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 
MTRNR2L1ENSG00000256618  0.00    0.00    0.00    0.00    0.00    0.00    0.02    0.02    0.12    0.07    0.03    0.01    0.01    0.03    0.07    0.04    0.09    0.06    0.03    0.05    0.04    0.11    0.05    0.08    0.04    0.03    0.05    0.08    0.01    0.01    0.04    0.04    0.09    0.01    0.00    0.02    0.00    0.05    0.00    0.00    0.10    0.06    0.04    0.12    0.05    0.06    0.08    0.06    0.13    0.20    0.54    0.08    0.07    0.03    0.00    0.00    0.10    0.00    0.00    0.01    0.00    0.03    0.00    0.00    0.03    0.03  
PGA5ENSG00000256713  0.01    0.00    0.00    0.01    0.09    0.00    0.01    0.00    0.11    0.01    0.00    0.00    0.12    0.00    0.06    0.01    0.06    0.02    0.12    0.02    0.13    0.02    0.05    0.03    0.01    0.02    0.02    0.02    0.00    0.02    0.03    0.02    0.11    0.12    0.09    0.00    0.02    0.00    0.00    0.00    0.15    0.06    0.13    0.05    0.05    0.01    0.04    0.02    0.17    0.14    0.05    0.04    0.00    0.05    0.00    0.00    0.00    0.02    0.00    0.01    0.00    0.03    0.00    0.00    0.06    0.04  
MTRNR2L7ENSG00000256892  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.01    0.05    0.04    0.00    0.01    0.04    0.00    0.07    0.03    0.06    0.02    0.04    0.01    0.05    0.03    0.07    0.01    0.01    0.01    0.00    0.01    0.00    0.00    0.02    0.01    0.00    0.01    0.06    0.04    0.00    0.00    0.00    0.00    0.05    0.02    0.17    0.03    0.01    0.01    0.02    0.01    0.10    0.00    0.06    0.02    0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.02    0.01    0.00    0.00    0.00    0.01    0.01  
GPR142ENSG00000257008  0.02    0.00    0.05    0.00    0.02    0.00    0.03    0.03    0.21    0.00    0.00    0.01    0.09    0.02    0.16    0.02    0.22    0.01    0.07    0.03    0.20    0.06    0.12    0.03    0.03    0.01    0.05    0.04    0.05    0.10    0.25    0.00    0.08    0.01    0.08    0.02    0.02    0.00    0.00    0.00    0.36    0.04    0.31    0.03    0.20    0.03    0.14    0.01    0.39    0.03    0.24    0.04    0.03    0.00    0.00    0.00    0.00    0.00    0.07    0.00    0.05    0.01    0.14    0.01    0.24    0.02  
OR11H12ENSG00000257115  0.00    0.00    0.00    0.03    0.00    0.00    0.01    0.02    0.10    0.05    0.00    0.00    0.00    0.05    0.16    0.04    0.20    0.07    0.09    0.06    0.11    0.07    0.07    0.04    0.03    0.02    0.01    0.09    0.01    0.04    0.08    0.00    0.00    0.02    0.13    0.03    0.01    0.02    0.00    0.00    0.10    0.03    0.40    0.12    0.07    0.02    0.08    0.03    0.21    0.08    0.17    0.09    0.02    0.01    0.00    0.01    0.01    0.00    0.02    0.03    0.01    0.09    0.00    0.00    0.03    0.03  
TAS2R38ENSG00000257138  0.02    0.01    0.06    0.00    0.07    0.02    0.03    0.03    0.04    0.04    0.00    0.01    0.04    0.04    0.08    0.02    0.08    0.06    0.02    0.15    0.07    0.20    0.03    0.09    0.03    0.00    0.03    0.02    0.03    0.04    0.04    0.06    0.00    0.06    0.06    0.06    0.00    0.02    0.00    0.00    0.09    0.04    0.50    0.05    0.03    0.09    0.04    0.05    0.05    0.14    0.15    0.11    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.00    0.04    0.01    0.00    0.03    0.22    0.02  
MGAM2ENSG00000257743  0.02    0.01    0.05    0.00    0.05    0.02    0.03    0.03    0.04    0.04    0.00    0.01    0.04    0.03    0.08    0.02    0.08    0.06    0.03    0.15    0.07    0.20    0.03    0.09    0.02    0.01    0.03    0.02    0.03    0.04    0.04    0.06    0.00    0.06    0.06    0.06    0.00    0.02    0.00    0.00    0.09    0.04    0.51    0.05    0.04    0.09    0.04    0.05    0.05    0.14    0.15    0.11    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.00    0.04    0.02    0.00    0.03    0.21    0.02  
OR9A4ENSG00000258083  0.02    0.01    0.06    0.00    0.05    0.02    0.02    0.03    0.04    0.04    0.00    0.01    0.04    0.04    0.08    0.02    0.08    0.06    0.02    0.15    0.05    0.20    0.02    0.09    0.03    0.00    0.03    0.02    0.03    0.04    0.04    0.06    0.00    0.06    0.06    0.06    0.00    0.02    0.00    0.00    0.09    0.04    0.50    0.05    0.03    0.09    0.04    0.05    0.05    0.14    0.15    0.11    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.00    0.04    0.01    0.00    0.03    0.22    0.02  
PRSS58ENSG00000258223  0.02    0.01    0.05    0.00    0.05    0.02    0.03    0.03    0.04    0.04    0.00    0.01    0.04    0.03    0.08    0.02    0.08    0.06    0.02    0.15    0.05    0.20    0.03    0.09    0.02    0.01    0.03    0.02    0.03    0.04    0.04    0.06    0.00    0.06    0.06    0.06    0.00    0.02    0.00    0.00    0.09    0.04    0.52    0.05    0.04    0.09    0.04    0.05    0.05    0.14    0.15    0.11    0.02    0.04    0.00    0.05    0.02    0.09    0.10    0.00    0.04    0.02    0.00    0.03    0.21    0.02  
RP11-371E8.2ENSG00000258595  0.00    0.02    0.01    0.01    0.00    0.04    0.01    0.05    0.04    0.06    0.00    0.00    0.00    0.05    0.05    0.05    0.10    0.02    0.05    0.05    0.07    0.06    0.04    0.05    0.00    0.03    0.01    0.02    0.01    0.01    0.01    0.10    0.00    0.31    0.05    0.00    0.01    0.01    0.00    0.00    0.04    0.09    0.19    0.17    0.07    0.09    0.05    0.03    0.10    0.04    0.06    0.09    0.03    0.01    0.00    0.00    0.03    0.00    0.00    0.10    0.01    0.06    0.03    0.01    0.01    0.06  
SERPINA2ENSG00000258597  0.00    0.02    0.01    0.00    0.00    0.04    0.02    0.04    0.04    0.07    0.00    0.00    0.00    0.05    0.03    0.06    0.12    0.02    0.05    0.04    0.08    0.06    0.03    0.05    0.00    0.03    0.01    0.02    0.01    0.02    0.03    0.10    0.00    0.31    0.05    0.00    0.01    0.01    0.00    0.00    0.04    0.09    0.20    0.17    0.07    0.09    0.04    0.03    0.06    0.02    0.06    0.08    0.03    0.01    0.00    0.00    0.03    0.00    0.00    0.10    0.01    0.06    0.03    0.01    0.01    0.06  
BCL2L2-PABPN1ENSG00000258643  0.00    0.00    0.03    0.01    0.00    0.00    0.00    0.01    0.14    0.07    0.01    0.00    0.00    0.02    0.19    0.02    0.16    0.07    0.05    0.07    0.12    0.05    0.05    0.04    0.02    0.02    0.01    0.07    0.01    0.03    0.08    0.00    0.00    0.02    0.28    0.03    0.00    0.02    0.00    0.00    0.11    0.03    0.26    0.12    0.08    0.02    0.05    0.03    0.06    0.07    0.23    0.03    0.02    0.03    0.00    0.01    0.00    0.00    0.03    0.03    0.03    0.09    0.00    0.00    0.03    0.03  
OR11H7ENSG00000258806  0.00    0.00    0.00    0.03    0.00    0.00    0.01    0.02    0.10    0.05    0.00    0.00    0.00    0.05    0.16    0.04    0.18    0.07    0.09    0.06    0.11    0.07    0.08    0.04    0.03    0.02    0.01    0.09    0.01    0.04    0.09    0.00    0.00    0.02    0.17    0.03    0.01    0.02    0.00    0.00    0.08    0.03    0.38    0.11    0.07    0.02    0.08    0.03    0.15    0.08    0.17    0.09    0.02    0.01    0.00    0.01    0.01    0.00    0.02    0.03    0.01    0.10    0.00    0.00    0.03    0.03  
OR4C13ENSG00000258817  0.00    0.00    0.00    0.00    0.05    0.00    0.00    0.04    0.08    0.05    0.02    0.01    0.00    0.00    0.04    0.02    0.10    0.03    0.07    0.01    0.09    0.05    0.02    0.01    0.00    0.01    0.02    0.02    0.06    0.01    0.01    0.00    0.00    0.05    0.07    0.01    0.00    0.03    0.00    0.00    0.08    0.03    0.09    0.05    0.02    0.02    0.04    0.03    0.25    0.07    0.07    0.05    0.00    0.02    0.00    0.00    0.00    0.00    0.01    0.02    0.01    0.03    0.03    0.02    0.02    0.04  
RNASE4ENSG00000258818  0.00    0.01    0.00    0.03    0.00    0.00    0.00    0.02    0.09    0.06    0.00    0.00    0.00    0.05    0.15    0.03    0.16    0.07    0.08    0.06    0.11    0.07    0.10    0.04    0.03    0.02    0.01    0.08    0.01    0.05    0.09    0.00    0.00    0.02    0.27    0.03    0.01    0.02    0.00    0.00    0.09    0.03    0.42    0.10    0.07    0.02    0.08    0.03    0.15    0.08    0.17    0.08    0.02    0.01    0.00    0.01    0.01    0.00    0.02    0.02    0.01    0.10    0.00    0.00    0.03    0.03  
MC1RENSG00000258839  0.00    0.00    0.01    0.04    0.00    0.06    0.01    0.23    0.08    0.06    0.00    0.00    0.02    0.19    0.01    0.12    0.04    0.07    0.03    0.05    0.08    0.05    0.05    0.05    0.02    0.03    0.03    0.04    0.02    0.01    0.02    0.08    0.05    0.05    0.07    0.06    0.00    0.02    0.00    0.01    0.05    0.10    0.08    0.35    0.05    0.07    0.01    0.09    0.03    0.29    0.09    0.07    0.00    0.12    0.00    0.04    0.03    0.00    0.00    0.02    0.01    0.05    0.00    0.06    0.02    0.11  
ITGB3ENSG00000259207  0.01    0.00    0.01    0.00    0.00    0.00    0.02    0.05    0.10    0.02    0.00    0.00    0.08    0.00    0.07    0.01    0.08    0.02    0.02    0.01    0.09    0.03    0.06    0.01    0.02    0.01    0.05    0.03    0.03    0.02    0.03    0.02    0.02    0.01    0.01    0.04    0.01    0.05    0.00    0.00    0.10    0.08    0.08    0.07    0.03    0.02    0.03    0.06    0.15    0.19    0.08    0.03    0.01    0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.01    0.01    0.03    0.03    0.05    0.04  
GH1ENSG00000259384  0.02    0.00    0.05    0.00    0.00    0.00    0.03    0.02    0.25    0.01    0.02    0.00    0.12    0.00    0.15    0.01    0.20    0.01    0.07    0.02    0.22    0.02    0.11    0.02    0.07    0.01    0.07    0.02    0.08    0.10    0.20    0.00    0.12    0.01    0.16    0.03    0.02    0.00    0.00    0.00    0.57    0.01    0.24    0.03    0.17    0.02    0.10    0.03    0.27    0.02    0.17    0.03    0.01    0.00    0.00    0.00    0.02    0.02    0.06    0.00    0.03    0.01    0.16    0.00    0.24    0.01  
SLC22A31ENSG00000259803  0.00    0.00    0.00    0.04    0.00    0.06    0.01    0.25    0.08    0.05    0.00    0.00    0.02    0.19    0.01    0.12    0.04    0.06    0.03    0.04    0.10    0.05    0.04    0.05    0.02    0.03    0.02    0.03    0.02    0.01    0.02    0.08    0.05    0.05    0.07    0.06    0.00    0.02    0.00    0.01    0.05    0.09    0.07    0.34    0.05    0.08    0.01    0.08    0.03    0.29    0.08    0.10    0.00    0.12    0.00    0.04    0.03    0.00    0.00    0.02    0.01    0.05    0.00    0.02    0.02    0.10  
MRC1ENSG00000260314  0.00    0.01    0.03    0.00    0.00    0.00    0.01    0.03    0.12    0.03    0.00    0.00    0.03    0.05    0.03    0.04    0.04    0.05    0.02    0.03    0.04    0.04    0.03    0.04    0.00    0.01    0.00    0.00    0.00    0.02    0.01    0.01    0.00    0.05    0.00    0.06    0.00    0.00    0.00    0.00    0.09    0.01    0.20    0.05    0.02    0.02    0.05    0.01    0.20    0.00    0.03    0.07    0.00    0.00    0.00    0.00    0.04    0.00    0.03    0.01    0.01    0.02    0.00    0.02    0.02    0.03  

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