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 
KCNT2ENSG00000162687  0.02    0.00    0.00    0.00    0.00    0.00    0.01    0.02    0.15    0.05    0.02    0.00    0.10    0.01    0.10    0.01    0.09    0.02    0.05    0.01    0.11    0.07    0.05    0.02    0.04    0.01    0.11    0.02    0.01    0.01    0.22    0.01    0.20    0.02    0.04    0.05    0.01    0.01    0.00    0.00    0.19    0.01    0.29    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    0.01    0.06    0.00    0.18    0.03  
PRKACBENSG00000142875  0.00    0.00    0.01    0.01    0.00    0.00    0.01    0.07    0.06    0.07    0.00    0.00    0.00    0.29    0.05    0.08    0.03    0.06    0.01    0.07    0.02    0.08    0.01    0.07    0.00    0.08    0.01    0.06    0.00    0.01    0.01    0.03    0.00    0.14    0.04    0.04    0.01    0.17    0.00    0.00    0.05    0.09    0.11    0.21    0.01    0.04    0.03    0.03    0.06    0.06    0.18    0.05    0.03    0.05    0.01    0.01    0.05    0.00    0.01    0.01    0.02    0.05    0.03    0.03    0.04    0.10  
BMP4ENSG00000125378  0.00    0.01    0.00    0.00    0.00    0.00    0.00    0.01    0.02    0.03    0.00    0.01    0.00    0.04    0.10    0.02    0.06    0.04    0.05    0.01    0.14    0.01    0.07    0.02    0.00    0.02    0.01    0.02    0.01    0.01    0.04    0.05    0.05    0.06    0.04    0.05    0.01    0.01    0.00    0.00    0.07    0.03    0.05    0.14    0.01    0.02    0.02    0.01    0.00    0.03    0.03    0.07    0.00    0.00    0.00    0.00    0.04    0.00    0.01    0.03    0.00    0.05    0.00    0.00    0.01    0.03  
SLC38A6ENSG00000139974  0.00    0.02    0.01    0.01    0.00    0.00    0.01    0.04    0.03    0.04    0.00    0.01    0.00    0.03    0.06    0.03    0.03    0.06    0.07    0.01    0.04    0.01    0.05    0.04    0.00    0.03    0.02    0.02    0.01    0.00    0.01    0.08    0.00    0.29    0.04    0.03    0.01    0.03    0.00    0.00    0.05    0.06    0.04    0.24    0.02    0.01    0.01    0.02    0.05    0.06    0.02    0.09    0.00    0.01    0.00    0.00    0.04    0.00    0.02    0.08    0.01    0.07    0.03    0.00    0.01    0.04  
SMAD3ENSG00000166949  0.01    0.00    0.00    0.00    0.05    0.00    0.00    0.02    0.02    0.04    0.00    0.00    0.09    0.00    0.03    0.02    0.05    0.03    0.02    0.03    0.05    0.02    0.05    0.05    0.01    0.08    0.01    0.15    0.03    0.02    0.03    0.04    0.00    0.01    0.04    0.01    0.00    0.00    0.00    0.00    0.05    0.05    0.13    0.11    0.06    0.01    0.02    0.04    0.08    0.12    0.15    0.02    0.01    0.01    0.00    0.00    0.06    0.02    0.01    0.01    0.01    0.01    0.00    0.00    0.06    0.00  
TMPRSS9ENSG00000178297  0.00    0.01    0.00    0.02    0.00    0.02    0.01    0.05    0.03    0.12    0.02    0.00    0.03    0.10    0.02    0.08    0.02    0.12    0.02    0.13    0.04    0.15    0.01    0.08    0.01    0.05    0.01    0.10    0.00    0.07    0.03    0.13    0.00    0.03    0.08    0.01    0.01    0.00    0.00    0.01    0.03    0.16    0.02    0.91    0.08    0.19    0.01    0.27    0.02    0.79    0.18    0.15    0.00    0.00    0.00    0.01    0.02    0.03    0.02    0.02    0.06    0.01    0.01    0.02    0.02    0.06  
CPA2ENSG00000158516  0.01    0.01    0.13    0.00    0.01    0.00    0.02    0.04    0.03    0.04    0.00    0.01    0.04    0.05    0.08    0.02    0.06    0.06    0.02    0.12    0.05    0.18    0.03    0.07    0.02    0.00    0.03    0.02    0.01    0.04    0.05    0.04    0.00    0.02    0.04    0.06    0.00    0.01    0.00    0.00    0.09    0.03    0.40    0.03    0.03    0.07    0.07    0.05    0.15    0.14    0.14    0.04    0.02    0.03    0.00    0.05    0.02    0.11    0.13    0.00    0.09    0.00    0.00    0.00    0.19    0.01  
TNFSF8ENSG00000106952  0.00    0.00    0.01    0.00    0.00    0.00    0.03    0.01    0.03    0.03    0.00    0.00    0.02    0.00    0.05    0.02    0.06    0.01    0.05    0.00    0.13    0.01    0.07    0.02    0.00    0.01    0.04    0.02    0.00    0.01    0.03    0.04    0.06    0.04    0.08    0.00    0.00    0.00    0.00    0.01    0.05    0.04    0.09    0.11    0.04    0.00    0.01    0.04    0.00    0.15    0.08    0.03    0.03    0.01    0.00    0.00    0.05    0.00    0.00    0.00    0.02    0.01    0.00    0.00    0.02    0.01  
ABCG8ENSG00000143921  0.00    0.01    0.02    0.01    0.03    0.00    0.01    0.07    0.06    0.00    0.00    0.00    0.01    0.05    0.07    0.01    0.15    0.02    0.04    0.01    0.03    0.03    0.03    0.02    0.00    0.03    0.00    0.03    0.01    0.02    0.06    0.01    0.00    0.05    0.02    0.03    0.00    0.01    0.00    0.00    0.05    0.02    0.27    0.06    0.07    0.00    0.06    0.02    0.17    0.02    0.05    0.06    0.12    0.01    0.00    0.00    0.10    0.02    0.01    0.00    0.00    0.01    0.03    0.00    0.00    0.01  
RNF31ENSG00000092098  0.00    0.00    0.03    0.01    0.00    0.00    0.01    0.01    0.10    0.07    0.01    0.00    0.00    0.02    0.15    0.03    0.12    0.07    0.05    0.07    0.11    0.06    0.05    0.04    0.02    0.02    0.01    0.06    0.00    0.03    0.09    0.01    0.00    0.02    0.28    0.03    0.00    0.02    0.00    0.00    0.10    0.04    0.18    0.13    0.03    0.03    0.06    0.03    0.23    0.07    0.22    0.03    0.01    0.01    0.00    0.01    0.00    0.00    0.03    0.03    0.00    0.09    0.00    0.00    0.03    0.03  
SIGLEC6ENSG00000105492  0.01    0.00    0.00    0.02    0.00    0.00    0.02    0.00    0.14    0.03    0.00    0.00    0.00    0.06    0.02    0.08    0.07    0.09    0.03    0.02    0.06    0.03    0.08    0.03    0.02    0.02    0.01    0.03    0.04    0.04    0.04    0.03    0.00    0.07    0.23    0.02    0.00    0.03    0.00    0.00    0.14    0.03    0.10    0.30    0.07    0.07    0.04    0.05    0.16    0.14    0.04    0.19    0.00    0.06    0.01    0.00    0.13    0.03    0.01    0.16    0.03    0.14    0.00    0.00    0.03    0.03  
MSMBENSG00000263639  0.00    0.01    0.00    0.00    0.00    0.00    0.01    0.07    0.08    0.08    0.07    0.00    0.01    0.04    0.04    0.03    0.08    0.03    0.05    0.04    0.09    0.10    0.04    0.02    0.00    0.03    0.00    0.01    0.00    0.01    0.01    0.02    0.19    0.01    0.02    0.02    0.00    0.00    0.00    0.01    0.07    0.05    0.09    0.14    0.01    0.02    0.02    0.04    0.03    0.03    0.03    0.13    0.00    0.00    0.01    0.01    0.00    0.00    0.01    0.00    0.00    0.03    0.00    0.00    0.00    0.05  
SLIT3ENSG00000184347  0.33    0.01    0.05    0.01    0.00    0.00    0.05    0.01    0.01    0.11    0.00    0.00    0.02    0.07    0.09    0.04    0.02    0.04    0.02    0.06    0.07    0.03    0.03    0.04    0.01    0.03    0.03    0.06    0.02    0.02    0.13    0.02    0.05    0.01    0.38    0.02    0.02    0.03    0.01    0.00    0.07    0.04    0.19    0.15    0.03    0.03    0.03    0.03    0.22    0.01    0.17    0.07    0.00    0.00    0.00    0.04    0.02    0.00    0.00    0.08    0.02    0.05    0.04    0.00    0.05    0.10  
ADALENSG00000168803  0.00    0.01    0.00    0.02    0.14    0.00    0.01    0.06    0.02    0.06    0.00    0.00    0.02    0.33    0.01    0.09    0.01    0.08    0.02    0.04    0.04    0.05    0.01    0.07    0.01    0.08    0.00    0.06    0.00    0.04    0.00    0.02    0.00    0.07    0.02    0.09    0.00    0.00    0.00    0.00    0.02    0.10    0.04    0.33    0.01    0.09    0.02    0.08    0.05    0.30    0.07    0.07    0.01    0.03    0.00    0.00    0.02    0.15    0.00    0.02    0.01    0.11    0.00    0.00    0.01    0.17  
DHRS2ENSG00000100867  0.00    0.00    0.03    0.01    0.00    0.00    0.00    0.00    0.13    0.07    0.01    0.00    0.00    0.02    0.18    0.03    0.14    0.07    0.06    0.07    0.12    0.05    0.05    0.04    0.02    0.02    0.01    0.07    0.00    0.03    0.08    0.00    0.00    0.02    0.19    0.03    0.00    0.02    0.00    0.00    0.11    0.03    0.24    0.12    0.05    0.02    0.05    0.03    0.23    0.07    0.24    0.03    0.01    0.03    0.00    0.01    0.00    0.00    0.03    0.04    0.02    0.09    0.00    0.00    0.03    0.03  
SNRKENSG00000163788  0.00    0.18    0.00    0.02    0.08    0.00    0.01    0.01    0.05    0.09    0.00    0.01    0.01    0.42    0.01    0.05    0.00    0.08    0.01    0.05    0.01    0.07    0.03    0.09    0.00    0.03    0.04    0.05    0.00    0.03    0.05    0.02    0.00    0.20    0.01    0.02    0.00    0.02    0.00    0.00    0.02    0.13    0.07    0.19    0.02    0.05    0.02    0.04    0.02    0.19    0.05    0.10    0.04    0.04    0.00    0.01    0.00    0.12    0.01    0.04    0.02    0.05    0.00    0.03    0.02    0.05  
PTPN2ENSG00000175354  0.00    0.00    0.01    0.00    0.00    0.00    0.01    0.00    0.05    0.02    0.00    0.00    0.00    0.02    0.07    0.01    0.06    0.02    0.02    0.02    0.08    0.02    0.08    0.02    0.01    0.02    0.01    0.01    0.00    0.01    0.02    0.00    0.00    0.08    0.00    0.00    0.02    0.00    0.00    0.00    0.05    0.02    0.08    0.05    0.01    0.02    0.01    0.00    0.02    0.00    0.09    0.03    0.02    0.02    0.00    0.04    0.10    0.00    0.00    0.00    0.01    0.01    0.00    0.00    0.00    0.01  
AHCYL2ENSG00000158467  0.01    0.01    0.08    0.00    0.01    0.00    0.02    0.05    0.04    0.04    0.00    0.01    0.04    0.05    0.07    0.02    0.07    0.06    0.03    0.13    0.04    0.19    0.04    0.06    0.03    0.00    0.04    0.02    0.01    0.04    0.05    0.04    0.00    0.02    0.05    0.06    0.00    0.02    0.00    0.00    0.09    0.03    0.37    0.04    0.04    0.07    0.05    0.05    0.08    0.14    0.16    0.04    0.02    0.04    0.00    0.06    0.02    0.11    0.12    0.00    0.08    0.00    0.00    0.00    0.20    0.01  
GRK6ENSG00000198055  0.34    0.01    0.06    0.01    0.00    0.00    0.04    0.00    0.02    0.11    0.00    0.01    0.03    0.05    0.09    0.04    0.04    0.05    0.02    0.06    0.13    0.01    0.04    0.04    0.02    0.02    0.04    0.03    0.03    0.01    0.16    0.02    0.05    0.01    0.47    0.02    0.01    0.03    0.01    0.00    0.11    0.03    0.28    0.12    0.03    0.04    0.11    0.02    0.32    0.01    0.14    0.09    0.00    0.01    0.00    0.02    0.02    0.00    0.01    0.06    0.03    0.04    0.04    0.00    0.10    0.09  
SLITRK4ENSG00000179542  0.02    0.01    0.01    0.00    0.01    0.00    0.01    0.03    0.07    0.05    0.05    0.00    0.06    0.02    0.15    0.01    0.12    0.05    0.08    0.00    0.15    0.02    0.16    0.01    0.04    0.02    0.12    0.02    0.05    0.01    0.08    0.03    0.00    0.11    0.06    0.03    0.01    0.00    0.00    0.00    0.08    0.02    0.33    0.08    0.15    0.04    0.04    0.02    0.01    0.10    0.10    0.13    0.00    0.02    0.00    0.00    0.13    0.04    0.02    0.03    0.01    0.02    0.00    0.00    0.04    0.02  

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