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 
ENPP5ENSG00000112796  0.00    0.00    0.01    0.01    0.00    0.00    0.01    0.01    0.09    0.04    0.00    0.00    0.01    0.02    0.11    0.01    0.16    0.04    0.05    0.02    0.30    0.02    0.20    0.01    0.07    0.01    0.11    0.01    0.02    0.00    0.08    0.00    0.05    0.03    0.07    0.00    0.00    0.00    0.00    0.00    0.11    0.02    0.23    0.07    0.06    0.02    0.04    0.01    0.03    0.03    0.15    0.03    0.02    0.01    0.00    0.00    0.09    0.02    0.01    0.00    0.00    0.02    0.02    0.00    0.06    0.01  
LY86ENSG00000112799  0.00    0.01    0.00    0.01    0.00    0.00    0.01    0.07    0.28    0.06    0.00    0.05    0.02    0.01    0.10    0.01    0.09    0.08    0.07    0.06    0.09    0.22    0.05    0.10    0.03    0.03    0.02    0.04    0.00    0.08    0.15    0.02    0.06    0.06    0.03    0.03    0.01    0.01    0.00    0.00    0.12    0.07    0.51    0.09    0.10    0.06    0.10    0.02    0.31    0.05    0.07    0.14    0.04    0.03    0.00    0.00    0.10    0.01    0.02    0.03    0.02    0.03    0.19    0.00    0.26    0.00  
PRSS16ENSG00000112812  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.21    0.02    0.00    0.01    0.02    0.05    0.07    0.01    0.06    0.06    0.02    0.03    0.09    0.10    0.06    0.05    0.04    0.03    0.04    0.03    0.02    0.03    0.09    0.01    0.06    0.03    0.04    0.00    0.00    0.00    0.00    0.00    0.11    0.02    0.35    0.05    0.08    0.03    0.04    0.01    0.20    0.02    0.05    0.06    0.01    0.01    0.00    0.00    0.05    0.01    0.01    0.01    0.00    0.01    0.11    0.00    0.13    0.01  
BRD8ENSG00000112983  0.28    0.00    0.03    0.02    0.00    0.00    0.03    0.03    0.03    0.03    0.00    0.00    0.03    0.03    0.01    0.04    0.02    0.03    0.01    0.03    0.03    0.03    0.01    0.05    0.01    0.02    0.02    0.02    0.01    0.01    0.09    0.02    0.09    0.01    0.24    0.02    0.00    0.06    0.01    0.00    0.03    0.02    0.13    0.12    0.03    0.01    0.03    0.01    0.15    0.01    0.08    0.04    0.00    0.00    0.00    0.10    0.04    0.00    0.01    0.04    0.01    0.02    0.00    0.03    0.03    0.12  
HBEGFENSG00000113070  0.30    0.00    0.03    0.01    0.00    0.00    0.03    0.02    0.02    0.03    0.00    0.00    0.00    0.04    0.02    0.04    0.01    0.03    0.01    0.03    0.08    0.02    0.02    0.05    0.01    0.02    0.02    0.02    0.02    0.01    0.10    0.02    0.09    0.01    0.40    0.02    0.01    0.05    0.01    0.00    0.04    0.02    0.15    0.11    0.03    0.01    0.03    0.02    0.19    0.01    0.08    0.04    0.00    0.00    0.00    0.10    0.04    0.00    0.00    0.04    0.02    0.02    0.00    0.03    0.04    0.14  
SLC4A9ENSG00000113073  0.30    0.00    0.03    0.01    0.00    0.00    0.03    0.02    0.02    0.03    0.00    0.00    0.00    0.05    0.02    0.04    0.01    0.03    0.01    0.03    0.05    0.02    0.02    0.05    0.01    0.02    0.02    0.02    0.02    0.01    0.09    0.02    0.09    0.01    0.40    0.02    0.01    0.05    0.01    0.00    0.04    0.02    0.15    0.11    0.03    0.01    0.03    0.02    0.14    0.01    0.08    0.04    0.00    0.00    0.00    0.10    0.04    0.00    0.00    0.04    0.02    0.02    0.00    0.03    0.04    0.14  
LOXENSG00000113083  0.25    0.01    0.03    0.01    0.00    0.00    0.02    0.08    0.02    0.09    0.00    0.01    0.00    0.08    0.01    0.08    0.00    0.06    0.00    0.05    0.02    0.07    0.02    0.12    0.01    0.10    0.01    0.07    0.00    0.03    0.06    0.04    0.05    0.02    0.27    0.05    0.00    0.03    0.00    0.00    0.02    0.05    0.09    0.29    0.00    0.03    0.01    0.03    0.06    0.08    0.04    0.03    0.01    0.00    0.00    0.09    0.04    0.02    0.01    0.03    0.00    0.01    0.00    0.03    0.06    0.08  
GZMKENSG00000113088  0.00    0.00    0.01    0.00    0.03    0.00    0.01    0.18    0.06    0.12    0.00    0.00    0.01    0.01    0.06    0.06    0.05    0.10    0.03    0.08    0.02    0.13    0.02    0.10    0.02    0.05    0.01    0.05    0.00    0.05    0.02    0.01    0.00    0.10    0.09    0.01    0.00    0.03    0.00    0.00    0.03    0.09    0.03    0.49    0.02    0.07    0.01    0.12    0.01    0.31    0.07    0.05    0.00    0.02    0.00    0.02    0.00    0.00    0.00    0.01    0.00    0.01    0.00    0.00    0.03    0.02  
SPARCENSG00000113140  0.30    0.00    0.04    0.01    0.00    0.00    0.02    0.02    0.02    0.05    0.00    0.00    0.02    0.03    0.04    0.04    0.01    0.04    0.01    0.05    0.04    0.01    0.03    0.04    0.01    0.02    0.04    0.01    0.02    0.01    0.10    0.02    0.09    0.01    0.26    0.04    0.00    0.03    0.01    0.00    0.04    0.03    0.17    0.11    0.03    0.01    0.03    0.02    0.05    0.02    0.07    0.06    0.00    0.00    0.00    0.09    0.04    0.00    0.00    0.06    0.01    0.03    0.00    0.03    0.04    0.14  
HMGCRENSG00000113161  0.00    0.01    0.01    0.01    0.03    0.01    0.01    0.17    0.01    0.12    0.00    0.01    0.00    0.03    0.02    0.07    0.00    0.10    0.01    0.07    0.01    0.15    0.02    0.12    0.00    0.06    0.01    0.03    0.01    0.07    0.01    0.04    0.00    0.13    0.08    0.00    0.00    0.03    0.00    0.00    0.01    0.09    0.03    0.72    0.00    0.06    0.03    0.10    0.00    0.26    0.04    0.04    0.00    0.00    0.00    0.02    0.00    0.00    0.00    0.02    0.00    0.01    0.00    0.00    0.06    0.03  
PDE8BENSG00000113231  0.00    0.01    0.01    0.01    0.03    0.01    0.00    0.16    0.01    0.13    0.00    0.01    0.00    0.03    0.01    0.08    0.00    0.10    0.01    0.07    0.02    0.15    0.01    0.12    0.00    0.06    0.01    0.05    0.00    0.07    0.02    0.03    0.00    0.13    0.09    0.00    0.00    0.04    0.00    0.00    0.01    0.10    0.03    0.71    0.00    0.05    0.01    0.10    0.00    0.23    0.05    0.05    0.00    0.00    0.00    0.02    0.00    0.00    0.00    0.02    0.00    0.01    0.00    0.00    0.06    0.04  
CLK4ENSG00000113240  0.33    0.01    0.06    0.01    0.00    0.00    0.04    0.01    0.02    0.12    0.00    0.01    0.03    0.05    0.09    0.04    0.04    0.05    0.03    0.07    0.13    0.02    0.03    0.04    0.02    0.02    0.04    0.03    0.03    0.01    0.13    0.02    0.05    0.01    0.37    0.02    0.01    0.03    0.01    0.00    0.10    0.04    0.23    0.14    0.03    0.04    0.06    0.02    0.22    0.02    0.15    0.09    0.00    0.01    0.00    0.02    0.02    0.00    0.01    0.07    0.02    0.05    0.04    0.02    0.09    0.08  
GRM6ENSG00000113262  0.33    0.01    0.06    0.01    0.00    0.00    0.03    0.01    0.02    0.11    0.00    0.01    0.03    0.05    0.08    0.04    0.03    0.06    0.03    0.07    0.13    0.03    0.03    0.04    0.03    0.02    0.04    0.03    0.03    0.01    0.14    0.02    0.05    0.01    0.37    0.02    0.01    0.03    0.01    0.00    0.10    0.04    0.23    0.14    0.04    0.05    0.06    0.02    0.15    0.02    0.18    0.09    0.00    0.01    0.00    0.02    0.02    0.00    0.01    0.07    0.02    0.05    0.04    0.02    0.10    0.09  
IL12BENSG00000113302  0.32    0.00    0.04    0.01    0.00    0.00    0.04    0.01    0.01    0.08    0.00    0.00    0.02    0.07    0.05    0.03    0.01    0.05    0.01    0.04    0.04    0.01    0.02    0.05    0.01    0.02    0.04    0.03    0.02    0.01    0.09    0.03    0.09    0.01    0.31    0.02    0.00    0.04    0.01    0.00    0.05    0.04    0.17    0.14    0.03    0.02    0.02    0.02    0.11    0.01    0.07    0.06    0.00    0.00    0.00    0.06    0.00    0.09    0.01    0.08    0.01    0.04    0.03    0.00    0.02    0.13  
BTNL8ENSG00000113303  0.34    0.00    0.06    0.01    0.00    0.04    0.03    0.01    0.02    0.10    0.00    0.01    0.03    0.05    0.09    0.03    0.04    0.06    0.04    0.06    0.18    0.02    0.03    0.05    0.03    0.01    0.04    0.04    0.03    0.01    0.15    0.05    0.05    0.01    0.38    0.03    0.01    0.03    0.01    0.00    0.10    0.05    0.24    0.15    0.04    0.04    0.07    0.03    0.21    0.02    0.24    0.11    0.00    0.01    0.00    0.02    0.02    0.00    0.01    0.06    0.03    0.04    0.04    0.02    0.08    0.07  
GABRG2ENSG00000113327  0.31    0.01    0.04    0.01    0.00    0.00    0.04    0.01    0.01    0.09    0.00    0.00    0.02    0.08    0.04    0.04    0.02    0.04    0.01    0.05    0.05    0.01    0.03    0.04    0.01    0.02    0.04    0.04    0.02    0.01    0.10    0.03    0.09    0.01    0.32    0.02    0.00    0.03    0.01    0.00    0.05    0.04    0.17    0.16    0.03    0.02    0.03    0.03    0.15    0.01    0.13    0.08    0.00    0.00    0.00    0.04    0.00    0.00    0.01    0.08    0.01    0.05    0.04    0.00    0.01    0.12  
TARSENSG00000113407  0.00    0.00    0.01    0.00    0.03    0.03    0.02    0.02    0.10    0.01    0.00    0.00    0.00    0.00    0.17    0.00    0.20    0.01    0.07    0.00    0.11    0.01    0.09    0.03    0.05    0.01    0.04    0.00    0.02    0.00    0.05    0.00    0.00    0.01    0.27    0.00    0.01    0.01    0.00    0.00    0.06    0.02    0.20    0.02    0.08    0.00    0.07    0.01    0.15    0.03    0.18    0.01    0.00    0.02    0.00    0.01    0.02    0.00    0.00    0.01    0.00    0.01    0.00    0.00    0.11    0.03  
IL4ENSG00000113520  0.28    0.01    0.03    0.01    0.00    0.00    0.02    0.05    0.03    0.04    0.00    0.00    0.00    0.05    0.00    0.07    0.00    0.06    0.01    0.06    0.03    0.06    0.02    0.09    0.01    0.05    0.02    0.04    0.01    0.04    0.09    0.04    0.09    0.01    0.32    0.02    0.00    0.03    0.01    0.00    0.03    0.04    0.11    0.18    0.02    0.04    0.01    0.02    0.15    0.04    0.04    0.05    0.01    0.00    0.00    0.10    0.04    0.02    0.01    0.04    0.02    0.02    0.00    0.03    0.01    0.09  
IL5ENSG00000113525  0.28    0.01    0.03    0.02    0.00    0.00    0.02    0.05    0.03    0.04    0.00    0.00    0.00    0.05    0.00    0.07    0.00    0.06    0.01    0.06    0.03    0.06    0.02    0.09    0.01    0.05    0.02    0.04    0.01    0.04    0.10    0.04    0.09    0.01    0.26    0.02    0.00    0.03    0.01    0.00    0.03    0.05    0.12    0.19    0.02    0.04    0.01    0.02    0.15    0.04    0.03    0.06    0.01    0.00    0.00    0.10    0.04    0.02    0.01    0.04    0.02    0.02    0.00    0.03    0.01    0.09  
FGF1ENSG00000113578  0.30    0.00    0.03    0.01    0.00    0.00    0.03    0.03    0.02    0.04    0.00    0.00    0.00    0.04    0.02    0.04    0.01    0.03    0.01    0.04    0.02    0.04    0.02    0.05    0.01    0.01    0.02    0.01    0.02    0.03    0.08    0.03    0.09    0.01    0.24    0.04    0.00    0.05    0.01    0.00    0.04    0.02    0.17    0.10    0.03    0.01    0.04    0.02    0.09    0.02    0.08    0.03    0.00    0.00    0.00    0.10    0.04    0.00    0.01    0.05    0.02    0.03    0.00    0.03    0.03    0.15  

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