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 
SLC35G4ENSG00000236396  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.00    0.05    0.02    0.00    0.00    0.00    0.02    0.03    0.00    0.06    0.02    0.02    0.02    0.03    0.04    0.09    0.02    0.01    0.02    0.00    0.03    0.01    0.01    0.00    0.00    0.03    0.05    0.00    0.00    0.03    0.00    0.00    0.00    0.04    0.02    0.05    0.04    0.02    0.02    0.01    0.00    0.06    0.02    0.07    0.05    0.02    0.02    0.00    0.02    0.00    0.00    0.00    0.00    0.00    0.01    0.00    0.00    0.00    0.01  
TAS2R39ENSG00000236398  0.01    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    0.08    0.02    0.08    0.06    0.02    0.15    0.03    0.20    0.02    0.10    0.03    0.01    0.01    0.03    0.02    0.04    0.04    0.05    0.00    0.11    0.06    0.09    0.00    0.02    0.00    0.00    0.09    0.04    0.54    0.04    0.03    0.09    0.05    0.05    0.10    0.14    0.12    0.11    0.02    0.04    0.00    0.05    0.02    0.09    0.11    0.01    0.04    0.02    0.00    0.03    0.21    0.02  
IFNA4ENSG00000236637  0.00    0.02    0.00    0.06    0.00    0.06    0.01    0.03    0.09    0.41    0.00    0.04    0.00    0.76    0.03    0.27    0.05    0.35    0.06    0.15    0.02    0.29    0.01    0.20    0.02    0.02    0.01    0.02    0.03    0.34    0.01    0.10    0.00    0.16    0.00    0.13    0.00    0.01    0.00    0.00    0.06    0.09    0.07    0.18    0.06    0.05    0.05    0.02    0.04    0.05    0.05    0.26    0.02    0.01    0.00    0.00    0.00    0.09    0.00    0.24    0.01    1.01    0.00    0.00    0.01    0.30  
OR10G9ENSG00000236981  0.00    0.01    0.00    0.05    0.02    0.02    0.02    0.06    0.03    0.09    0.00    0.00    0.13    0.06    0.05    0.09    0.05    0.10    0.04    0.14    0.05    0.15    0.05    0.08    0.01    0.01    0.01    0.03    0.01    0.02    0.00    0.09    0.00    0.19    0.00    0.04    0.00    0.05    0.00    0.00    0.03    0.22    0.19    0.17    0.04    0.31    0.04    0.07    0.05    0.17    0.05    0.24    0.00    0.24    0.03    0.00    0.13    0.02    0.06    0.01    0.01    0.02    0.00    0.07    0.01    0.26  
TAAR9ENSG00000237110  0.00    0.05    0.00    0.00    0.00    0.05    0.01    0.00    0.07    0.05    0.00    0.01    0.00    0.14    0.03    0.04    0.05    0.03    0.05    0.01    0.10    0.02    0.08    0.02    0.02    0.02    0.04    0.03    0.00    0.02    0.01    0.08    0.00    0.10    0.04    0.04    0.00    0.01    0.00    0.00    0.10    0.05    0.06    0.28    0.01    0.02    0.05    0.03    0.08    0.03    0.30    0.05    0.01    0.04    0.00    0.00    0.00    0.15    0.00    0.05    0.00    0.10    0.05    0.06    0.01    0.12  
PATE4ENSG00000237353  0.00    0.01    0.00    0.05    0.02    0.02    0.02    0.06    0.03    0.11    0.00    0.00    0.11    0.04    0.05    0.09    0.04    0.10    0.04    0.14    0.05    0.16    0.05    0.08    0.01    0.02    0.01    0.03    0.01    0.02    0.01    0.09    0.00    0.23    0.00    0.06    0.00    0.05    0.00    0.00    0.03    0.22    0.21    0.17    0.04    0.32    0.05    0.08    0.05    0.17    0.02    0.25    0.00    0.28    0.04    0.00    0.13    0.02    0.06    0.01    0.01    0.01    0.00    0.07    0.00    0.26  
OR4A47ENSG00000237388  0.00    0.00    0.00    0.00    0.05    0.00    0.01    0.07    0.04    0.05    0.00    0.02    0.00    0.01    0.04    0.02    0.08    0.03    0.06    0.02    0.08    0.07    0.04    0.01    0.00    0.01    0.02    0.01    0.01    0.02    0.02    0.00    0.00    0.11    0.07    0.02    0.00    0.04    0.00    0.00    0.08    0.03    0.10    0.06    0.05    0.03    0.03    0.02    0.05    0.07    0.09    0.07    0.00    0.04    0.00    0.00    0.00    0.00    0.00    0.02    0.01    0.04    0.00    0.02    0.01    0.04  
PRSS56ENSG00000237412  0.01    0.07    0.04    0.04    0.00    0.05    0.01    0.04    0.00    0.33    0.00    0.03    0.00    0.07    0.04    0.04    0.02    0.20    0.01    0.18    0.03    0.16    0.03    0.07    0.02    0.04    0.02    0.02    0.05    0.03    0.03    0.06    0.05    0.01    0.04    0.05    0.00    0.01    0.00    0.01    0.02    0.09    0.15    0.21    0.01    0.39    0.04    0.06    0.13    0.06    0.04    0.37    0.04    0.03    0.00    0.00    0.00    0.00    0.00    0.12    0.00    0.04    0.01    0.08    0.02    0.11  
OR7E24ENSG00000237521  0.00    0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.06    0.05    0.00    0.01    0.05    0.02    0.01    0.05    0.07    0.07    0.05    0.05    0.04    0.09    0.04    0.06    0.01    0.01    0.00    0.04    0.02    0.03    0.01    0.12    0.00    0.01    0.06    0.03    0.01    0.00    0.00    0.01    0.08    0.05    0.39    0.27    0.10    0.09    0.14    0.13    0.31    0.32    0.24    0.00    0.02    0.00    0.02    0.00    0.00    0.03    0.00    0.00    0.04    0.01    0.02    0.02    0.03    0.01  
HLA-DQA2ENSG00000237541  0.01    0.00    0.00    0.02    0.00    0.00    0.01    0.00    0.09    0.04    0.00    0.00    0.02    0.02    0.08    0.02    0.05    0.05    0.03    0.04    0.15    0.05    0.09    0.04    0.03    0.02    0.06    0.02    0.04    0.01    0.08    0.01    0.05    0.03    0.03    0.03    0.00    0.00    0.00    0.00    0.09    0.03    0.28    0.06    0.09    0.01    0.05    0.01    0.05    0.03    0.05    0.07    0.00    0.01    0.00    0.00    0.02    0.17    0.01    0.01    0.01    0.01    0.11    0.00    0.11    0.01  
AMY1AENSG00000237763  0.00    0.01    0.00    0.01    0.00    0.00    0.01    0.05    0.04    0.07    0.00    0.00    0.00    0.32    0.02    0.12    0.03    0.10    0.01    0.10    0.02    0.10    0.02    0.07    0.00    0.08    0.01    0.08    0.00    0.02    0.02    0.03    0.00    0.11    0.04    0.04    0.00    0.26    0.00    0.00    0.03    0.11    0.14    0.17    0.01    0.07    0.03    0.03    0.01    0.06    0.05    0.10    0.03    0.05    0.00    0.01    0.00    0.03    0.01    0.01    0.01    0.03    0.00    0.03    0.06    0.11  
OR2W3ENSG00000238243  0.01    0.02    0.01    0.01    0.00    0.01    0.02    0.04    0.14    0.04    0.02    0.02    0.08    0.05    0.13    0.01    0.17    0.03    0.10    0.02    0.27    0.04    0.13    0.01    0.04    0.02    0.08    0.01    0.02    0.01    0.20    0.02    0.23    0.02    0.10    0.07    0.00    0.04    0.00    0.00    0.29    0.02    0.48    0.12    0.13    0.01    0.12    0.02    0.32    0.00    0.09    0.24    0.06    0.02    0.01    0.00    0.03    0.18    0.02    0.04    0.02    0.04    0.15    0.03    0.24    0.02  
OR1J4ENSG00000239590  0.00    0.00    0.01    0.00    0.00    0.00    0.03    0.01    0.02    0.05    0.00    0.01    0.01    0.02    0.03    0.02    0.05    0.02    0.06    0.01    0.10    0.01    0.08    0.01    0.02    0.01    0.04    0.02    0.00    0.01    0.04    0.04    0.06    0.04    0.04    0.04    0.00    0.00    0.00    0.00    0.06    0.03    0.11    0.15    0.02    0.01    0.01    0.03    0.03    0.16    0.09    0.04    0.03    0.02    0.00    0.00    0.05    0.00    0.01    0.01    0.02    0.02    0.00    0.00    0.03    0.01  
TNFSF12ENSG00000239697  0.00    0.00    0.00    0.01    0.00    0.00    0.00    0.25    0.03    0.04    0.00    0.01    0.00    0.03    0.01    0.05    0.01    0.03    0.01    0.03    0.03    0.04    0.02    0.03    0.00    0.03    0.00    0.02    0.01    0.03    0.00    0.16    0.01    0.08    0.04    0.05    0.00    0.04    0.00    0.00    0.01    0.07    0.11    0.05    0.00    0.04    0.04    0.03    0.09    0.16    0.09    0.40    0.00    0.02    0.02    0.02    0.00    0.13    0.00    0.01    0.00    0.08    0.00    0.00    0.00    0.05  
APOBEC3GENSG00000239713  0.00    0.00    0.00    0.00    0.00    0.03    0.00    0.01    0.09    0.06    0.00    0.05    0.00    0.02    0.06    0.03    0.09    0.02    0.03    0.01    0.03    0.00    0.01    0.02    0.01    0.02    0.01    0.02    0.01    0.02    0.04    0.01    0.00    0.01    0.02    0.01    0.00    0.05    0.00    0.00    0.03    0.02    0.11    0.13    0.03    0.01    0.08    0.02    0.22    0.10    0.08    0.03    0.01    0.03    0.00    0.00    0.00    0.00    0.01    0.02    0.01    0.04    0.02    0.00    0.20    0.01  
TLR9ENSG00000239732  0.00    0.18    0.00    0.02    0.00    0.02    0.00    0.03    0.03    0.16    0.00    0.01    0.00    0.55    0.01    0.06    0.00    0.11    0.00    0.06    0.01    0.13    0.00    0.10    0.00    0.06    0.01    0.08    0.00    0.04    0.05    0.06    0.00    0.20    0.07    0.02    0.00    0.04    0.00    0.00    0.01    0.17    0.09    0.21    0.03    0.07    0.09    0.06    0.03    0.29    0.03    0.15    0.05    0.01    0.00    0.01    0.00    0.06    0.00    0.06    0.01    0.04    0.00    0.03    0.02    0.05  
DEFA3ENSG00000239839  0.00    0.02    0.00    0.01    0.00    0.01    0.00    0.12    0.01    0.15    0.00    0.00    0.02    0.04    0.03    0.07    0.01    0.14    0.00    0.08    0.16    0.08    0.17    0.04    0.01    0.10    0.00    0.20    0.03    0.05    0.01    0.14    0.00    0.01    0.00    0.02    0.00    0.02    0.00    0.00    0.02    0.16    0.04    0.42    0.01    0.05    0.00    0.09    0.03    0.28    0.05    0.13    0.01    0.01    0.00    0.00    0.00    0.08    0.00    0.01    0.01    0.02    0.00    0.01    0.02    0.03  
IGKV3-20ENSG00000239951  0.00    0.00    0.00    0.02    0.00    0.00    0.01    0.03    0.07    0.01    0.00    0.00    0.00    0.02    0.03    0.02    0.09    0.02    0.07    0.02    0.10    0.01    0.01    0.01    0.00    0.00    0.01    0.02    0.00    0.01    0.02    0.02    0.00    0.02    0.08    0.01    0.00    0.01    0.00    0.00    0.04    0.02    0.11    0.05    0.04    0.01    0.05    0.02    0.08    0.02    0.20    0.05    0.01    0.04    0.00    0.00    0.00    0.04    0.00    0.00    0.00    0.01    0.00    0.00    0.03    0.01  
LILRA4ENSG00000239961  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    0.11    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    0.06    0.02    0.00    0.07    0.25    0.00    0.00    0.03    0.00    0.00    0.14    0.03    0.19    0.27    0.14    0.06    0.06    0.05    0.36    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  
LILRA2ENSG00000239998  0.01    0.00    0.00    0.02    0.00    0.00    0.03    0.00    0.18    0.03    0.00    0.00    0.01    0.04    0.04    0.06    0.10    0.10    0.05    0.02    0.09    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  

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