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 
TEX13AENSG00000268629  0.01    0.01    0.00    0.00    0.00    0.00    0.02    0.01    0.05    0.04    0.02    0.00    0.00    0.05    0.03    0.02    0.13    0.04    0.03    0.01    0.09    0.04    0.06    0.05    0.02    0.02    0.01    0.02    0.00    0.01    0.03    0.03    0.00    0.12    0.02    0.00    0.00    0.05    0.00    0.00    0.01    0.03    0.08    0.05    0.03    0.03    0.02    0.03    0.01    0.02    0.14    0.12    0.00    0.01    0.00    0.00    0.04    0.02    0.01    0.01    0.01    0.00    0.00    0.00    0.00    0.02  
ADGRE4PENSG00000268758  0.00    0.00    0.00    0.01    0.00    0.02    0.01    0.03    0.04    0.07    0.00    0.01    0.01    0.07    0.01    0.06    0.04    0.10    0.01    0.08    0.02    0.13    0.02    0.08    0.03    0.02    0.01    0.06    0.01    0.04    0.01    0.11    0.00    0.01    0.05    0.04    0.01    0.00    0.01    0.01    0.07    0.08    0.20    0.52    0.03    0.17    0.02    0.21    0.02    0.56    0.22    0.02    0.02    0.00    0.04    0.00    0.00    0.11    0.01    0.01    0.02    0.01    0.00    0.05    0.05    0.03  
MMP28ENSG00000271447  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.03    0.11    0.04    0.01    0.01    0.00    0.05    0.07    0.01    0.02    0.05    0.01    0.03    0.09    0.08    0.14    0.02    0.05    0.02    0.05    0.01    0.05    0.01    0.03    0.04    0.11    0.01    0.03    0.14    0.00    0.13    0.00    0.00    0.13    0.09    0.03    0.20    0.00    0.02    0.03    0.07    0.10    0.10    0.03    0.17    0.01    0.01    0.00    0.02    0.04    0.02    0.01    0.01    0.01    0.04    0.00    0.03    0.01    0.04  
CCL5ENSG00000271503  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.02    0.10    0.04    0.01    0.01    0.00    0.05    0.07    0.00    0.02    0.05    0.02    0.03    0.12    0.08    0.12    0.02    0.06    0.02    0.05    0.01    0.05    0.01    0.04    0.04    0.09    0.01    0.03    0.14    0.00    0.13    0.00    0.00    0.13    0.09    0.03    0.20    0.00    0.02    0.03    0.07    0.17    0.10    0.05    0.16    0.01    0.01    0.01    0.02    0.04    0.02    0.01    0.01    0.00    0.03    0.00    0.03    0.01    0.04  
KMT2BENSG00000272333  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    0.27    0.00    0.44    0.02    0.10    0.01    0.21    0.03    0.09    0.04    0.06    0.00    0.04    0.00    0.10    0.00    0.05    0.02    0.13    0.01    0.00    0.02    0.00    0.03    0.00    0.00    0.13    0.02    0.66    0.07    0.20    0.02    0.18    0.02    1.46    0.01    0.27    0.06    0.01    0.04    0.00    0.00    0.08    0.00    0.02    0.01    0.03    0.03    0.00    0.00    0.03    0.01  
SERPINA3ENSG00000273259  0.00    0.02    0.01    0.00    0.00    0.04    0.01    0.04    0.04    0.06    0.00    0.00    0.00    0.05    0.03    0.06    0.12    0.02    0.05    0.04    0.07    0.06    0.03    0.05    0.00    0.03    0.01    0.02    0.01    0.02    0.02    0.09    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    0.10    0.04    0.03    0.06    0.02    0.09    0.10    0.03    0.01    0.00    0.00    0.03    0.00    0.00    0.10    0.02    0.06    0.03    0.01    0.01    0.06  
OR4M2ENSG00000274102  0.01    0.01    0.01    0.03    0.14    0.00    0.04    0.03    0.12    0.09    0.00    0.01    0.01    0.17    0.04    0.11    0.11    0.08    0.06    0.05    0.13    0.10    0.01    0.09    0.01    0.08    0.05    0.04    0.00    0.04    0.02    0.04    0.00    0.04    0.09    0.08    0.00    0.01    0.00    0.00    0.07    0.13    0.10    0.25    0.06    0.03    0.02    0.06    0.17    0.42    0.14    0.11    0.05    0.03    0.04    0.00    0.00    0.00    0.00    0.02    0.00    0.05    0.00    0.00    0.05    0.09  
GGTLC3ENSG00000274252  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.05    0.19    0.06    0.03    0.01    0.04    0.05    0.14    0.03    0.29    0.07    0.08    0.03    0.06    0.07    0.08    0.04    0.02    0.01    0.05    0.03    0.00    0.02    0.03    0.03    0.03    0.10    0.06    0.14    0.00    0.01    0.00    0.00    0.07    0.05    0.25    0.07    0.04    0.01    0.08    0.06    0.43    0.04    0.21    0.07    0.29    0.01    0.01    0.00    0.00    0.00    0.00    0.02    0.03    0.03    0.00    0.00    0.14    0.03  
HIST1H3BENSG00000274267  0.00    0.01    0.00    0.01    0.00    0.00    0.01    0.02    0.24    0.03    0.00    0.01    0.02    0.05    0.07    0.02    0.07    0.05    0.02    0.04    0.09    0.11    0.04    0.05    0.03    0.03    0.04    0.03    0.03    0.03    0.12    0.01    0.06    0.08    0.04    0.01    0.00    0.00    0.00    0.00    0.14    0.02    0.37    0.05    0.09    0.04    0.05    0.01    0.20    0.05    0.04    0.07    0.01    0.01    0.00    0.00    0.00    0.04    0.01    0.02    0.01    0.00    0.13    0.00    0.14    0.01  
ADRA2BENSG00000274286  0.00    0.00    0.00    0.01    0.00    0.00    0.02    0.01    0.09    0.01    0.00    0.00    0.00    0.00    0.06    0.01    0.15    0.01    0.10    0.01    0.13    0.01    0.07    0.01    0.01    0.00    0.01    0.01    0.00    0.01    0.01    0.00    0.00    0.01    0.03    0.00    0.00    0.00    0.00    0.00    0.06    0.02    0.18    0.04    0.03    0.01    0.06    0.01    0.32    0.00    0.19    0.01    0.01    0.01    0.00    0.00    0.00    0.02    0.00    0.00    0.01    0.00    0.00    0.00    0.01    0.01  
TPTEENSG00000274391  0.00    0.01    0.00    0.01    0.00    0.00    0.01    0.03    0.10    0.06    0.00    0.00    0.00    0.01    0.06    0.10    0.12    0.09    0.10    0.04    0.04    0.14    0.03    0.12    0.01    0.07    0.03    0.15    0.00    0.04    0.01    0.02    0.00    0.02    0.12    0.01    0.00    0.00    0.00    0.00    0.09    0.11    0.13    0.14    0.05    0.06    0.04    0.03    0.14    0.17    0.16    0.11    0.02    0.00    0.06    0.01    0.00    0.00    0.01    0.03    0.02    0.04    0.00    0.00    0.03    0.03  
HIST1H4FENSG00000274618  0.00    0.01    0.00    0.01    0.00    0.00    0.01    0.02    0.22    0.03    0.00    0.01    0.02    0.05    0.07    0.02    0.07    0.06    0.02    0.05    0.11    0.12    0.05    0.05    0.03    0.03    0.04    0.04    0.02    0.04    0.11    0.01    0.06    0.08    0.04    0.02    0.00    0.00    0.00    0.00    0.12    0.03    0.36    0.06    0.10    0.03    0.05    0.01    0.20    0.07    0.03    0.07    0.01    0.02    0.01    0.00    0.05    0.01    0.01    0.02    0.01    0.00    0.11    0.00    0.13    0.01  
CCL23ENSG00000274736  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.02    0.10    0.04    0.01    0.00    0.00    0.05    0.06    0.00    0.03    0.04    0.02    0.03    0.11    0.08    0.17    0.02    0.05    0.02    0.05    0.01    0.05    0.01    0.03    0.04    0.12    0.01    0.03    0.14    0.00    0.13    0.00    0.00    0.15    0.09    0.04    0.20    0.01    0.02    0.03    0.07    0.10    0.10    0.04    0.14    0.01    0.01    0.01    0.02    0.04    0.02    0.01    0.01    0.00    0.03    0.00    0.03    0.01    0.04  
HIST1H3EENSG00000274750  0.00    0.01    0.00    0.01    0.00    0.00    0.01    0.02    0.22    0.03    0.00    0.01    0.02    0.05    0.07    0.02    0.07    0.07    0.02    0.05    0.11    0.13    0.05    0.05    0.03    0.03    0.04    0.04    0.02    0.08    0.11    0.01    0.06    0.08    0.04    0.02    0.00    0.00    0.00    0.00    0.12    0.03    0.36    0.06    0.10    0.03    0.05    0.01    0.20    0.07    0.03    0.07    0.01    0.02    0.01    0.00    0.05    0.01    0.01    0.02    0.01    0.00    0.11    0.00    0.13    0.01  
HIST1H4LENSG00000275126  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.19    0.02    0.00    0.01    0.02    0.05    0.06    0.02    0.06    0.05    0.02    0.04    0.09    0.12    0.06    0.05    0.04    0.02    0.06    0.02    0.02    0.03    0.10    0.01    0.06    0.01    0.04    0.00    0.00    0.00    0.00    0.00    0.10    0.03    0.32    0.06    0.08    0.03    0.04    0.01    0.26    0.02    0.04    0.06    0.01    0.01    0.00    0.00    0.02    0.04    0.01    0.01    0.00    0.01    0.13    0.00    0.13    0.01  
CCL16ENSG00000275152  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.02    0.11    0.04    0.01    0.01    0.00    0.05    0.06    0.00    0.03    0.04    0.02    0.03    0.10    0.08    0.15    0.02    0.05    0.02    0.05    0.01    0.05    0.01    0.03    0.04    0.05    0.01    0.03    0.14    0.00    0.13    0.00    0.00    0.15    0.09    0.03    0.20    0.00    0.02    0.03    0.07    0.10    0.10    0.04    0.14    0.01    0.01    0.01    0.02    0.04    0.02    0.01    0.01    0.00    0.03    0.00    0.03    0.01    0.04  
CCL4ENSG00000275302  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.03    0.11    0.04    0.01    0.00    0.00    0.05    0.06    0.00    0.03    0.05    0.02    0.03    0.11    0.08    0.13    0.02    0.05    0.02    0.05    0.01    0.04    0.01    0.03    0.04    0.12    0.01    0.03    0.10    0.00    0.13    0.00    0.00    0.16    0.09    0.04    0.20    0.01    0.02    0.04    0.07    0.10    0.10    0.04    0.15    0.01    0.01    0.01    0.02    0.04    0.02    0.01    0.01    0.00    0.04    0.00    0.03    0.01    0.04  
HIST1H3IENSG00000275379  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.19    0.02    0.00    0.01    0.02    0.05    0.06    0.02    0.06    0.05    0.02    0.04    0.09    0.12    0.06    0.05    0.04    0.02    0.06    0.02    0.02    0.03    0.10    0.01    0.06    0.01    0.04    0.00    0.00    0.00    0.00    0.00    0.10    0.03    0.32    0.06    0.08    0.03    0.04    0.01    0.26    0.02    0.04    0.06    0.01    0.01    0.00    0.00    0.02    0.04    0.01    0.01    0.00    0.01    0.13    0.00    0.13    0.01  
CCL18ENSG00000275385  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.03    0.11    0.04    0.01    0.00    0.00    0.05    0.06    0.00    0.03    0.05    0.02    0.03    0.11    0.08    0.13    0.02    0.05    0.02    0.05    0.01    0.04    0.01    0.03    0.04    0.12    0.01    0.03    0.10    0.00    0.13    0.00    0.00    0.16    0.09    0.04    0.20    0.01    0.02    0.04    0.07    0.10    0.10    0.04    0.15    0.01    0.01    0.01    0.02    0.04    0.02    0.01    0.01    0.00    0.04    0.00    0.03    0.01    0.04  
FCGBPENSG00000275395  0.00    0.00    0.00    0.01    0.00    0.02    0.01    0.03    0.23    0.02    0.00    0.00    0.08    0.02    0.16    0.03    0.47    0.05    0.07    0.01    0.10    0.03    0.08    0.02    0.05    0.01    0.01    0.01    0.22    0.00    0.07    0.02    0.12    0.01    0.11    0.04    0.00    0.02    0.00    0.00    0.16    0.03    0.72    0.16    0.22    0.03    0.20    0.03    0.98    0.11    0.29    0.11    0.00    0.03    0.01    0.00    0.05    0.00    0.02    0.06    0.04    0.05    0.00    0.00    0.04    0.02  

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