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 
AMHENSG00000104899  0.00    0.01    0.00    0.02    0.00    0.02    0.01    0.05    0.04    0.12    0.05    0.00    0.03    0.10    0.02    0.08    0.02    0.13    0.02    0.13    0.04    0.15    0.02    0.08    0.01    0.05    0.01    0.10    0.00    0.07    0.03    0.13    0.00    0.03    0.11    0.01    0.01    0.00    0.00    0.01    0.02    0.16    0.02    0.91    0.08    0.20    0.01    0.26    0.02    0.80    0.17    0.15    0.00    0.00    0.00    0.01    0.02    0.07    0.03    0.02    0.07    0.01    0.02    0.02    0.03    0.06  
DKKL1ENSG00000104901  0.00    0.00    0.00    0.02    0.00    0.00    0.01    0.01    0.11    0.04    0.00    0.02    0.00    0.06    0.01    0.07    0.04    0.10    0.03    0.02    0.08    0.05    0.07    0.03    0.01    0.02    0.02    0.03    0.03    0.05    0.04    0.04    0.00    0.07    0.13    0.02    0.00    0.03    0.00    0.00    0.10    0.05    0.04    0.32    0.05    0.06    0.06    0.05    0.10    0.18    0.04    0.18    0.00    0.04    0.01    0.00    0.07    0.05    0.01    0.13    0.02    0.12    0.00    0.00    0.02    0.02  
RETNENSG00000104918  0.00    0.00    0.00    0.01    0.00    0.02    0.01    0.03    0.06    0.08    0.00    0.01    0.01    0.07    0.01    0.05    0.05    0.09    0.02    0.08    0.01    0.10    0.02    0.07    0.01    0.02    0.00    0.04    0.00    0.04    0.00    0.11    0.00    0.01    0.10    0.03    0.01    0.00    0.00    0.01    0.08    0.08    0.25    0.44    0.04    0.14    0.05    0.19    0.10    0.54    0.25    0.01    0.02    0.00    0.04    0.00    0.00    0.09    0.00    0.00    0.02    0.00    0.00    0.05    0.05    0.03  
FCER2ENSG00000104921  0.00    0.00    0.00    0.01    0.00    0.02    0.01    0.03    0.06    0.08    0.00    0.01    0.01    0.07    0.01    0.05    0.05    0.09    0.02    0.08    0.01    0.10    0.02    0.07    0.01    0.02    0.00    0.04    0.00    0.04    0.00    0.11    0.00    0.01    0.10    0.03    0.01    0.00    0.00    0.01    0.08    0.08    0.26    0.44    0.04    0.14    0.05    0.19    0.10    0.56    0.28    0.01    0.02    0.00    0.04    0.00    0.00    0.09    0.00    0.00    0.02    0.00    0.00    0.05    0.05    0.03  
LILRB1ENSG00000104972  0.01    0.00    0.00    0.02    0.00    0.00    0.03    0.01    0.19    0.03    0.00    0.02    0.03    0.04    0.05    0.06    0.10    0.09    0.05    0.02    0.12    0.03    0.11    0.03    0.02    0.03    0.01    0.04    0.04    0.04    0.06    0.02    0.10    0.07    0.21    0.00    0.01    0.03    0.00    0.00    0.16    0.03    0.17    0.27    0.12    0.06    0.06    0.05    0.36    0.10    0.07    0.18    0.00    0.06    0.01    0.00    0.13    0.03    0.02    0.17    0.02    0.13    0.00    0.00    0.04    0.04  
LILRA1ENSG00000104974  0.01    0.00    0.00    0.02    0.00    0.00    0.03    0.00    0.19    0.03    0.00    0.00    0.01    0.04    0.04    0.06    0.10    0.10    0.05    0.02    0.10    0.03    0.11    0.03    0.02    0.03    0.01    0.04    0.03    0.04    0.06    0.02    0.05    0.07    0.21    0.00    0.00    0.03    0.00    0.00    0.16    0.03    0.16    0.27    0.12    0.07    0.06    0.05    0.36    0.10    0.07    0.16    0.00    0.06    0.01    0.00    0.13    0.03    0.01    0.17    0.03    0.13    0.00    0.00    0.04    0.04  
CCNE1ENSG00000105173  0.00    0.00    0.00    0.00    0.02    0.00    0.01    0.01    0.45    0.01    0.00    0.00    0.16    0.02    0.27    0.02    0.46    0.02    0.09    0.02    0.55    0.03    0.86    0.02    0.08    0.00    0.02    0.01    0.19    0.00    0.13    0.01    0.12    0.01    0.32    0.02    0.00    0.00    0.00    0.00    0.23    0.02    1.48    0.02    0.10    0.00    0.55    0.00    2.49    0.00    0.55    0.00    0.01    0.01    0.00    0.00    0.07    0.00    0.01    0.01    0.09    0.02    0.00    0.00    0.05    0.02  
EBI3ENSG00000105246  0.00    0.01    0.00    0.02    0.00    0.04    0.01    0.03    0.02    0.13    0.02    0.00    0.01    0.10    0.01    0.08    0.03    0.12    0.02    0.11    0.05    0.10    0.00    0.09    0.00    0.04    0.02    0.09    0.00    0.06    0.05    0.13    0.00    0.03    0.04    0.01    0.01    0.00    0.00    0.01    0.04    0.11    0.03    0.82    0.03    0.19    0.01    0.27    0.00    0.76    0.14    0.07    0.00    0.00    0.04    0.00    0.00    0.03    0.01    0.02    0.05    0.01    0.00    0.05    0.04    0.06  
APLP1ENSG00000105290  0.00    0.00    0.00    0.01    0.00    0.02    0.01    0.01    0.19    0.03    0.00    0.00    0.07    0.03    0.24    0.01    0.43    0.02    0.06    0.02    0.21    0.02    0.08    0.03    0.05    0.00    0.04    0.00    0.09    0.00    0.04    0.01    0.12    0.03    0.00    0.02    0.00    0.03    0.00    0.00    0.12    0.02    0.65    0.06    0.20    0.02    0.17    0.02    1.25    0.01    0.27    0.06    0.01    0.02    0.00    0.00    0.08    0.00    0.02    0.01    0.04    0.03    0.00    0.00    0.03    0.01  
SIGLEC8ENSG00000105366  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    0.04    0.04    0.04    0.04    0.03    0.00    0.07    0.23    0.02    0.00    0.03    0.00    0.00    0.13    0.03    0.10    0.30    0.07    0.07    0.04    0.05    0.16    0.14    0.04    0.20    0.00    0.06    0.01    0.00    0.13    0.03    0.01    0.16    0.03    0.13    0.00    0.00    0.03    0.03  
CD79AENSG00000105369  0.00    0.00    0.00    0.02    0.00    0.02    0.01    0.04    0.14    0.03    0.00    0.00    0.05    0.04    0.10    0.04    0.16    0.07    0.01    0.02    0.04    0.05    0.05    0.03    0.03    0.01    0.01    0.02    0.02    0.03    0.02    0.03    0.12    0.01    0.06    0.04    0.00    0.02    0.00    0.00    0.07    0.04    0.16    0.26    0.11    0.05    0.05    0.04    0.09    0.17    0.25    0.12    0.00    0.04    0.01    0.00    0.05    0.03    0.02    0.09    0.03    0.09    0.00    0.00    0.03    0.03  
ICAM4ENSG00000105371  0.00    0.00    0.00    0.01    0.00    0.00    0.00    0.02    0.10    0.04    0.00    0.01    0.09    0.01    0.02    0.04    0.08    0.06    0.05    0.04    0.05    0.06    0.04    0.04    0.02    0.01    0.02    0.04    0.01    0.03    0.04    0.12    0.00    0.01    0.13    0.03    0.01    0.00    0.00    0.01    0.10    0.04    0.58    0.19    0.12    0.06    0.21    0.08    0.64    0.18    0.27    0.03    0.02    0.00    0.03    0.00    0.00    0.03    0.01    0.00    0.05    0.00    0.04    0.02    0.03    0.01  
CD33ENSG00000105383  0.01    0.00    0.00    0.02    0.00    0.00    0.02    0.01    0.13    0.04    0.00    0.00    0.00    0.06    0.02    0.08    0.06    0.09    0.03    0.02    0.06    0.03    0.08    0.03    0.02    0.02    0.02    0.04    0.04    0.04    0.04    0.03    0.00    0.07    0.23    0.02    0.00    0.03    0.00    0.00    0.13    0.03    0.10    0.31    0.07    0.07    0.04    0.05    0.22    0.13    0.03    0.19    0.00    0.04    0.01    0.00    0.13    0.03    0.01    0.16    0.01    0.15    0.00    0.00    0.03    0.03  
SULT2A1ENSG00000105398  0.00    0.00    0.00    0.02    0.00    0.00    0.01    0.05    0.07    0.04    0.00    0.02    0.00    0.09    0.01    0.08    0.04    0.11    0.02    0.02    0.08    0.04    0.06    0.03    0.01    0.03    0.02    0.04    0.02    0.06    0.03    0.04    0.00    0.10    0.14    0.02    0.00    0.03    0.00    0.00    0.03    0.06    0.04    0.33    0.06    0.07    0.02    0.06    0.06    0.22    0.02    0.19    0.00    0.05    0.01    0.00    0.07    0.03    0.01    0.13    0.02    0.13    0.00    0.00    0.02    0.03  
CLEC11AENSG00000105472  0.00    0.00    0.00    0.02    0.00    0.00    0.01    0.01    0.12    0.04    0.00    0.00    0.00    0.06    0.02    0.07    0.07    0.10    0.03    0.02    0.06    0.03    0.09    0.03    0.02    0.03    0.02    0.04    0.04    0.04    0.04    0.03    0.00    0.07    0.23    0.02    0.00    0.03    0.00    0.00    0.11    0.03    0.06    0.32    0.06    0.07    0.03    0.05    0.22    0.13    0.03    0.17    0.00    0.04    0.01    0.00    0.13    0.03    0.00    0.15    0.01    0.13    0.00    0.00    0.03    0.03  
CARD8ENSG00000105483  0.00    0.00    0.00    0.02    0.00    0.00    0.01    0.04    0.07    0.04    0.00    0.02    0.00    0.08    0.01    0.08    0.04    0.10    0.03    0.02    0.10    0.05    0.05    0.03    0.01    0.02    0.02    0.04    0.03    0.05    0.04    0.04    0.00    0.07    0.18    0.02    0.00    0.03    0.00    0.00    0.05    0.05    0.05    0.33    0.06    0.07    0.04    0.07    0.06    0.22    0.02    0.19    0.00    0.04    0.01    0.00    0.07    0.03    0.00    0.13    0.02    0.13    0.00    0.00    0.03    0.03  
SIGLEC5ENSG00000105501  0.01    0.00    0.00    0.02    0.00    0.00    0.02    0.01    0.14    0.03    0.00    0.00    0.00    0.08    0.02    0.08    0.07    0.09    0.03    0.02    0.06    0.03    0.08    0.03    0.02    0.03    0.01    0.03    0.04    0.05    0.05    0.03    0.00    0.07    0.23    0.00    0.00    0.03    0.00    0.00    0.14    0.03    0.11    0.30    0.08    0.07    0.04    0.06    0.16    0.11    0.05    0.20    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  
FGF21ENSG00000105550  0.00    0.00    0.00    0.02    0.00    0.00    0.01    0.04    0.07    0.04    0.00    0.02    0.00    0.06    0.01    0.08    0.04    0.10    0.02    0.02    0.07    0.05    0.08    0.03    0.01    0.03    0.01    0.03    0.03    0.05    0.05    0.03    0.00    0.07    0.21    0.02    0.00    0.03    0.00    0.00    0.06    0.05    0.04    0.33    0.05    0.07    0.03    0.06    0.19    0.22    0.04    0.18    0.00    0.04    0.01    0.00    0.07    0.03    0.00    0.13    0.01    0.13    0.00    0.00    0.02    0.03  
LILRB5ENSG00000105609  0.01    0.00    0.00    0.02    0.00    0.00    0.03    0.00    0.17    0.02    0.00    0.00    0.01    0.04    0.03    0.06    0.10    0.08    0.04    0.02    0.10    0.03    0.10    0.03    0.02    0.03    0.01    0.04    0.03    0.04    0.07    0.02    0.00    0.07    0.25    0.00    0.00    0.03    0.00    0.00    0.15    0.03    0.14    0.27    0.14    0.06    0.06    0.05    0.35    0.10    0.08    0.16    0.00    0.06    0.01    0.00    0.13    0.03    0.01    0.17    0.02    0.12    0.00    0.00    0.04    0.03  
SLC5A5ENSG00000105641  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.00    0.00    0.03    0.00    0.03    0.05    0.01    0.02    0.02    0.10    0.03    0.04    0.02    0.11    0.01    0.03    0.02    0.02    0.00    0.01    0.04    0.01    0.02    0.08    0.03    0.06    0.03    0.13    0.01    0.00    0.00    0.00    0.00    0.08    0.02    0.56    0.04    0.03    0.02    0.21    0.02    0.24    0.07    0.07    0.02    0.01    0.00    0.01    0.00    0.00    0.00    0.02    0.00    0.01    0.00    0.02    0.00    0.04    0.01  

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