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 
PRDM6ENSG00000061455  0.26    0.01    0.03    0.01    0.00    0.00    0.02    0.08    0.02    0.07    0.00    0.00    0.00    0.08    0.01    0.08    0.00    0.07    0.00    0.06    0.02    0.07    0.02    0.12    0.01    0.08    0.01    0.07    0.00    0.05    0.06    0.03    0.05    0.02    0.27    0.02    0.00    0.03    0.00    0.00    0.02    0.05    0.10    0.28    0.00    0.03    0.01    0.03    0.06    0.08    0.05    0.03    0.01    0.00    0.00    0.09    0.04    0.02    0.01    0.03    0.00    0.01    0.00    0.03    0.05    0.07  
SLC5A9ENSG00000117834  0.00    0.01    0.02    0.02    0.00    0.05    0.00    0.06    0.10    0.03    0.00    0.00    0.06    0.03    0.06    0.04    0.05    0.02    0.05    0.02    0.06    0.02    0.02    0.04    0.02    0.03    0.02    0.03    0.01    0.01    0.01    0.08    0.00    0.25    0.02    0.03    0.00    0.14    0.00    0.00    0.06    0.05    0.31    0.09    0.10    0.01    0.07    0.02    0.09    0.05    0.10    0.03    0.06    0.03    0.02    0.00    0.00    0.03    0.00    0.02    0.02    0.01    0.00    0.07    0.03    0.02  
CSTAENSG00000121552  0.00    0.01    0.01    0.00    0.00    0.00    0.03    0.02    0.05    0.02    0.00    0.01    0.00    0.02    0.05    0.02    0.12    0.01    0.03    0.00    0.07    0.04    0.05    0.01    0.00    0.00    0.03    0.01    0.00    0.00    0.01    0.01    0.00    0.02    0.03    0.01    0.00    0.05    0.00    0.00    0.03    0.04    0.24    0.03    0.06    0.01    0.04    0.01    0.05    0.09    0.08    0.06    0.00    0.01    0.00    0.00    0.00    0.03    0.00    0.03    0.01    0.06    0.00    0.00    0.01    0.04  
CPN1ENSG00000120054  0.00    0.01    0.00    0.01    0.00    0.00    0.02    0.11    0.02    0.10    0.00    0.02    0.00    0.16    0.01    0.03    0.02    0.07    0.00    0.06    0.03    0.08    0.02    0.09    0.00    0.10    0.00    0.07    0.01    0.03    0.03    0.06    0.11    0.14    0.00    0.00    0.02    0.01    0.00    0.00    0.03    0.07    0.05    0.34    0.01    0.07    0.02    0.09    0.05    0.09    0.02    0.05    0.01    0.00    0.00    0.00    0.00    0.07    0.00    0.04    0.00    0.05    0.00    0.00    0.01    0.04  
SLC27A6ENSG00000113396  0.27    0.01    0.03    0.01    0.00    0.00    0.02    0.06    0.02    0.06    0.00    0.00    0.00    0.08    0.01    0.07    0.00    0.08    0.00    0.05    0.03    0.07    0.01    0.11    0.01    0.07    0.02    0.07    0.01    0.04    0.07    0.04    0.05    0.01    0.30    0.04    0.00    0.07    0.01    0.00    0.03    0.05    0.10    0.22    0.02    0.03    0.01    0.03    0.15    0.14    0.09    0.04    0.01    0.03    0.00    0.09    0.04    0.05    0.00    0.04    0.01    0.03    0.00    0.03    0.03    0.08  
MORC2ENSG00000133422  0.00    0.00    0.00    0.01    0.00    0.02    0.00    0.04    0.23    0.02    0.02    0.04    0.00    0.00    0.05    0.02    0.18    0.01    0.02    0.00    0.04    0.01    0.01    0.02    0.04    0.01    0.01    0.01    0.01    0.02    0.01    0.01    0.00    0.05    0.01    0.07    0.00    0.01    0.00    0.00    0.05    0.02    0.27    0.05    0.04    0.00    0.12    0.01    0.21    0.02    0.05    0.03    0.09    0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.01    0.05    0.00    0.00    0.04    0.05  
KCNK3ENSG00000171303  0.00    0.00    0.02    0.01    0.00    0.00    0.01    0.02    0.09    0.01    0.00    0.00    0.03    0.08    0.06    0.02    0.09    0.01    0.03    0.01    0.07    0.04    0.04    0.03    0.01    0.00    0.02    0.02    0.01    0.04    0.09    0.00    0.00    0.05    0.01    0.06    0.01    0.00    0.00    0.00    0.06    0.03    0.20    0.09    0.08    0.00    0.10    0.02    0.22    0.00    0.05    0.09    0.17    0.01    0.00    0.00    0.02    0.02    0.00    0.00    0.01    0.02    0.05    0.00    0.01    0.04  
VASNENSG00000168140  0.01    0.00    0.01    0.00    0.00    0.00    0.01    0.01    0.01    0.17    0.00    0.00    0.05    0.02    0.04    0.03    0.05    0.08    0.04    0.02    0.03    0.07    0.03    0.08    0.03    0.03    0.03    0.03    0.03    0.02    0.05    0.02    0.07    0.05    0.14    0.02    0.01    0.02    0.00    0.00    0.10    0.02    0.16    0.16    0.12    0.02    0.06    0.02    0.08    0.05    0.08    0.07    0.00    0.00    0.00    0.00    0.05    0.00    0.01    0.00    0.03    0.01    0.00    0.00    0.07    0.02  
FKBP5ENSG00000096060  0.00    0.00    0.01    0.01    0.00    0.00    0.01    0.01    0.07    0.05    0.00    0.00    0.04    0.01    0.08    0.01    0.03    0.05    0.03    0.03    0.12    0.04    0.07    0.03    0.03    0.01    0.05    0.01    0.06    0.01    0.07    0.03    0.05    0.03    0.03    0.00    0.00    0.00    0.01    0.00    0.08    0.03    0.25    0.05    0.07    0.01    0.04    0.01    0.36    0.07    0.14    0.07    0.05    0.01    0.00    0.00    0.08    0.00    0.01    0.00    0.03    0.00    0.10    0.00    0.10    0.01  
NR1I2ENSG00000144852  0.00    0.02    0.01    0.00    0.00    0.00    0.01    0.04    0.06    0.02    0.00    0.01    0.00    0.01    0.04    0.02    0.12    0.02    0.03    0.01    0.07    0.06    0.05    0.02    0.00    0.00    0.01    0.01    0.00    0.00    0.01    0.01    0.00    0.02    0.03    0.01    0.00    0.05    0.00    0.00    0.04    0.04    0.26    0.02    0.05    0.01    0.04    0.01    0.05    0.08    0.09    0.07    0.00    0.01    0.00    0.00    0.00    0.05    0.00    0.03    0.01    0.06    0.00    0.00    0.01    0.05  
CAPN2ENSG00000162909  0.01    0.02    0.01    0.01    0.00    0.00    0.02    0.07    0.10    0.05    0.02    0.00    0.05    0.01    0.10    0.01    0.12    0.01    0.05    0.00    0.21    0.03    0.09    0.01    0.03    0.01    0.06    0.01    0.01    0.01    0.14    0.04    0.18    0.02    0.04    0.02    0.00    0.01    0.00    0.00    0.25    0.01    0.36    0.08    0.06    0.01    0.09    0.02    0.19    0.00    0.03    0.23    0.03    0.05    0.01    0.00    0.03    0.15    0.01    0.03    0.02    0.06    0.09    0.00    0.11    0.05  
GPC4ENSG00000076716  0.01    0.01    0.01    0.00    0.00    0.00    0.01    0.00    0.09    0.03    0.05    0.00    0.05    0.02    0.13    0.01    0.09    0.03    0.06    0.01    0.12    0.01    0.12    0.01    0.04    0.00    0.07    0.01    0.01    0.00    0.08    0.03    0.00    0.01    0.03    0.00    0.00    0.00    0.00    0.00    0.07    0.02    0.23    0.04    0.10    0.01    0.02    0.01    0.04    0.10    0.04    0.16    0.01    0.02    0.00    0.00    0.06    0.05    0.01    0.02    0.01    0.01    0.00    0.00    0.02    0.01  
EGLN2ENSG00000269858  0.00    0.00    0.00    0.02    0.00    0.02    0.01    0.04    0.19    0.02    0.00    0.00    0.08    0.02    0.12    0.03    0.33    0.07    0.03    0.02    0.04    0.05    0.08    0.02    0.03    0.01    0.01    0.01    0.11    0.02    0.08    0.02    0.12    0.01    0.05    0.04    0.00    0.02    0.00    0.00    0.09    0.04    0.33    0.25    0.10    0.04    0.09    0.04    0.56    0.14    0.22    0.12    0.00    0.03    0.01    0.00    0.05    0.00    0.02    0.07    0.02    0.08    0.00    0.00    0.02    0.02  
CYLDENSG00000083799  0.00    0.01    0.00    0.00    0.00    0.00    0.00    0.07    0.03    0.03    0.00    0.00    0.00    0.05    0.08    0.04    0.06    0.05    0.03    0.05    0.08    0.01    0.01    0.04    0.04    0.01    0.01    0.00    0.01    0.00    0.03    0.01    0.00    0.04    0.10    0.04    0.00    0.03    0.00    0.00    0.06    0.06    0.06    0.14    0.00    0.07    0.03    0.05    0.05    0.14    0.02    0.13    0.08    0.01    0.02    0.00    0.00    0.06    0.00    0.00    0.00    0.04    0.00    0.03    0.01    0.06  
ANXA1ENSG00000135046  0.00    0.00    0.00    0.00    0.00    0.00    0.00    0.03    0.02    0.05    0.00    0.01    0.02    0.06    0.01    0.06    0.06    0.06    0.00    0.03    0.10    0.03    0.05    0.05    0.01    0.01    0.02    0.02    0.01    0.00    0.01    0.03    0.00    0.15    0.01    0.00    0.00    0.02    0.00    0.00    0.03    0.04    0.12    0.14    0.01    0.03    0.04    0.03    0.00    0.16    0.11    0.01    0.02    0.03    0.00    0.02    0.05    0.03    0.00    0.01    0.01    0.04    0.00    0.00    0.02    0.03  
KCNC1ENSG00000129159  0.00    0.00    0.00    0.00    0.02    0.05    0.01    0.01    0.02    0.07    0.00    0.00    0.02    0.03    0.02    0.04    0.06    0.07    0.01    0.04    0.05    0.03    0.02    0.02    0.02    0.00    0.01    0.01    0.00    0.02    0.05    0.01    0.03    0.01    0.00    0.02    0.06    0.04    0.00    0.00    0.06    0.05    0.04    0.24    0.01    0.04    0.03    0.04    0.01    0.04    0.05    0.07    0.01    0.00    0.00    0.00    0.00    0.00    0.01    0.02    0.00    0.01    0.00    0.00    0.03    0.01  
PTPRSENSG00000105426  0.00    0.01    0.00    0.02    0.00    0.04    0.01    0.03    0.04    0.10    0.00    0.01    0.01    0.10    0.01    0.07    0.07    0.09    0.05    0.10    0.06    0.12    0.01    0.07    0.01    0.04    0.06    0.09    0.00    0.06    0.02    0.12    0.00    0.03    0.01    0.03    0.01    0.00    0.00    0.01    0.06    0.09    0.12    0.66    0.03    0.17    0.03    0.23    0.05    0.53    0.27    0.05    0.02    0.00    0.04    0.00    0.00    0.03    0.01    0.01    0.06    0.01    0.00    0.05    0.04    0.04  
PSKH1ENSG00000159792  0.00    0.00    0.02    0.00    0.00    0.06    0.01    0.07    0.17    0.02    0.00    0.00    0.01    0.07    0.04    0.03    0.06    0.01    0.03    0.01    0.13    0.01    0.05    0.03    0.00    0.01    0.01    0.01    0.01    0.00    0.02    0.04    0.05    0.01    0.23    0.03    0.01    0.02    0.00    0.01    0.02    0.05    0.03    0.33    0.05    0.02    0.03    0.08    0.06    0.14    0.02    0.04    0.15    0.01    0.00    0.05    0.00    0.03    0.00    0.00    0.00    0.03    0.00    0.03    0.05    0.01  
TRIM24ENSG00000122779  0.01    0.01    0.09    0.00    0.06    0.00    0.02    0.02    0.04    0.03    0.00    0.01    0.04    0.05    0.09    0.02    0.08    0.07    0.03    0.14    0.04    0.18    0.03    0.07    0.03    0.00    0.03    0.01    0.01    0.05    0.05    0.04    0.00    0.02    0.03    0.06    0.01    0.01    0.00    0.00    0.09    0.04    0.50    0.04    0.04    0.08    0.05    0.05    0.08    0.14    0.12    0.08    0.02    0.04    0.00    0.05    0.02    0.09    0.11    0.01    0.05    0.01    0.00    0.00    0.21    0.02  
PDGFDENSG00000170962  0.01    0.01    0.00    0.06    0.01    0.03    0.01    0.07    0.16    0.09    0.00    0.00    0.06    0.10    0.08    0.05    0.09    0.08    0.19    0.12    0.12    0.08    0.03    0.05    0.02    0.02    0.02    0.03    0.04    0.02    0.02    0.06    0.00    0.10    0.00    0.05    0.00    0.05    0.00    0.00    0.05    0.19    0.26    0.15    0.31    0.18    0.03    0.05    0.07    0.32    0.14    0.17    0.01    0.08    0.02    0.00    0.04    0.01    0.02    0.01    0.00    0.02    0.00    0.01    0.13    0.15  

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