00    0.00    0.02    0.00    0.00    0.00    0.01    0.01    0.04    0.00    0.00    0.00    0.00    0.00    0.05    0.01    0.09    0.02    0.03    0.01    0.12    0.02    0.04    0.01    0.03    0.00    0.00    0.00    0.00    0.00    0.04    0.00    0.00    0.01    0.10    0.00    0.00    0.00    0.00    0.00    0.07    0.02    0.11    0.06    0.02    0.00    0.05    0.01    0.18    0.00    0.05    0.02    0.02    0.00    0.00    0.01    0.11    0.05    0.01    0.00    0.04    0.01    0.00    0.00    0.05    0.03  
OR10J3ENSG00000196266  0.03    0.00    0.01    0.01    0.00    0.03    0.02    0.05    0.55    0.01    0.02    0.00    0.11    0.00    0.26    0.00    0.25    0.00    0.05    0.00    0.25    0.00    0.12    0.00    0.03    0.00    0.11    0.00    0.06    0.00    0.28    0.00    0.30    0.01    0.16    0.00    0.04    0.00    0.00    0.00    0.25    0.01    0.38    0.02    0.16    0.00    0.13    0.00    0.28    0.00    0.38    0.02    0.10    0.00    0.00    0.00    0.24    0.00    0.01    0.00    0.01    0.00    0.00    0.00    0.15    0.01  
ATP2A1ENSG00000196296  0.00    0.00    0.01    0.00    0.00    0.00    0.01    0.01    0.19    0.01    0.00    0.00    0.03    0.00    0.07    0.01    0.09    0.01    0.03    0.01    0.06    0.00    0.04    0.00    0.03    0.01    0.04    0.00    0.01    0.00    0.05    0.01    0.00    0.01    0.00    0.01    0.00    0.00    0.00    0.00    0.05    0.01    0.08    0.03    0.02    0.03    0.09    0.01    0.34    0.03    0.05    0.03    0.00    0.01    0.00    0.01    0.02    0.00    0.00    0.02    0.00    0.03    0.00    0.00    0.01    0.02  
IARSENSG00000196305  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.01    0.06    0.04    0.00    0.01    0.01    0.05    0.01    0.05    0.04    0.02    0.04    0.00    0.09    0.01    0.03    0.04    0.03    0.01    0.04    0.02    0.00    0.01    0.01    0.03    0.00    0.08    0.04    0.00    0.00    0.01    0.00    0.00    0.03    0.03    0.04    0.15    0.02    0.03    0.03    0.04    0.01    0.16    0.10    0.01    0.05    0.02    0.00    0.02    0.04    0.02    0.00    0.00    0.01    0.02    0.00    0.00    0.01    0.02  
CGB7ENSG00000196337  0.00    0.00    0.00    0.02    0.00    0.00    0.01    0.03    0.08    0.04    0.00    0.02    0.00    0.06    0.01    0.07    0.04    0.10    0.03    0.02    0.08    0.05    0.06    0.03    0.01    0.03    0.01    0.03    0.03    0.05    0.04    0.03    0.00    0.07    0.17    0.02    0.00    0.03    0.00    0.00    0.08    0.05    0.05    0.31    0.05    0.07    0.03    0.05    0.17    0.19    0.04    0.18    0.00    0.04    0.01    0.00    0.07    0.05    0.00    0.14    0.01    0.13    0.00    0.00    0.02    0.02  
NLGN3ENSG00000196338  0.00    0.00    0.01    0.00    0.00    0.01    0.01    0.00    0.05    0.02    0.00    0.00    0.00    0.00    0.03    0.02    0.03    0.04    0.02    0.01    0.09    0.02    0.02    0.02    0.01    0.01    0.00    0.02    0.00    0.01    0.00    0.00    0.00    0.01    0.01    0.00    0.00    0.00    0.00    0.00    0.02    0.02    0.14    0.04    0.02    0.01    0.04    0.01    0.18    0.00    0.16    0.08    0.00    0.00    0.00    0.00    0.03    0.02    0.02    0.00    0.01    0.00    0.00    0.00    0.02    0.01  

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