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
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ENHOENSG00000168913  0.00    0.00    0.01    0.00    0.00    0.00    0.02    0.02    0.08    0.04    0.00    0.00    0.01    0.11    0.06    0.02    0.36    0.04    0.22    0.02    0.25    0.01    0.16    0.02    0.01    0.00    0.00    0.00    0.07    0.00    0.05    0.01    0.24    0.01    0.06    0.00    0.00    0.00    0.00    0.00    0.08    0.02    0.10    0.06    0.01    0.01    0.05    0.02    0.01    0.05    0.12    0.06    0.03    0.00    0.00    0.00    0.00    0.00    0.01    0.00    0.06    0.08    0.00    0.03    0.06    0.05  
INPP5DENSG00000168918  0.01    0.08    0.04    0.04    0.00    0.05    0.01    0.05    0.00    0.33    0.00    0.03    0.00    0.07    0.04    0.04    0.02    0.20    0.01    0.18    0.07    0.15    0.04    0.07    0.02    0.03    0.03    0.02    0.04    0.03    0.03    0.06    0.05    0.01    0.00    0.05    0.00    0.01    0.00    0.01    0.02    0.10    0.16    0.23    0.01    0.39    0.04    0.06    0.16    0.06    0.05    0.39    0.04    0.04    0.00    0.00    0.00    0.00    0.00    0.12    0.00    0.06    0.01    0.08    0.01    0.12  
CTRB1ENSG00000168925  0.00    0.00    0.00    0.01    0.00    0.06    0.01    0.21    0.13    0.02    0.00    0.00    0.00    0.10    0.06    0.05    0.06    0.04    0.03    0.02    0.07    0.03    0.05    0.03    0.01    0.01    0.02    0.02    0.01    0.01    0.02    0.05    0.05    0.01    0.06    0.07    0.00    0.00    0.00    0.01    0.04    0.06    0.07    0.28    0.04    0.02    0.04    0.08    0.06    0.19    0.04    0.05    0.01    0.08    0.00    0.05    0.00    0.00    0.00    0.01    0.00    0.05    0.00    0.00    0.03    0.03  
CTRB2ENSG00000168928  0.00    0.00    0.00    0.01    0.00    0.06    0.01    0.21    0.13    0.02    0.00    0.00    0.00    0.10    0.06    0.05    0.06    0.04    0.03    0.02    0.07    0.03    0.05    0.03    0.01    0.01    0.02    0.02    0.01    0.00    0.02    0.05    0.05    0.01    0.06    0.07    0.00    0.00    0.00    0.01    0.04    0.06    0.07    0.28    0.04    0.02    0.03    0.08    0.06    0.19    0.04    0.05    0.01    0.08    0.00    0.05    0.00    0.00    0.00    0.01    0.00    0.05    0.00    0.00    0.03    0.03  
PPICENSG00000168938  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    0.01    0.06    0.02    0.08    0.02    0.13    0.01    0.09    0.01    0.07    0.00    0.05    0.06    0.03    0.05    0.02    0.23    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    0.04    0.04    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  
GRM5ENSG00000168959  0.02    0.01    0.00    0.03    0.02    0.03    0.04    0.02    0.09    0.05    0.00    0.00    0.09    0.09    0.12    0.02    0.11    0.05    0.12    0.08    0.17    0.04    0.05    0.03    0.02    0.00    0.01    0.04    0.02    0.01    0.03    0.04    0.00    0.02    0.00    0.02    0.00    0.03    0.00    0.00    0.16    0.09    0.42    0.06    0.17    0.06    0.06    0.03    0.06    0.19    0.11    0.10    0.04    0.07    0.00    0.00    0.00    0.05    0.01    0.00    0.02    0.01    0.00    0.00    0.14    0.07  
LGALS9ENSG00000168961  0.00    0.00    0.01    0.01    0.00    0.00    0.00    0.02    0.23    0.01    0.03    0.01    0.01    0.01    0.08    0.01    0.14    0.02    0.05    0.03    0.18    0.03    0.13    0.02    0.11    0.01    0.09    0.01    0.03    0.01    0.04    0.00    0.07    0.01    0.02    0.05    0.00    0.13    0.00    0.00    0.25    0.03    0.11    0.08    0.01    0.03    0.09    0.03    0.18    0.06    0.08    0.12    0.02    0.01    0.00    0.03    0.06    0.00    0.00    0.01    0.00    0.02    0.00    0.00    0.03    0.03  
MFSD7ENSG00000169026  0.00    0.00    0.01    0.00    0.00    0.01    0.04    0.02    0.10    0.05    0.02    0.02    0.01    0.03    0.06    0.05    0.05    0.07    0.03    0.07    0.11    0.09    0.09    0.05    0.02    0.03    0.05    0.04    0.10    0.02    0.04    0.07    0.00    0.01    0.22    0.03    0.00    0.00    0.01    0.00    0.04    0.08    0.42    0.11    0.02    0.06    0.08    0.06    0.15    0.03    0.14    0.07    0.02    0.02    0.00    0.00    0.00    0.02    0.01    0.02    0.01    0.04    0.02    0.00    0.04    0.05  
DHRSXENSG00000169084  0.00    0.00    0.01    0.00    0.00    0.00    0.04    0.01    0.08    0.07    0.00    0.00    0.00    0.00    0.03    0.07    0.11    0.07    0.03    0.03    0.07    0.12    0.07    0.04    0.02    0.02    0.07    0.08    0.00    0.00    0.02    0.04    0.02    0.01    0.11    0.00    0.03    0.00    0.00    0.00    0.06    0.05    0.20    0.20    0.09    0.02    0.05    0.04    0.09    0.11    0.21    0.11    0.05    0.02    0.00    0.00    0.00    0.07    0.04    0.02    0.02    0.01    0.00    0.01    0.04    0.02  
SLC25A6ENSG00000169100  0.00    0.00    0.01    0.00    0.00    0.00    0.04    0.01    0.08    0.07    0.00    0.00    0.00    0.00    0.03    0.07    0.11    0.07    0.03    0.03    0.07    0.12    0.07    0.04    0.02    0.02    0.07    0.08    0.00    0.00    0.02    0.04    0.02    0.01    0.11    0.00    0.03    0.00    0.00    0.00    0.06    0.05    0.20    0.20    0.09    0.02    0.05    0.04    0.09    0.11    0.21    0.11    0.05    0.02    0.00    0.00    0.00    0.07    0.04    0.02    0.02    0.01    0.00    0.01    0.04    0.02  
PCSK9ENSG00000169174  0.00    0.01    0.02    0.01    0.00    0.00    0.01    0.06    0.10    0.04    0.00    0.00    0.06    0.04    0.08    0.05    0.06    0.03    0.04    0.03    0.03    0.04    0.03    0.04    0.01    0.05    0.00    0.04    0.00    0.01    0.03    0.05    0.00    0.25    0.04    0.03    0.00    0.17    0.00    0.00    0.08    0.05    0.32    0.10    0.07    0.03    0.05    0.02    0.04    0.04    0.16    0.04    0.03    0.03    0.02    0.00    0.00    0.11    0.00    0.02    0.02    0.01    0.00    0.07    0.03    0.03  
IL13ENSG00000169194  0.28    0.01    0.03    0.01    0.00    0.00    0.02    0.05    0.03    0.04    0.00    0.00    0.00    0.05    0.00    0.07    0.00    0.06    0.01    0.06    0.03    0.06    0.02    0.09    0.01    0.05    0.02    0.04    0.01    0.04    0.09    0.04    0.09    0.01    0.32    0.02    0.00    0.03    0.01    0.00    0.03    0.04    0.11    0.19    0.02    0.04    0.01    0.02    0.15    0.04    0.04    0.05    0.01    0.00    0.00    0.10    0.04    0.02    0.01    0.04    0.02    0.02    0.00    0.03    0.01    0.09  
OR10G3ENSG00000169208  0.00    0.01    0.00    0.02    0.00    0.00    0.00    0.03    0.09    0.06    0.00    0.00    0.00    0.05    0.14    0.02    0.12    0.08    0.08    0.06    0.09    0.07    0.08    0.04    0.03    0.02    0.01    0.07    0.01    0.05    0.07    0.00    0.00    0.02    0.29    0.03    0.01    0.02    0.00    0.00    0.08    0.03    0.37    0.08    0.08    0.01    0.06    0.04    0.20    0.10    0.18    0.07    0.02    0.01    0.00    0.01    0.00    0.00    0.03    0.03    0.00    0.09    0.00    0.00    0.03    0.02  
OR6F1ENSG00000169214  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  
RSPO1ENSG00000169218  0.00    0.03    0.01    0.03    0.00    0.00    0.00    0.01    0.11    0.04    0.00    0.00    0.11    0.05    0.08    0.03    0.09    0.04    0.06    0.02    0.16    0.02    0.05    0.04    0.02    0.03    0.01    0.04    0.03    0.01    0.02    0.11    0.00    0.26    0.01    0.03    0.03    0.07    0.00    0.00    0.07    0.05    0.59    0.08    0.05    0.02    0.07    0.03    0.05    0.04    0.10    0.03    0.06    0.03    0.02    0.00    0.00    0.07    0.00    0.01    0.03    0.02    0.00    0.10    0.04    0.03  
CA5BENSG00000169239  0.00    0.00    0.02    0.00    0.00    0.00    0.06    0.01    0.04    0.04    0.00    0.00    0.00    0.00    0.02    0.04    0.11    0.04    0.02    0.03    0.06    0.04    0.05    0.02    0.00    0.01    0.12    0.02    0.00    0.01    0.01    0.03    0.00    0.01    0.02    0.00    0.01    0.00    0.01    0.00    0.05    0.03    0.14    0.16    0.05    0.01    0.04    0.02    0.06    0.07    0.11    0.05    0.06    0.01    0.00    0.00    0.00    0.07    0.02    0.00    0.01    0.00    0.00    0.00    0.04    0.02  
CXCL10ENSG00000169245  0.01    0.00    0.00    0.01    0.00    0.00    0.03    0.01    0.13    0.02    0.00    0.00    0.00    0.08    0.07    0.03    0.21    0.01    0.08    0.01    0.20    0.03    0.07    0.05    0.01    0.02    0.03    0.02    0.01    0.01    0.02    0.08    0.05    0.03    0.04    0.00    0.02    0.02    0.00    0.00    0.13    0.02    0.22    0.13    0.07    0.02    0.03    0.01    0.05    0.05    0.08    0.06    0.06    0.02    0.00    0.01    0.00    0.03    0.00    0.02    0.00    0.01    0.00    0.00    0.01    0.02  
CXCL11ENSG00000169248  0.01    0.00    0.00    0.01    0.00    0.00    0.03    0.01    0.13    0.02    0.00    0.00    0.00    0.08    0.07    0.03    0.21    0.01    0.08    0.01    0.20    0.03    0.06    0.05    0.01    0.02    0.03    0.02    0.01    0.01    0.02    0.08    0.05    0.03    0.04    0.00    0.02    0.02    0.00    0.00    0.13    0.02    0.22    0.13    0.07    0.02    0.03    0.01    0.05    0.05    0.08    0.06    0.06    0.02    0.00    0.01    0.00    0.03    0.00    0.02    0.00    0.01    0.00    0.00    0.01    0.02  
ADRB2ENSG00000169252  0.30    0.00    0.02    0.01    0.03    0.00    0.02    0.02    0.03    0.05    0.00    0.00    0.02    0.05    0.04    0.04    0.01    0.03    0.01    0.04    0.03    0.03    0.02    0.04    0.01    0.02    0.03    0.01    0.02    0.02    0.09    0.02    0.09    0.01    0.24    0.04    0.00    0.03    0.01    0.00    0.03    0.02    0.18    0.09    0.02    0.01    0.02    0.02    0.05    0.02    0.06    0.04    0.00    0.00    0.00    0.10    0.04    0.00    0.00    0.06    0.01    0.03    0.00    0.03    0.03    0.14  
KCNAB1ENSG00000169282  0.04    0.01    0.01    0.01    0.00    0.00    0.04    0.01    0.12    0.01    0.00    0.00    0.00    0.03    0.13    0.01    0.90    0.01    0.46    0.00    0.62    0.02    0.15    0.01    0.02    0.00    0.05    0.01    0.03    0.00    0.08    0.01    0.03    0.01    0.10    0.01    0.00    0.07    0.00    0.00    0.16    0.01    0.72    0.02    0.50    0.01    0.17    0.01    0.21    0.02    0.06    0.08    0.11    0.00    0.00    0.00    0.01    0.02    0.01    0.01    0.02    0.03    0.00    0.00    0.01    0.03  

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