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 
GLRA3ENSG00000145451  0.00    0.03    0.00    0.03    0.10    0.04    0.03    0.04    0.04    0.18    0.00    0.02    0.00    0.05    0.01    0.11    0.03    0.18    0.02    0.11    0.05    0.12    0.03    0.15    0.02    0.10    0.02    0.07    0.00    0.05    0.06    0.16    0.00    0.19    0.10    0.11    0.00    0.04    0.00    0.01    0.04    0.09    0.06    0.36    0.05    0.10    0.02    0.06    0.09    0.16    0.06    0.24    0.02    0.00    0.00    0.00    0.03    0.09    0.01    0.10    0.00    0.07    0.00    0.00    0.03    0.07  
CYP4V2ENSG00000145476  0.00    0.03    0.00    0.02    0.10    0.04    0.03    0.03    0.03    0.19    0.00    0.02    0.00    0.07    0.02    0.12    0.03    0.21    0.03    0.16    0.07    0.12    0.03    0.22    0.01    0.12    0.02    0.10    0.00    0.06    0.07    0.20    0.00    0.35    0.19    0.18    0.02    0.06    0.00    0.00    0.05    0.12    0.08    0.39    0.06    0.18    0.03    0.09    0.13    0.16    0.06    0.33    0.02    0.00    0.00    0.00    0.03    0.12    0.00    0.12    0.00    0.09    0.00    0.00    0.05    0.10  
SRD5A1ENSG00000145545  0.01    0.00    0.03    0.01    0.03    0.02    0.02    0.02    0.19    0.03    0.00    0.01    0.06    0.00    0.29    0.01    0.30    0.01    0.09    0.02    0.19    0.02    0.09    0.03    0.02    0.01    0.02    0.02    0.03    0.01    0.08    0.02    0.00    0.05    0.18    0.09    0.00    0.00    0.00    0.00    0.08    0.02    0.35    0.04    0.14    0.02    0.09    0.01    0.08    0.03    0.20    0.06    0.01    0.02    0.00    0.01    0.06    0.00    0.00    0.05    0.01    0.02    0.00    0.02    0.12    0.07  
PLK2ENSG00000145632  0.00    0.01    0.00    0.01    0.03    0.00    0.01    0.21    0.03    0.13    0.00    0.00    0.00    0.01    0.03    0.07    0.03    0.10    0.04    0.09    0.02    0.15    0.02    0.13    0.01    0.05    0.00    0.05    0.00    0.05    0.01    0.02    0.00    0.13    0.08    0.00    0.00    0.03    0.00    0.00    0.04    0.10    0.03    0.58    0.00    0.07    0.01    0.13    0.01    0.35    0.06    0.06    0.00    0.02    0.00    0.01    0.00    0.00    0.00    0.01    0.00    0.01    0.00    0.00    0.05    0.03  
HAPLN1ENSG00000145681  0.01    0.01    0.01    0.01    0.03    0.01    0.01    0.08    0.01    0.09    0.00    0.01    0.00    0.03    0.02    0.07    0.01    0.09    0.01    0.08    0.01    0.12    0.00    0.12    0.00    0.07    0.01    0.02    0.00    0.07    0.02    0.03    0.00    0.08    0.06    0.03    0.00    0.05    0.00    0.00    0.01    0.08    0.03    0.65    0.00    0.06    0.00    0.09    0.00    0.21    0.02    0.04    0.00    0.00    0.00    0.03    0.00    0.00    0.01    0.01    0.00    0.01    0.00    0.00    0.08    0.03  
BHMTENSG00000145692  0.01    0.01    0.01    0.01    0.03    0.01    0.00    0.16    0.02    0.11    0.00    0.01    0.00    0.03    0.01    0.08    0.00    0.09    0.01    0.08    0.02    0.13    0.00    0.12    0.01    0.05    0.01    0.05    0.00    0.07    0.02    0.04    0.00    0.08    0.09    0.03    0.02    0.04    0.00    0.00    0.01    0.10    0.02    0.67    0.00    0.05    0.00    0.09    0.00    0.25    0.04    0.04    0.01    0.00    0.00    0.02    0.02    0.00    0.01    0.01    0.00    0.01    0.00    0.00    0.06    0.04  
CRHBPENSG00000145708  0.00    0.01    0.01    0.01    0.03    0.01    0.00    0.17    0.02    0.13    0.00    0.01    0.00    0.03    0.01    0.07    0.00    0.10    0.01    0.07    0.02    0.15    0.02    0.12    0.00    0.06    0.01    0.05    0.00    0.07    0.03    0.03    0.00    0.13    0.09    0.00    0.00    0.03    0.00    0.00    0.01    0.09    0.03    0.70    0.00    0.05    0.01    0.10    0.00    0.23    0.04    0.05    0.00    0.00    0.00    0.02    0.00    0.00    0.01    0.02    0.00    0.01    0.00    0.00    0.05    0.04  
TSLPENSG00000145777  0.18    0.01    0.02    0.01    0.00    0.01    0.01    0.15    0.02    0.09    0.00    0.01    0.00    0.08    0.01    0.07    0.00    0.07    0.00    0.06    0.03    0.07    0.02    0.13    0.01    0.14    0.01    0.09    0.00    0.04    0.06    0.04    0.00    0.02    0.17    0.04    0.00    0.04    0.00    0.00    0.02    0.05    0.08    0.38    0.00    0.06    0.01    0.03    0.01    0.09    0.08    0.04    0.01    0.00    0.00    0.08    0.04    0.02    0.01    0.02    0.00    0.01    0.00    0.00    0.05    0.05  
CXCL14ENSG00000145824  0.28    0.01    0.02    0.01    0.00    0.00    0.03    0.03    0.03    0.04    0.00    0.00    0.00    0.04    0.00    0.06    0.01    0.04    0.01    0.04    0.03    0.05    0.02    0.07    0.01    0.04    0.02    0.03    0.01    0.03    0.06    0.04    0.09    0.01    0.24    0.02    0.00    0.06    0.01    0.00    0.03    0.04    0.10    0.16    0.03    0.02    0.01    0.01    0.10    0.01    0.05    0.04    0.00    0.00    0.00    0.10    0.04    0.00    0.00    0.03    0.01    0.02    0.00    0.03    0.03    0.10  
LECT2ENSG00000145826  0.28    0.01    0.02    0.01    0.00    0.00    0.03    0.03    0.03    0.05    0.00    0.00    0.00    0.04    0.00    0.07    0.01    0.04    0.01    0.04    0.04    0.05    0.02    0.08    0.01    0.04    0.02    0.03    0.01    0.03    0.06    0.05    0.09    0.01    0.24    0.02    0.00    0.06    0.01    0.00    0.03    0.04    0.11    0.14    0.03    0.02    0.01    0.01    0.10    0.01    0.08    0.04    0.00    0.00    0.00    0.10    0.04    0.00    0.00    0.03    0.01    0.02    0.00    0.03    0.04    0.10  
SLC25A48ENSG00000145832  0.28    0.01    0.02    0.01    0.00    0.00    0.03    0.03    0.03    0.05    0.00    0.00    0.00    0.04    0.00    0.07    0.01    0.04    0.01    0.04    0.04    0.07    0.02    0.08    0.01    0.04    0.02    0.03    0.01    0.03    0.06    0.04    0.09    0.01    0.24    0.02    0.00    0.06    0.01    0.00    0.03    0.04    0.11    0.14    0.03    0.02    0.01    0.01    0.10    0.01    0.07    0.04    0.00    0.00    0.00    0.10    0.04    0.00    0.00    0.03    0.01    0.02    0.00    0.03    0.03    0.10  
IL9ENSG00000145839  0.28    0.01    0.02    0.01    0.00    0.00    0.03    0.03    0.03    0.05    0.00    0.00    0.00    0.04    0.00    0.07    0.01    0.04    0.01    0.04    0.04    0.05    0.02    0.08    0.01    0.04    0.02    0.03    0.01    0.03    0.06    0.04    0.09    0.01    0.24    0.02    0.00    0.06    0.01    0.00    0.03    0.04    0.11    0.14    0.03    0.02    0.01    0.01    0.10    0.01    0.07    0.04    0.00    0.00    0.00    0.10    0.04    0.00    0.00    0.03    0.01    0.02    0.00    0.03    0.03    0.10  
GABRA6ENSG00000145863  0.31    0.01    0.04    0.01    0.02    0.00    0.04    0.02    0.01    0.08    0.00    0.00    0.02    0.08    0.04    0.04    0.02    0.06    0.01    0.05    0.04    0.01    0.03    0.04    0.01    0.02    0.04    0.03    0.02    0.01    0.10    0.03    0.09    0.01    0.23    0.02    0.00    0.04    0.01    0.00    0.05    0.04    0.17    0.15    0.04    0.02    0.03    0.02    0.15    0.08    0.12    0.10    0.00    0.00    0.00    0.05    0.00    0.00    0.01    0.08    0.01    0.05    0.04    0.00    0.01    0.12  
GABRB2ENSG00000145864  0.31    0.01    0.04    0.01    0.02    0.00    0.04    0.03    0.01    0.08    0.00    0.00    0.02    0.08    0.04    0.04    0.02    0.07    0.01    0.05    0.04    0.01    0.03    0.04    0.01    0.02    0.04    0.03    0.02    0.01    0.10    0.03    0.09    0.01    0.23    0.02    0.00    0.04    0.01    0.00    0.05    0.04    0.17    0.15    0.04    0.02    0.03    0.03    0.15    0.08    0.10    0.09    0.00    0.00    0.00    0.05    0.00    0.00    0.01    0.08    0.01    0.05    0.04    0.00    0.01    0.12  
SPINK7ENSG00000145879  0.30    0.00    0.03    0.01    0.02    0.00    0.02    0.02    0.02    0.05    0.00    0.00    0.02    0.05    0.05    0.05    0.01    0.03    0.01    0.05    0.03    0.03    0.03    0.05    0.01    0.03    0.03    0.01    0.02    0.02    0.08    0.03    0.09    0.01    0.22    0.04    0.00    0.05    0.01    0.00    0.03    0.02    0.14    0.10    0.02    0.01    0.02    0.03    0.09    0.02    0.08    0.04    0.00    0.00    0.00    0.10    0.04    0.00    0.00    0.05    0.01    0.03    0.00    0.03    0.03    0.14  
PCYOX1LENSG00000145882  0.30    0.00    0.02    0.01    0.05    0.00    0.02    0.01    0.04    0.05    0.00    0.00    0.02    0.05    0.05    0.04    0.01    0.03    0.01    0.04    0.06    0.03    0.04    0.04    0.01    0.02    0.03    0.01    0.03    0.02    0.09    0.02    0.09    0.01    0.26    0.04    0.00    0.03    0.01    0.00    0.04    0.02    0.17    0.09    0.03    0.02    0.03    0.02    0.09    0.02    0.08    0.05    0.00    0.00    0.00    0.10    0.04    0.00    0.00    0.06    0.01    0.03    0.00    0.03    0.05    0.14  
MYLK4ENSG00000145949  0.01    0.00    0.00    0.01    0.00    0.00    0.01    0.05    0.18    0.10    0.00    0.05    0.02    0.00    0.11    0.02    0.10    0.09    0.05    0.06    0.10    0.23    0.05    0.10    0.02    0.03    0.02    0.04    0.00    0.07    0.17    0.02    0.06    0.08    0.04    0.05    0.00    0.01    0.00    0.00    0.11    0.08    0.44    0.11    0.10    0.05    0.08    0.02    0.21    0.06    0.07    0.13    0.04    0.03    0.00    0.00    0.14    0.00    0.02    0.04    0.02    0.03    0.22    0.00    0.22    0.01  
PLA2G7ENSG00000146070  0.00    0.00    0.01    0.01    0.00    0.00    0.02    0.02    0.11    0.04    0.00    0.00    0.01    0.02    0.10    0.01    0.16    0.04    0.06    0.02    0.27    0.03    0.17    0.01    0.05    0.00    0.11    0.01    0.01    0.00    0.09    0.00    0.00    0.08    0.06    0.00    0.00    0.00    0.00    0.00    0.10    0.03    0.22    0.07    0.07    0.03    0.05    0.01    0.03    0.03    0.09    0.03    0.02    0.01    0.00    0.00    0.09    0.02    0.01    0.00    0.00    0.03    0.02    0.00    0.07    0.01  
TPBGENSG00000146242  0.00    0.01    0.00    0.00    0.00    0.00    0.00    0.30    0.03    0.08    0.00    0.00    0.01    0.03    0.01    0.06    0.09    0.02    0.01    0.04    0.07    0.09    0.02    0.08    0.01    0.02    0.01    0.00    0.00    0.02    0.02    0.05    0.02    0.13    0.06    0.02    0.00    0.00    0.00    0.00    0.04    0.09    0.12    0.10    0.02    0.01    0.02    0.01    0.03    0.06    0.04    0.13    0.03    0.01    0.00    0.00    0.00    0.22    0.00    0.01    0.00    0.03    0.00    0.02    0.02    0.05  
PRSS35ENSG00000146250  0.00    0.01    0.00    0.00    0.00    0.00    0.00    0.33    0.04    0.09    0.00    0.00    0.01    0.06    0.02    0.06    0.10    0.02    0.03    0.03    0.08    0.07    0.02    0.08    0.00    0.02    0.01    0.01    0.00    0.02    0.02    0.06    0.00    0.13    0.06    0.02    0.00    0.00    0.00    0.00    0.04    0.09    0.12    0.10    0.02    0.01    0.02    0.01    0.03    0.06    0.07    0.12    0.03    0.01    0.00    0.00    0.00    0.22    0.01    0.01    0.00    0.03    0.00    0.03    0.02    0.04  

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