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 
ING4ENSG00000111653  0.01    0.00    0.00    0.01    0.02    0.00    0.01    0.07    0.09    0.02    0.01    0.00    0.00    0.08    0.06    0.07    0.17    0.01    0.11    0.01    0.08    0.04    0.06    0.05    0.05    0.02    0.05    0.02    0.05    0.05    0.03    0.04    0.14    0.05    0.06    0.00    0.00    0.01    0.00    0.00    0.13    0.04    0.35    0.07    0.04    0.02    0.10    0.02    0.08    0.03    0.12    0.11    0.60    0.00    0.00    0.00    0.00    0.05    0.15    0.01    0.05    0.01    0.00    0.01    0.05    0.04  
SIRT2ENSG00000068903  0.00    0.00    0.01    0.01    0.00    0.02    0.02    0.03    0.32    0.02    0.00    0.00    0.08    0.02    0.20    0.03    0.53    0.03    0.07    0.01    0.10    0.03    0.09    0.02    0.05    0.01    0.03    0.01    0.27    0.00    0.05    0.02    0.12    0.01    0.05    0.03    0.00    0.02    0.00    0.00    0.14    0.03    0.76    0.12    0.29    0.03    0.18    0.03    1.10    0.09    0.24    0.10    0.00    0.03    0.01    0.00    0.03    0.00    0.04    0.04    0.05    0.04    0.00    0.00    0.04    0.01  
MAP3K4ENSG00000085511  0.00    0.06    0.00    0.02    0.00    0.05    0.00    0.04    0.03    0.08    0.00    0.01    0.00    0.17    0.02    0.06    0.07    0.06    0.03    0.04    0.09    0.06    0.07    0.07    0.02    0.02    0.03    0.02    0.00    0.04    0.02    0.14    0.00    0.18    0.11    0.03    0.00    0.03    0.00    0.00    0.06    0.12    0.07    0.46    0.00    0.10    0.04    0.05    0.08    0.05    0.19    0.06    0.01    0.05    0.00    0.00    0.06    0.02    0.00    0.05    0.00    0.13    0.04    0.06    0.01    0.17  
GRIA1ENSG00000155511  0.30    0.00    0.04    0.01    0.00    0.00    0.03    0.02    0.01    0.05    0.00    0.00    0.02    0.04    0.04    0.04    0.01    0.04    0.01    0.04    0.04    0.01    0.04    0.05    0.01    0.01    0.03    0.03    0.02    0.01    0.09    0.02    0.09    0.01    0.21    0.04    0.00    0.03    0.01    0.00    0.04    0.03    0.16    0.11    0.03    0.01    0.03    0.02    0.09    0.01    0.07    0.06    0.00    0.00    0.00    0.09    0.00    0.00    0.00    0.07    0.01    0.04    0.00    0.03    0.03    0.13  
HSD17B13ENSG00000170509  0.00    0.00    0.00    0.01    0.00    0.00    0.03    0.03    0.13    0.06    0.00    0.00    0.00    0.06    0.02    0.03    0.07    0.04    0.05    0.02    0.04    0.07    0.02    0.07    0.01    0.02    0.00    0.01    0.00    0.01    0.03    0.11    0.00    0.03    0.09    0.02    0.02    0.02    0.00    0.00    0.04    0.04    0.05    0.23    0.01    0.03    0.02    0.02    0.02    0.09    0.05    0.07    0.00    0.01    0.00    0.01    0.00    0.05    0.00    0.01    0.00    0.01    0.00    0.00    0.00    0.04  
DMPKENSG00000104936  0.00    0.00    0.00    0.02    0.00    0.00    0.00    0.03    0.14    0.03    0.00    0.02    0.03    0.05    0.09    0.07    0.09    0.09    0.02    0.02    0.15    0.04    0.11    0.02    0.02    0.02    0.03    0.02    0.09    0.02    0.06    0.04    0.12    0.03    0.18    0.03    0.00    0.02    0.00    0.00    0.07    0.05    0.11    0.30    0.08    0.05    0.11    0.04    0.25    0.19    0.06    0.17    0.00    0.04    0.01    0.00    0.26    0.03    0.00    0.13    0.02    0.12    0.00    0.00    0.02    0.03  
ADAM22ENSG00000008277  0.01    0.00    0.04    0.00    0.00    0.00    0.04    0.01    0.05    0.01    0.00    0.00    0.03    0.04    0.03    0.02    0.22    0.02    0.19    0.02    0.51    0.02    0.24    0.01    0.03    0.01    0.01    0.01    0.05    0.00    0.08    0.03    0.04    0.01    0.10    0.01    0.00    0.02    0.00    0.00    0.07    0.03    0.18    0.05    0.09    0.02    0.02    0.02    0.09    0.06    0.06    0.05    0.13    0.00    0.00    0.02    0.13    0.00    0.03    0.00    0.07    0.01    0.00    0.00    0.02    0.02  
SERPINB6ENSG00000124570  0.01    0.01    0.00    0.01    0.00    0.00    0.01    0.05    0.19    0.10    0.00    0.08    0.02    0.00    0.09    0.02    0.09    0.09    0.05    0.06    0.10    0.24    0.05    0.10    0.02    0.03    0.02    0.04    0.00    0.07    0.18    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    0.06    0.09    0.02    0.21    0.05    0.06    0.14    0.04    0.03    0.00    0.00    0.14    0.01    0.02    0.04    0.02    0.03    0.22    0.00    0.22    0.01  
NRXN1ENSG00000179915  0.00    0.02    0.00    0.01    0.00    0.00    0.01    0.06    0.10    0.03    0.00    0.03    0.01    0.06    0.06    0.01    0.27    0.02    0.04    0.02    0.06    0.05    0.02    0.03    0.01    0.01    0.02    0.03    0.01    0.04    0.04    0.02    0.00    0.08    0.04    0.03    0.00    0.06    0.00    0.00    0.07    0.02    0.26    0.05    0.04    0.02    0.05    0.02    0.04    0.02    0.08    0.06    0.13    0.02    0.00    0.00    0.10    0.04    0.01    0.01    0.01    0.01    0.03    0.00    0.03    0.02  
CD151ENSG00000177697  0.00    0.00    0.00    0.00    0.01    0.03    0.01    0.02    0.01    0.11    0.00    0.00    0.02    0.05    0.04    0.07    0.01    0.17    0.03    0.06    0.07    0.13    0.03    0.07    0.02    0.02    0.01    0.03    0.01    0.06    0.07    0.03    0.03    0.01    0.08    0.06    0.02    0.06    0.00    0.00    0.04    0.13    0.05    0.49    0.01    0.07    0.06    0.09    0.10    0.15    0.02    0.22    0.03    0.05    0.00    0.00    0.05    0.00    0.01    0.11    0.01    0.07    0.00    0.00    0.02    0.04  
APOEENSG00000130203  0.01    0.00    0.00    0.01    0.00    0.00    0.01    0.03    0.14    0.02    0.00    0.00    0.05    0.05    0.12    0.04    0.12    0.08    0.06    0.02    0.08    0.05    0.12    0.01    0.01    0.02    0.01    0.02    0.09    0.02    0.07    0.04    0.12    0.03    0.24    0.03    0.00    0.02    0.00    0.00    0.08    0.05    0.18    0.30    0.21    0.03    0.12    0.04    0.31    0.17    0.08    0.16    0.00    0.04    0.01    0.00    0.07    0.03    0.02    0.12    0.02    0.09    0.00    0.00    0.02    0.02  
PAHENSG00000171759  0.01    0.01    0.02    0.00    0.06    0.02    0.04    0.02    0.09    0.04    0.00    0.00    0.04    0.02    0.02    0.05    0.02    0.04    0.01    0.02    0.04    0.05    0.05    0.03    0.00    0.02    0.02    0.03    0.00    0.06    0.05    0.04    0.00    0.22    0.00    0.02    0.00    0.03    0.00    0.00    0.03    0.07    0.07    0.21    0.01    0.01    0.01    0.04    0.02    0.11    0.29    0.05    0.00    0.01    0.00    0.00    0.08    0.02    0.01    0.02    0.01    0.01    0.05    0.00    0.01    0.09  
BACE1ENSG00000186318  0.00    0.01    0.00    0.06    0.02    0.02    0.01    0.09    0.03    0.10    0.00    0.00    0.02    0.05    0.05    0.08    0.04    0.09    0.03    0.16    0.02    0.12    0.06    0.08    0.01    0.02    0.00    0.03    0.01    0.02    0.00    0.09    0.00    0.17    0.00    0.05    0.00    0.06    0.00    0.00    0.02    0.24    0.14    0.16    0.04    0.29    0.03    0.05    0.13    0.20    0.04    0.23    0.00    0.15    0.02    0.00    0.11    0.01    0.04    0.01    0.01    0.01    0.00    0.07    0.00    0.27  
ADAM17ENSG00000151694  0.00    0.00    0.01    0.02    0.00    0.06    0.03    0.01    0.17    0.01    0.00    0.00    0.04    0.05    0.05    0.02    0.09    0.05    0.03    0.04    0.06    0.07    0.04    0.04    0.01    0.01    0.03    0.04    0.01    0.03    0.12    0.01    0.00    0.05    0.01    0.02    0.03    0.00    0.00    0.00    0.07    0.05    0.26    0.16    0.08    0.01    0.12    0.04    0.30    0.07    0.05    0.12    0.16    0.01    0.00    0.00    0.03    0.08    0.02    0.01    0.03    0.02    0.05    0.00    0.01    0.04  
WIF1ENSG00000156076  0.00    0.00    0.00    0.00    0.00    0.00    0.02    0.01    0.16    0.02    0.00    0.00    0.03    0.00    0.21    0.01    0.19    0.01    0.18    0.01    0.23    0.02    0.25    0.01    0.01    0.00    0.02    0.04    0.08    0.02    0.03    0.01    0.25    0.01    0.31    0.03    0.05    0.00    0.00    0.00    0.17    0.02    0.21    0.04    0.05    0.01    0.01    0.01    0.31    0.07    0.34    0.06    0.03    0.00    0.00    0.01    0.12    0.00    0.03    0.02    0.07    0.06    0.00    0.00    0.09    0.02  
ACEENSG00000159640  0.02    0.00    0.05    0.00    0.00    0.00    0.04    0.01    0.26    0.00    0.02    0.00    0.12    0.00    0.13    0.01    0.18    0.01    0.07    0.02    0.25    0.02    0.11    0.02    0.09    0.01    0.08    0.03    0.07    0.11    0.19    0.00    0.12    0.01    0.18    0.07    0.02    0.00    0.00    0.00    0.57    0.01    0.27    0.03    0.19    0.01    0.13    0.03    0.29    0.02    0.17    0.05    0.01    0.00    0.00    0.01    0.00    0.00    0.06    0.00    0.03    0.01    0.16    0.00    0.23    0.01  
KELENSG00000197993  0.02    0.01    0.05    0.00    0.05    0.02    0.02    0.03    0.05    0.03    0.00    0.01    0.04    0.03    0.07    0.02    0.08    0.06    0.02    0.16    0.04    0.20    0.03    0.09    0.02    0.01    0.01    0.03    0.03    0.04    0.04    0.05    0.00    0.11    0.06    0.06    0.00    0.02    0.00    0.00    0.09    0.05    0.54    0.04    0.03    0.09    0.04    0.05    0.05    0.14    0.12    0.11    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.01    0.04    0.02    0.00    0.03    0.22    0.02  
SLC1A6ENSG00000105143  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.00    0.02    0.04    0.00    0.00    0.06    0.00    0.00    0.03    0.13    0.03    0.06    0.01    0.20    0.01    0.05    0.00    0.01    0.00    0.02    0.01    0.01    0.01    0.07    0.04    0.00    0.03    0.34    0.00    0.00    0.00    0.00    0.01    0.14    0.03    0.85    0.05    0.05    0.02    0.26    0.01    0.36    0.05    0.19    0.01    0.00    0.00    0.01    0.00    0.00    0.06    0.02    0.00    0.02    0.00    0.02    0.00    0.04    0.01  
AK2ENSG00000004455  0.00    0.04    0.00    0.05    0.00    0.00    0.01    0.02    0.03    0.07    0.00    0.00    0.11    0.07    0.06    0.04    0.05    0.05    0.06    0.04    0.06    0.05    0.06    0.05    0.02    0.08    0.01    0.10    0.01    0.03    0.03    0.17    0.00    0.57    0.01    0.05    0.02    0.08    0.00    0.00    0.05    0.09    0.34    0.21    0.06    0.03    0.06    0.07    0.06    0.06    0.14    0.05    0.03    0.03    0.02    0.00    0.00    0.07    0.00    0.01    0.05    0.05    0.00    0.07    0.05    0.04  
COL21A1ENSG00000124749  0.00    0.00    0.04    0.02    0.00    0.00    0.01    0.01    0.12    0.04    0.00    0.00    0.01    0.00    0.08    0.02    0.25    0.03    0.12    0.02    0.24    0.03    0.14    0.01    0.02    0.01    0.08    0.02    0.03    0.00    0.09    0.00    0.03    0.04    0.03    0.00    0.00    0.02    0.00    0.00    0.11    0.03    0.19    0.05    0.09    0.03    0.08    0.01    0.23    0.03    0.12    0.05    0.03    0.00    0.00    0.00    0.09    0.00    0.02    0.00    0.01    0.01    0.06    0.03    0.09    0.02  

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