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 
CAPZA1ENSG00000116489  0.00    0.00    0.00    0.01    0.00    0.00    0.00    0.04    0.05    0.05    0.00    0.00    0.00    0.33    0.01    0.14    0.01    0.16    0.00    0.15    0.06    0.13    0.05    0.08    0.00    0.08    0.05    0.08    0.00    0.02    0.01    0.04    0.00    0.14    0.02    0.05    0.00    0.25    0.00    0.00    0.04    0.10    0.15    0.14    0.01    0.09    0.02    0.03    0.07    0.09    0.03    0.11    0.03    0.04    0.00    0.01    0.00    0.05    0.00    0.01    0.01    0.03    0.03    0.03    0.09    0.10  
PRG4ENSG00000116690  0.02    0.00    0.01    0.00    0.00    0.00    0.01    0.03    0.20    0.04    0.02    0.00    0.10    0.03    0.10    0.00    0.15    0.01    0.04    0.01    0.20    0.03    0.08    0.00    0.04    0.01    0.15    0.01    0.04    0.00    0.15    0.02    0.20    0.01    0.00    0.05    0.01    0.00    0.01    0.00    0.17    0.01    0.33    0.04    0.10    0.00    0.06    0.00    0.20    0.00    0.20    0.06    0.07    0.00    0.01    0.00    0.30    0.02    0.01    0.01    0.01    0.01    0.04    0.00    0.13    0.03  
SLC35D1ENSG00000116704  0.00    0.01    0.01    0.01    0.00    0.00    0.00    0.06    0.04    0.05    0.00    0.02    0.02    0.03    0.05    0.05    0.03    0.05    0.02    0.04    0.02    0.05    0.02    0.04    0.00    0.07    0.00    0.07    0.00    0.01    0.03    0.03    0.00    0.12    0.02    0.03    0.00    0.16    0.00    0.00    0.06    0.06    0.16    0.12    0.05    0.04    0.03    0.02    0.00    0.06    0.16    0.02    0.01    0.05    0.02    0.01    0.00    0.03    0.00    0.01    0.03    0.02    0.03    0.07    0.02    0.04  
PLA2G4AENSG00000116711  0.02    0.00    0.00    0.00    0.00    0.00    0.01    0.03    0.22    0.03    0.02    0.00    0.10    0.03    0.10    0.00    0.14    0.01    0.06    0.01    0.18    0.04    0.08    0.01    0.04    0.01    0.15    0.01    0.04    0.00    0.15    0.02    0.20    0.01    0.02    0.05    0.01    0.00    0.01    0.00    0.17    0.01    0.32    0.04    0.09    0.00    0.06    0.01    0.20    0.03    0.23    0.07    0.07    0.00    0.01    0.00    0.30    0.02    0.00    0.01    0.01    0.01    0.04    0.00    0.13    0.02  
OLFML3ENSG00000116774  0.00    0.01    0.00    0.01    0.00    0.00    0.00    0.04    0.07    0.04    0.00    0.00    0.00    0.31    0.01    0.14    0.02    0.16    0.00    0.15    0.05    0.19    0.05    0.08    0.00    0.07    0.06    0.08    0.01    0.02    0.03    0.03    0.00    0.11    0.02    0.05    0.00    0.26    0.00    0.00    0.04    0.09    0.16    0.14    0.01    0.08    0.02    0.03    0.06    0.06    0.03    0.12    0.05    0.04    0.00    0.01    0.03    0.05    0.00    0.01    0.01    0.03    0.00    0.05    0.12    0.10  
TNNI3KENSG00000116783  0.00    0.01    0.01    0.01    0.00    0.00    0.00    0.07    0.10    0.05    0.00    0.00    0.00    0.16    0.03    0.06    0.06    0.07    0.01    0.06    0.01    0.09    0.02    0.06    0.00    0.08    0.01    0.06    0.00    0.01    0.01    0.05    0.00    0.12    0.06    0.03    0.00    0.20    0.00    0.00    0.04    0.07    0.11    0.16    0.05    0.04    0.01    0.02    0.07    0.06    0.21    0.02    0.03    0.03    0.02    0.01    0.00    0.03    0.00    0.01    0.02    0.03    0.03    0.05    0.05    0.07  
CFHR3ENSG00000116785  0.01    0.00    0.00    0.00    0.00    0.00    0.01    0.03    0.14    0.05    0.02    0.00    0.10    0.00    0.10    0.01    0.09    0.01    0.05    0.01    0.11    0.07    0.05    0.02    0.04    0.00    0.11    0.02    0.01    0.00    0.20    0.01    0.20    0.02    0.04    0.03    0.01    0.00    0.00    0.00    0.18    0.01    0.27    0.06    0.07    0.00    0.07    0.01    0.07    0.03    0.12    0.11    0.06    0.00    0.01    0.01    0.26    0.02    0.00    0.01    0.01    0.02    0.06    0.00    0.17    0.03  
CD58ENSG00000116815  0.00    0.01    0.00    0.02    0.00    0.00    0.01    0.03    0.07    0.05    0.00    0.00    0.00    0.28    0.01    0.14    0.04    0.19    0.00    0.16    0.13    0.15    0.04    0.09    0.00    0.06    0.01    0.07    0.13    0.02    0.02    0.03    0.00    0.10    0.05    0.05    0.04    0.26    0.00    0.00    0.07    0.08    0.18    0.12    0.02    0.08    0.03    0.02    0.08    0.06    0.04    0.11    0.07    0.03    0.00    0.01    0.03    0.28    0.00    0.01    0.01    0.03    0.00    0.05    0.10    0.10  
BMP8BENSG00000116985  0.01    0.02    0.01    0.04    0.00    0.00    0.01    0.01    0.34    0.02    0.00    0.00    0.11    0.03    0.12    0.02    0.17    0.03    0.09    0.02    0.30    0.02    0.07    0.03    0.04    0.02    0.01    0.03    0.04    0.01    0.03    0.10    0.00    0.31    0.00    0.03    0.03    0.07    0.00    0.00    0.08    0.04    0.75    0.06    0.07    0.01    0.12    0.01    0.18    0.05    0.11    0.03    0.05    0.03    0.02    0.00    0.00    0.03    0.00    0.01    0.04    0.01    0.02    0.10    0.05    0.03  
ZP4ENSG00000116996  0.01    0.02    0.01    0.01    0.00    0.00    0.01    0.08    0.10    0.03    0.02    0.00    0.05    0.04    0.09    0.01    0.14    0.02    0.08    0.01    0.19    0.05    0.11    0.01    0.04    0.02    0.07    0.03    0.01    0.01    0.17    0.01    0.23    0.02    0.04    0.03    0.00    0.04    0.00    0.00    0.25    0.02    0.49    0.10    0.09    0.01    0.12    0.02    0.30    0.00    0.04    0.24    0.06    0.02    0.02    0.00    0.06    0.12    0.00    0.04    0.02    0.05    0.08    0.03    0.17    0.03  
KCNQ4ENSG00000117013  0.01    0.02    0.01    0.03    0.00    0.00    0.00    0.01    0.25    0.02    0.00    0.00    0.11    0.03    0.13    0.02    0.11    0.02    0.08    0.02    0.29    0.02    0.07    0.03    0.04    0.02    0.04    0.01    0.08    0.00    0.03    0.10    0.00    0.26    0.00    0.03    0.03    0.08    0.00    0.00    0.09    0.04    0.76    0.05    0.12    0.01    0.14    0.01    0.22    0.05    0.12    0.03    0.05    0.03    0.02    0.00    0.00    0.03    0.00    0.01    0.04    0.02    0.00    0.10    0.04    0.02  
CD48ENSG00000117091  0.03    0.00    0.01    0.01    0.00    0.03    0.02    0.04    0.81    0.00    0.02    0.00    0.10    0.02    0.27    0.00    0.29    0.00    0.06    0.00    0.29    0.00    0.14    0.00    0.03    0.00    0.11    0.00    0.07    0.00    0.31    0.00    0.30    0.01    0.16    0.00    0.04    0.00    0.00    0.00    0.32    0.00    0.39    0.02    0.16    0.00    0.14    0.00    0.37    0.00    0.46    0.02    0.10    0.00    0.00    0.00    0.25    0.02    0.01    0.00    0.02    0.00    0.00    0.00    0.17    0.01  
MFAP2ENSG00000117122  0.00    0.06    0.01    0.08    0.00    0.00    0.00    0.04    0.07    0.08    0.00    0.01    0.04    0.26    0.07    0.06    0.04    0.11    0.03    0.09    0.07    0.09    0.06    0.09    0.00    0.16    0.00    0.21    0.02    0.06    0.03    0.23    0.00    1.11    0.03    0.07    0.01    0.09    0.00    0.00    0.02    0.21    0.13    0.42    0.04    0.08    0.06    0.13    0.03    0.25    0.19    0.17    0.05    0.08    0.02    0.00    0.00    0.07    0.00    0.02    0.04    0.08    0.00    0.07    0.07    0.09  
CTBSENSG00000117151  0.00    0.00    0.01    0.01    0.00    0.00    0.00    0.07    0.04    0.06    0.00    0.00    0.00    0.29    0.05    0.08    0.04    0.05    0.01    0.07    0.01    0.07    0.01    0.06    0.00    0.07    0.01    0.06    0.00    0.01    0.01    0.03    0.00    0.08    0.04    0.04    0.01    0.20    0.00    0.00    0.05    0.09    0.12    0.21    0.01    0.04    0.02    0.03    0.09    0.06    0.15    0.05    0.03    0.05    0.01    0.01    0.10    0.00    0.01    0.01    0.02    0.04    0.03    0.03    0.05    0.10  
PLA2G2DENSG00000117215  0.00    0.06    0.00    0.08    0.00    0.00    0.01    0.03    0.07    0.09    0.00    0.01    0.04    0.25    0.05    0.07    0.03    0.11    0.03    0.07    0.05    0.09    0.07    0.11    0.00    0.16    0.00    0.22    0.01    0.07    0.03    0.22    0.00    1.10    0.01    0.06    0.01    0.10    0.00    0.00    0.02    0.20    0.13    0.43    0.05    0.08    0.05    0.13    0.03    0.15    0.18    0.12    0.05    0.06    0.02    0.01    0.00    0.07    0.00    0.03    0.04    0.10    0.00    0.12    0.06    0.09  
CD160ENSG00000117281  0.03    0.00    0.01    0.01    0.00    0.00    0.04    0.03    0.50    0.04    0.02    0.00    0.10    0.13    0.38    0.12    0.28    0.13    0.10    0.16    0.23    0.11    0.19    0.04    0.02    0.04    0.15    0.03    0.05    0.01    0.33    0.03    0.39    0.01    0.17    0.03    0.10    0.26    0.00    0.00    0.36    0.05    0.60    0.09    0.15    0.06    0.25    0.02    0.41    0.04    0.41    0.12    0.12    0.03    0.00    0.00    0.28    0.02    0.01    0.01    0.02    0.03    0.00    0.03    0.17    0.05  
GALEENSG00000117308  0.00    0.06    0.00    0.08    0.00    0.00    0.00    0.04    0.07    0.08    0.00    0.03    0.04    0.23    0.04    0.06    0.03    0.11    0.02    0.07    0.05    0.10    0.05    0.11    0.00    0.17    0.00    0.21    0.01    0.08    0.02    0.21    0.00    1.06    0.01    0.05    0.01    0.09    0.00    0.00    0.01    0.18    0.13    0.43    0.04    0.09    0.03    0.12    0.18    0.18    0.14    0.10    0.03    0.06    0.02    0.00    0.00    0.11    0.00    0.03    0.02    0.11    0.00    0.09    0.07    0.08  
MPLENSG00000117400  0.00    0.02    0.01    0.03    0.00    0.00    0.00    0.02    0.14    0.03    0.00    0.00    0.08    0.03    0.11    0.02    0.11    0.01    0.08    0.02    0.14    0.01    0.05    0.02    0.03    0.02    0.02    0.01    0.03    0.00    0.05    0.09    0.00    0.22    0.01    0.03    0.02    0.09    0.00    0.00    0.08    0.04    0.58    0.05    0.10    0.00    0.11    0.02    0.18    0.05    0.12    0.04    0.05    0.03    0.02    0.00    0.00    0.05    0.00    0.01    0.02    0.00    0.00    0.07    0.05    0.02  
ARTNENSG00000117407  0.00    0.02    0.01    0.03    0.00    0.00    0.01    0.02    0.13    0.03    0.00    0.00    0.08    0.03    0.10    0.02    0.10    0.02    0.08    0.01    0.08    0.03    0.04    0.02    0.02    0.01    0.02    0.01    0.03    0.00    0.01    0.09    0.00    0.27    0.00    0.03    0.03    0.11    0.00    0.00    0.08    0.04    0.50    0.05    0.11    0.00    0.10    0.01    0.20    0.05    0.11    0.03    0.05    0.03    0.02    0.00    0.00    0.05    0.00    0.01    0.03    0.00    0.00    0.07    0.04    0.02  
ATP6V0BENSG00000117410  0.00    0.02    0.01    0.03    0.00    0.00    0.01    0.02    0.13    0.03    0.00    0.00    0.08    0.03    0.10    0.02    0.10    0.02    0.08    0.01    0.08    0.03    0.05    0.03    0.02    0.01    0.02    0.01    0.03    0.00    0.01    0.08    0.00    0.27    0.01    0.03    0.02    0.11    0.00    0.00    0.08    0.04    0.49    0.05    0.11    0.00    0.09    0.01    0.18    0.03    0.11    0.03    0.05    0.03    0.02    0.00    0.00    0.05    0.00    0.01    0.03    0.00    0.00    0.07    0.04    0.02  

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