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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GLRBENSG00000109738  0.00    0.03    0.00    0.02    0.06    0.02    0.02    0.05    0.05    0.13    0.00    0.00    0.00    0.03    0.04    0.06    0.02    0.12    0.01    0.10    0.12    0.11    0.07    0.08    0.01    0.07    0.02    0.04    0.00    0.03    0.06    0.06    0.00    0.12    0.10    0.05    0.00    0.03    0.00    0.00    0.05    0.08    0.07    0.28    0.02    0.08    0.02    0.05    0.12    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    0.03    0.06  
BST1ENSG00000109743  0.01    0.00    0.01    0.00    0.02    0.00    0.02    0.03    0.04    0.04    0.00    0.00    0.00    0.00    0.03    0.02    0.03    0.06    0.02    0.05    0.04    0.04    0.04    0.03    0.01    0.02    0.03    0.03    0.00    0.02    0.03    0.03    0.00    0.01    0.04    0.00    0.00    0.00    0.00    0.00    0.03    0.04    0.18    0.06    0.01    0.01    0.06    0.02    0.06    0.00    0.07    0.04    0.04    0.00    0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.02    0.05    0.00    0.03    0.01  
HGFACENSG00000109758  0.01    0.00    0.01    0.00    0.00    0.01    0.02    0.03    0.08    0.04    0.00    0.02    0.00    0.03    0.04    0.04    0.04    0.05    0.03    0.06    0.04    0.08    0.06    0.06    0.02    0.03    0.04    0.03    0.01    0.02    0.04    0.07    0.00    0.01    0.08    0.00    0.01    0.00    0.01    0.00    0.03    0.06    0.28    0.07    0.02    0.05    0.07    0.05    0.21    0.00    0.12    0.04    0.02    0.01    0.00    0.00    0.00    0.02    0.01    0.00    0.01    0.01    0.02    0.00    0.04    0.05  
CTSCENSG00000109861  0.01    0.01    0.00    0.03    0.00    0.03    0.03    0.01    0.10    0.04    0.00    0.00    0.09    0.04    0.13    0.02    0.10    0.05    0.10    0.08    0.15    0.02    0.08    0.02    0.02    0.00    0.01    0.03    0.01    0.01    0.03    0.04    0.00    0.02    0.00    0.02    0.00    0.03    0.00    0.00    0.16    0.08    0.43    0.06    0.17    0.05    0.06    0.03    0.06    0.19    0.06    0.09    0.04    0.07    0.00    0.00    0.00    0.05    0.00    0.00    0.02    0.01    0.00    0.00    0.11    0.06  
CRTAMENSG00000109943  0.00    0.01    0.00    0.05    0.02    0.02    0.01    0.07    0.03    0.10    0.00    0.00    0.13    0.06    0.04    0.09    0.06    0.10    0.05    0.14    0.04    0.13    0.05    0.08    0.01    0.01    0.01    0.04    0.02    0.02    0.00    0.10    0.00    0.19    0.00    0.03    0.00    0.05    0.00    0.00    0.02    0.22    0.17    0.18    0.04    0.31    0.04    0.07    0.05    0.17    0.02    0.24    0.00    0.23    0.03    0.00    0.13    0.02    0.07    0.01    0.03    0.01    0.00    0.07    0.01    0.25  
DCPSENSG00000110063  0.00    0.01    0.00    0.05    0.00    0.05    0.02    0.06    0.03    0.10    0.00    0.00    0.11    0.04    0.05    0.09    0.04    0.10    0.04    0.14    0.13    0.14    0.05    0.08    0.02    0.01    0.01    0.03    0.01    0.02    0.01    0.09    0.00    0.23    0.02    0.06    0.00    0.05    0.00    0.00    0.05    0.22    0.22    0.17    0.04    0.32    0.06    0.08    0.05    0.17    0.01    0.26    0.00    0.28    0.04    0.00    0.13    0.02    0.06    0.01    0.01    0.01    0.00    0.07    0.01    0.26  
CCKBRENSG00000110148  0.00    0.00    0.00    0.01    0.00    0.03    0.01    0.01    0.00    0.10    0.00    0.00    0.02    0.08    0.01    0.06    0.02    0.14    0.01    0.06    0.06    0.09    0.04    0.04    0.02    0.01    0.01    0.02    0.00    0.05    0.04    0.02    0.03    0.01    0.01    0.07    0.02    0.07    0.00    0.00    0.02    0.10    0.01    0.42    0.01    0.05    0.02    0.07    0.03    0.09    0.03    0.13    0.02    0.00    0.00    0.00    0.05    0.00    0.01    0.09    0.01    0.05    0.00    0.00    0.01    0.03  
HPXENSG00000110169  0.01    0.00    0.01    0.01    0.00    0.03    0.01    0.01    0.00    0.10    0.00    0.00    0.02    0.08    0.01    0.06    0.02    0.14    0.01    0.06    0.05    0.09    0.02    0.04    0.01    0.01    0.01    0.02    0.00    0.05    0.05    0.02    0.03    0.01    0.01    0.07    0.02    0.07    0.00    0.00    0.03    0.10    0.01    0.41    0.01    0.05    0.02    0.06    0.03    0.09    0.03    0.13    0.02    0.00    0.00    0.00    0.05    0.00    0.01    0.09    0.01    0.05    0.00    0.00    0.01    0.03  
FOLR1ENSG00000110195  0.00    0.01    0.01    0.01    0.10    0.00    0.03    0.00    0.24    0.03    0.00    0.00    0.08    0.00    0.12    0.01    0.21    0.03    0.47    0.03    0.87    0.03    0.14    0.03    0.01    0.01    0.02    0.02    0.02    0.02    0.07    0.02    0.00    0.02    0.05    0.00    0.03    0.00    0.00    0.00    0.29    0.06    0.43    0.04    0.12    0.01    0.07    0.01    0.16    0.10    0.11    0.06    0.00    0.06    0.00    0.00    0.00    0.02    0.01    0.00    0.01    0.02    0.00    0.00    0.26    0.01  
FOLR3ENSG00000110203  0.00    0.01    0.01    0.01    0.10    0.02    0.04    0.00    0.24    0.03    0.00    0.00    0.08    0.02    0.12    0.01    0.21    0.03    0.49    0.03    0.92    0.03    0.14    0.03    0.01    0.01    0.02    0.02    0.02    0.02    0.07    0.02    0.00    0.02    0.05    0.01    0.03    0.00    0.00    0.00    0.27    0.06    0.44    0.04    0.12    0.01    0.06    0.01    0.16    0.10    0.11    0.06    0.00    0.06    0.00    0.00    0.00    0.02    0.01    0.00    0.01    0.02    0.00    0.00    0.27    0.01  
APOA4ENSG00000110244  0.00    0.01    0.00    0.07    0.02    0.02    0.01    0.09    0.03    0.11    0.00    0.00    0.02    0.06    0.04    0.08    0.04    0.09    0.04    0.16    0.07    0.13    0.06    0.08    0.01    0.02    0.00    0.03    0.01    0.01    0.02    0.09    0.00    0.17    0.00    0.05    0.00    0.06    0.00    0.00    0.02    0.24    0.14    0.17    0.04    0.29    0.03    0.05    0.11    0.18    0.02    0.20    0.01    0.14    0.02    0.00    0.11    0.01    0.04    0.01    0.03    0.01    0.00    0.07    0.00    0.27  
APOC3ENSG00000110245  0.00    0.01    0.00    0.07    0.02    0.02    0.01    0.09    0.03    0.11    0.00    0.00    0.02    0.06    0.04    0.08    0.04    0.09    0.04    0.16    0.07    0.13    0.06    0.08    0.01    0.02    0.00    0.03    0.01    0.01    0.02    0.09    0.00    0.17    0.00    0.05    0.00    0.06    0.00    0.00    0.02    0.24    0.14    0.17    0.04    0.29    0.03    0.05    0.11    0.18    0.02    0.20    0.01    0.14    0.02    0.00    0.11    0.01    0.04    0.01    0.03    0.01    0.00    0.07    0.00    0.27  
SLC15A3ENSG00000110446  0.01    0.00    0.00    0.01    0.09    0.00    0.01    0.01    0.12    0.01    0.00    0.00    0.08    0.00    0.06    0.03    0.06    0.02    0.12    0.02    0.13    0.03    0.04    0.03    0.01    0.01    0.05    0.02    0.00    0.02    0.03    0.02    0.04    0.09    0.06    0.00    0.02    0.00    0.00    0.00    0.13    0.07    0.11    0.05    0.05    0.03    0.04    0.02    0.14    0.14    0.06    0.03    0.00    0.05    0.00    0.00    0.00    0.02    0.00    0.01    0.00    0.03    0.00    0.00    0.05    0.04  
SLC22A18ENSG00000110628  0.01    0.00    0.01    0.00    0.01    0.03    0.00    0.02    0.01    0.11    0.00    0.00    0.02    0.05    0.02    0.07    0.01    0.16    0.02    0.07    0.02    0.15    0.01    0.09    0.02    0.01    0.01    0.04    0.00    0.06    0.05    0.03    0.03    0.01    0.06    0.08    0.02    0.07    0.00    0.00    0.02    0.12    0.03    0.47    0.02    0.07    0.04    0.08    0.05    0.09    0.08    0.14    0.02    0.02    0.00    0.00    0.05    0.00    0.01    0.10    0.01    0.06    0.00    0.00    0.01    0.05  
CD81ENSG00000110651  0.00    0.00    0.01    0.00    0.01    0.03    0.01    0.02    0.01    0.11    0.00    0.00    0.02    0.05    0.02    0.07    0.01    0.16    0.02    0.07    0.02    0.15    0.02    0.06    0.04    0.01    0.01    0.03    0.01    0.06    0.04    0.03    0.03    0.01    0.01    0.05    0.02    0.07    0.00    0.00    0.02    0.12    0.04    0.46    0.01    0.07    0.04    0.08    0.11    0.09    0.07    0.15    0.02    0.04    0.00    0.00    0.05    0.00    0.01    0.10    0.01    0.05    0.00    0.00    0.01    0.06  
CALCAENSG00000110680  0.01    0.00    0.00    0.00    0.00    0.03    0.01    0.01    0.03    0.08    0.00    0.00    0.02    0.01    0.02    0.03    0.11    0.08    0.04    0.04    0.04    0.04    0.04    0.02    0.02    0.01    0.01    0.01    0.03    0.03    0.03    0.01    0.00    0.03    0.00    0.02    0.06    0.04    0.00    0.00    0.05    0.06    0.04    0.26    0.01    0.04    0.06    0.04    0.12    0.04    0.06    0.09    0.01    0.01    0.00    0.00    0.00    0.00    0.01    0.04    0.00    0.02    0.00    0.00    0.03    0.01  
AIPENSG00000110711  0.01    0.00    0.00    0.00    0.09    0.00    0.10    0.00    0.23    0.01    0.00    0.00    0.08    0.00    0.15    0.01    0.18    0.02    0.42    0.01    0.47    0.02    0.17    0.03    0.01    0.01    0.05    0.02    0.02    0.01    0.14    0.01    0.18    0.02    0.05    0.01    0.03    0.00    0.00    0.00    0.50    0.04    0.29    0.03    0.22    0.01    0.16    0.02    0.26    0.04    0.13    0.03    0.00    0.05    0.00    0.00    0.00    0.06    0.01    0.01    0.01    0.03    0.00    0.00    0.25    0.02  
PTPN5ENSG00000110786  0.00    0.00    0.00    0.00    0.02    0.03    0.01    0.01    0.02    0.07    0.00    0.00    0.02    0.05    0.02    0.03    0.06    0.06    0.01    0.04    0.04    0.03    0.02    0.02    0.02    0.00    0.02    0.01    0.00    0.02    0.04    0.01    0.00    0.03    0.00    0.02    0.06    0.04    0.00    0.00    0.08    0.04    0.03    0.25    0.01    0.04    0.03    0.03    0.01    0.04    0.07    0.07    0.01    0.00    0.00    0.00    0.00    0.00    0.02    0.02    0.01    0.01    0.00    0.00    0.02    0.01  
P3H3ENSG00000110811  0.01    0.00    0.00    0.01    0.02    0.00    0.01    0.06    0.09    0.02    0.01    0.00    0.00    0.08    0.07    0.07    0.17    0.01    0.11    0.01    0.08    0.02    0.06    0.05    0.06    0.02    0.05    0.04    0.06    0.06    0.03    0.04    0.18    0.05    0.09    0.00    0.00    0.01    0.00    0.00    0.13    0.04    0.35    0.07    0.03    0.02    0.09    0.02    0.18    0.03    0.08    0.11    0.60    0.00    0.00    0.00    0.00    0.05    0.15    0.01    0.05    0.01    0.00    0.01    0.04    0.04  
SELPLGENSG00000110876  0.01    0.01    0.02    0.00    0.06    0.02    0.04    0.03    0.07    0.03    0.00    0.00    0.02    0.00    0.02    0.05    0.02    0.04    0.02    0.03    0.08    0.04    0.04    0.02    0.00    0.01    0.01    0.01    0.00    0.06    0.02    0.03    0.00    0.22    0.11    0.01    0.00    0.03    0.00    0.00    0.04    0.07    0.10    0.20    0.01    0.01    0.02    0.05    0.11    0.07    0.11    0.05    0.00    0.01    0.00    0.00    0.10    0.00    0.01    0.03    0.01    0.01    0.00    0.00    0.02    0.07  

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