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 
GPR19ENSG00000183150  0.00    0.00    0.00    0.01    0.00    0.00    0.00    0.19    0.03    0.08    0.01    0.00    0.00    0.06    0.03    0.09    0.09    0.02    0.06    0.03    0.05    0.04    0.03    0.08    0.01    0.04    0.00    0.08    0.03    0.06    0.01    0.06    0.14    0.05    0.03    0.00    0.00    0.01    0.00    0.00    0.06    0.08    0.24    0.12    0.01    0.03    0.03    0.04    0.04    0.03    0.06    0.17    0.54    0.00    0.00    0.06    0.00    0.13    0.03    0.04    0.00    0.07    0.00    0.01    0.03    0.03  
ROR1ENSG00000185483  0.00    0.01    0.01    0.01    0.00    0.00    0.00    0.09    0.07    0.06    0.00    0.02    0.04    0.01    0.06    0.06    0.06    0.05    0.04    0.03    0.06    0.09    0.03    0.04    0.00    0.07    0.00    0.06    0.00    0.01    0.03    0.04    0.00    0.13    0.02    0.04    0.01    0.18    0.00    0.00    0.07    0.07    0.23    0.13    0.06    0.02    0.04    0.02    0.00    0.06    0.25    0.02    0.04    0.05    0.02    0.01    0.00    0.03    0.00    0.01    0.02    0.01    0.00    0.07    0.04    0.04  
ITPKBENSG00000143772  0.01    0.02    0.01    0.01    0.04    0.00    0.01    0.08    0.10    0.05    0.02    0.02    0.05    0.01    0.08    0.01    0.12    0.02    0.06    0.00    0.19    0.04    0.10    0.01    0.04    0.01    0.05    0.01    0.01    0.01    0.14    0.03    0.18    0.02    0.04    0.00    0.00    0.02    0.00    0.00    0.23    0.01    0.41    0.05    0.07    0.02    0.09    0.02    0.23    0.00    0.04    0.24    0.03    0.05    0.02    0.00    0.02    0.18    0.02    0.02    0.03    0.05    0.09    0.03    0.11    0.05  
SLC35F3ENSG00000183780  0.01    0.02    0.01    0.01    0.00    0.00    0.02    0.10    0.14    0.03    0.02    0.00    0.05    0.03    0.09    0.02    0.12    0.03    0.07    0.00    0.21    0.03    0.14    0.02    0.03    0.03    0.05    0.06    0.01    0.01    0.17    0.01    0.23    0.02    0.04    0.01    0.01    0.03    0.00    0.00    0.27    0.02    0.54    0.08    0.08    0.02    0.12    0.02    0.38    0.00    0.05    0.24    0.04    0.04    0.02    0.00    0.02    0.15    0.00    0.03    0.02    0.04    0.08    0.03    0.16    0.03  
PTPRUENSG00000060656  0.00    0.05    0.00    0.06    0.00    0.00    0.00    0.03    0.06    0.07    0.00    0.01    0.05    0.17    0.05    0.05    0.03    0.08    0.03    0.05    0.05    0.11    0.02    0.11    0.00    0.15    0.00    0.21    0.00    0.09    0.00    0.21    0.00    0.92    0.00    0.07    0.02    0.08    0.00    0.00    0.02    0.14    0.12    0.37    0.04    0.05    0.04    0.11    0.00    0.08    0.12    0.09    0.04    0.04    0.02    0.00    0.00    0.07    0.00    0.01    0.02    0.05    0.00    0.07    0.06    0.05  
PTP4A3ENSG00000184489  0.03    0.00    0.02    0.00    0.06    0.00    0.05    0.02    0.18    0.03    0.02    0.00    0.10    0.04    0.25    0.01    0.34    0.02    0.28    0.00    0.45    0.02    0.23    0.02    0.14    0.03    0.24    0.03    0.16    0.01    0.34    0.02    0.25    0.01    0.04    0.00    0.01    0.03    0.00    0.01    0.43    0.05    1.49    0.05    0.20    0.01    0.13    0.02    0.25    0.03    0.20    0.06    0.03    0.04    0.02    0.00    0.26    0.01    0.17    0.03    0.03    0.02    0.50    0.00    0.22    0.02  
CACNA1DENSG00000157388  0.00    0.15    0.00    0.02    0.00    0.02    0.00    0.03    0.03    0.16    0.00    0.03    0.00    0.55    0.01    0.06    0.00    0.11    0.00    0.06    0.04    0.14    0.00    0.10    0.00    0.05    0.02    0.07    0.01    0.04    0.02    0.07    0.00    0.20    0.06    0.01    0.01    0.03    0.00    0.00    0.01    0.16    0.08    0.22    0.00    0.07    0.03    0.08    0.00    0.40    0.04    0.14    0.05    0.01    0.00    0.01    0.00    0.06    0.01    0.05    0.00    0.05    0.03    0.03    0.04    0.04  
SIRPGENSG00000089012  0.01    0.00    0.01    0.00    0.03    0.01    0.00    0.02    0.03    0.02    0.01    0.00    0.00    0.03    0.04    0.05    0.12    0.02    0.02    0.02    0.07    0.03    0.05    0.01    0.05    0.05    0.06    0.08    0.02    0.03    0.04    0.01    0.04    0.03    0.00    0.09    0.00    0.02    0.00    0.00    0.05    0.06    0.31    0.09    0.03    0.03    0.07    0.03    0.14    0.07    0.07    0.08    0.00    0.02    0.00    0.00    0.00    0.00    0.01    0.01    0.01    0.02    0.02    0.00    0.02    0.03  
USP8ENSG00000138592  0.00    0.00    0.00    0.01    0.14    0.00    0.01    0.04    0.05    0.03    0.00    0.00    0.07    0.11    0.01    0.05    0.03    0.06    0.03    0.03    0.03    0.02    0.01    0.06    0.01    0.03    0.00    0.05    0.00    0.02    0.02    0.02    0.00    0.01    0.02    0.03    0.00    0.00    0.00    0.00    0.06    0.08    0.06    0.20    0.01    0.09    0.00    0.07    0.08    0.26    0.14    0.05    0.01    0.03    0.00    0.00    0.06    0.05    0.00    0.02    0.00    0.08    0.00    0.00    0.04    0.10  
SP140LENSG00000185404  0.01    0.07    0.04    0.04    0.00    0.05    0.01    0.03    0.00    0.31    0.00    0.03    0.00    0.07    0.03    0.04    0.02    0.20    0.01    0.18    0.04    0.15    0.04    0.05    0.02    0.03    0.02    0.02    0.07    0.01    0.03    0.05    0.00    0.01    0.03    0.05    0.00    0.01    0.00    0.01    0.02    0.09    0.14    0.20    0.01    0.36    0.03    0.05    0.13    0.06    0.03    0.34    0.05    0.03    0.00    0.00    0.00    0.00    0.01    0.06    0.00    0.01    0.04    0.05    0.02    0.08  
LAMB4ENSG00000091128  0.01    0.00    0.05    0.01    0.01    0.00    0.03    0.03    0.05    0.02    0.00    0.00    0.03    0.02    0.09    0.03    0.15    0.03    0.16    0.03    0.33    0.07    0.09    0.04    0.01    0.01    0.01    0.01    0.03    0.02    0.06    0.02    0.00    0.07    0.02    0.06    0.00    0.02    0.00    0.00    0.06    0.04    0.25    0.07    0.06    0.04    0.04    0.03    0.16    0.13    0.17    0.02    0.08    0.01    0.00    0.03    0.13    0.00    0.09    0.00    0.02    0.01    0.00    0.00    0.08    0.03  
PLCH1ENSG00000114805  0.05    0.01    0.01    0.01    0.00    0.00    0.04    0.03    0.11    0.01    0.00    0.00    0.00    0.03    0.13    0.01    0.90    0.00    0.47    0.00    0.60    0.02    0.15    0.01    0.02    0.00    0.05    0.01    0.04    0.00    0.08    0.02    0.03    0.01    0.10    0.01    0.00    0.06    0.00    0.01    0.15    0.01    0.72    0.02    0.47    0.01    0.17    0.01    0.26    0.02    0.05    0.08    0.10    0.00    0.00    0.00    0.01    0.05    0.01    0.01    0.02    0.03    0.00    0.04    0.01    0.03  
PTNENSG00000105894  0.01    0.01    0.09    0.00    0.04    0.00    0.02    0.02    0.03    0.04    0.00    0.01    0.04    0.05    0.07    0.02    0.07    0.07    0.04    0.13    0.04    0.18    0.02    0.07    0.03    0.01    0.07    0.01    0.01    0.05    0.07    0.04    0.00    0.02    0.03    0.06    0.00    0.02    0.00    0.00    0.08    0.04    0.49    0.04    0.04    0.09    0.04    0.05    0.08    0.16    0.17    0.06    0.02    0.04    0.00    0.05    0.02    0.09    0.11    0.00    0.05    0.01    0.00    0.00    0.22    0.02  
TRIM69ENSG00000185880  0.00    0.01    0.00    0.02    0.14    0.00    0.01    0.05    0.03    0.05    0.00    0.00    0.04    0.27    0.01    0.10    0.01    0.09    0.02    0.04    0.05    0.05    0.01    0.07    0.01    0.08    0.00    0.06    0.00    0.03    0.01    0.02    0.00    0.03    0.03    0.08    0.00    0.00    0.00    0.00    0.03    0.10    0.05    0.29    0.01    0.09    0.00    0.07    0.05    0.27    0.07    0.08    0.01    0.03    0.00    0.00    0.02    0.18    0.00    0.03    0.00    0.11    0.00    0.00    0.01    0.16  
TNFRSF10BENSG00000120889  0.00    0.02    0.00    0.00    0.00    0.01    0.00    0.24    0.01    0.15    0.00    0.00    0.00    0.03    0.00    0.08    0.00    0.11    0.00    0.07    0.01    0.06    0.04    0.04    0.00    0.12    0.01    0.18    0.00    0.06    0.00    0.13    0.00    0.05    0.02    0.00    0.01    0.02    0.00    0.00    0.01    0.18    0.00    0.45    0.00    0.05    0.01    0.11    0.00    0.24    0.01    0.06    0.03    0.00    0.00    0.00    0.00    0.11    0.00    0.01    0.00    0.03    0.00    0.01    0.01    0.05  
GPM6AENSG00000150625  0.00    0.03    0.00    0.03    0.10    0.04    0.03    0.05    0.05    0.20    0.00    0.02    0.00    0.06    0.01    0.11    0.03    0.18    0.02    0.11    0.06    0.14    0.02    0.17    0.02    0.09    0.02    0.05    0.00    0.06    0.06    0.18    0.00    0.25    0.10    0.11    0.00    0.04    0.00    0.01    0.04    0.10    0.06    0.37    0.04    0.10    0.01    0.06    0.09    0.16    0.06    0.23    0.02    0.00    0.00    0.00    0.04    0.09    0.01    0.11    0.01    0.08    0.00    0.04    0.03    0.08  
STK3ENSG00000104375  0.01    0.00    0.01    0.00    0.14    0.00    0.09    0.00    0.52    0.00    0.02    0.00    0.02    0.01    0.21    0.01    0.19    0.02    0.14    0.01    0.37    0.04    0.20    0.01    0.10    0.01    0.20    0.00    0.04    0.01    0.29    0.00    0.29    0.01    0.06    0.00    0.00    0.01    0.00    0.00    0.42    0.01    0.62    0.08    0.11    0.00    0.08    0.01    0.41    0.02    0.16    0.04    0.11    0.00    0.00    0.00    0.08    0.05    0.13    0.00    0.01    0.01    0.42    0.00    0.14    0.01  
PTBP1ENSG00000011304  0.00    0.01    0.00    0.02    0.00    0.00    0.01    0.03    0.02    0.14    0.05    0.00    0.03    0.10    0.04    0.09    0.03    0.16    0.01    0.15    0.04    0.18    0.05    0.08    0.01    0.06    0.02    0.09    0.00    0.07    0.03    0.14    0.04    0.03    0.11    0.01    0.01    0.00    0.00    0.01    0.02    0.17    0.03    0.92    0.04    0.24    0.03    0.25    0.00    0.81    0.29    0.21    0.01    0.01    0.00    0.02    0.03    0.00    0.09    0.01    0.08    0.01    0.01    0.04    0.02    0.08  
TDO2ENSG00000151790  0.01    0.03    0.00    0.01    0.06    0.02    0.03    0.04    0.05    0.13    0.00    0.02    0.00    0.01    0.04    0.06    0.02    0.11    0.02    0.10    0.05    0.08    0.05    0.07    0.01    0.07    0.02    0.03    0.03    0.03    0.06    0.07    0.00    0.12    0.10    0.05    0.00    0.03    0.00    0.00    0.06    0.07    0.06    0.26    0.02    0.08    0.02    0.05    0.10    0.05    0.11    0.13    0.01    0.03    0.00    0.00    0.03    0.03    0.00    0.09    0.00    0.03    0.00    0.00    0.05    0.06  
AKR1B15ENSG00000227471  0.01    0.01    0.10    0.00    0.04    0.00    0.03    0.03    0.06    0.04    0.00    0.01    0.04    0.05    0.06    0.02    0.06    0.07    0.03    0.14    0.04    0.21    0.03    0.07    0.03    0.00    0.03    0.01    0.02    0.04    0.04    0.04    0.00    0.02    0.03    0.06    0.00    0.01    0.00    0.00    0.09    0.03    0.45    0.03    0.04    0.08    0.07    0.05    0.05    0.16    0.14    0.03    0.02    0.03    0.00    0.05    0.02    0.09    0.11    0.00    0.07    0.01    0.00    0.00    0.22    0.02  

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