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 
HNRNPA1ENSG00000135486  0.00    0.00    0.00    0.00    0.02    0.00    0.01    0.00    0.09    0.02    0.00    0.00    0.02    0.02    0.07    0.01    0.04    0.02    0.01    0.02    0.07    0.03    0.08    0.03    0.02    0.00    0.02    0.02    0.01    0.02    0.01    0.01    0.17    0.01    0.15    0.01    0.05    0.00    0.00    0.00    0.04    0.05    0.20    0.06    0.04    0.00    0.08    0.01    0.14    0.09    0.10    0.08    0.01    0.00    0.00    0.00    0.09    0.00    0.00    0.04    0.03    0.05    0.00    0.00    0.03    0.04  
MIPENSG00000135517  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.01    0.04    0.03    0.00    0.00    0.02    0.02    0.11    0.01    0.03    0.01    0.01    0.02    0.08    0.04    0.06    0.02    0.02    0.00    0.02    0.01    0.02    0.01    0.05    0.01    0.00    0.01    0.27    0.02    0.07    0.00    0.00    0.00    0.04    0.04    0.23    0.04    0.04    0.00    0.08    0.00    0.25    0.04    0.13    0.07    0.01    0.00    0.00    0.00    0.12    0.00    0.02    0.03    0.07    0.04    0.00    0.00    0.07    0.03  
KCNH3ENSG00000135519  0.00    0.00    0.00    0.00    0.00    0.00    0.00    0.00    0.05    0.03    0.00    0.00    0.00    0.04    0.05    0.01    0.02    0.02    0.01    0.03    0.06    0.03    0.03    0.04    0.02    0.00    0.02    0.01    0.00    0.05    0.01    0.01    0.09    0.01    0.15    0.00    0.00    0.03    0.00    0.00    0.03    0.05    0.09    0.06    0.03    0.01    0.05    0.01    0.13    0.11    0.15    0.09    0.02    0.00    0.00    0.01    0.12    0.03    0.00    0.04    0.02    0.04    0.00    0.00    0.05    0.04  
CD164ENSG00000135535  0.00    0.04    0.00    0.00    0.00    0.00    0.01    0.30    0.02    0.13    0.00    0.01    0.00    0.14    0.02    0.06    0.05    0.05    0.02    0.03    0.05    0.07    0.06    0.07    0.01    0.03    0.01    0.04    0.00    0.03    0.01    0.08    0.00    0.15    0.10    0.02    0.01    0.00    0.00    0.00    0.15    0.10    0.10    0.24    0.04    0.02    0.06    0.02    0.11    0.03    0.12    0.08    0.00    0.04    0.00    0.00    0.01    0.25    0.00    0.02    0.02    0.05    0.06    0.03    0.00    0.12  
TAAR5ENSG00000135569  0.00    0.05    0.00    0.00    0.00    0.05    0.01    0.01    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    0.01    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    0.00    0.09    0.01    0.12  
NMBRENSG00000135577  0.00    0.06    0.00    0.01    0.00    0.08    0.01    0.02    0.06    0.06    0.00    0.01    0.00    0.17    0.02    0.04    0.05    0.03    0.05    0.03    0.13    0.02    0.12    0.02    0.02    0.01    0.04    0.01    0.00    0.02    0.00    0.09    0.00    0.16    0.14    0.03    0.00    0.02    0.00    0.00    0.10    0.06    0.06    0.33    0.01    0.06    0.05    0.03    0.11    0.03    0.38    0.03    0.01    0.04    0.00    0.00    0.00    0.07    0.00    0.05    0.00    0.11    0.00    0.05    0.02    0.14  
SMPD2ENSG00000135587  0.00    0.04    0.00    0.00    0.00    0.00    0.01    0.30    0.02    0.13    0.00    0.01    0.00    0.14    0.03    0.06    0.05    0.05    0.02    0.03    0.04    0.07    0.05    0.07    0.01    0.03    0.01    0.04    0.00    0.03    0.01    0.08    0.00    0.15    0.15    0.02    0.01    0.00    0.00    0.00    0.14    0.10    0.10    0.24    0.04    0.02    0.06    0.02    0.11    0.03    0.12    0.08    0.00    0.04    0.00    0.00    0.01    0.25    0.00    0.02    0.02    0.05    0.00    0.03    0.01    0.12  
PRADC1ENSG00000135617  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.03    0.11    0.01    0.00    0.00    0.00    0.05    0.03    0.01    0.13    0.01    0.04    0.00    0.07    0.01    0.03    0.01    0.00    0.01    0.01    0.01    0.00    0.01    0.02    0.02    0.00    0.02    0.03    0.02    0.01    0.01    0.00    0.00    0.05    0.01    0.15    0.04    0.03    0.00    0.04    0.01    0.10    0.02    0.05    0.05    0.03    0.04    0.00    0.00    0.04    0.02    0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.01  
KLHL36ENSG00000135686  0.01    0.00    0.00    0.04    0.00    0.08    0.00    0.28    0.08    0.05    0.00    0.00    0.00    0.17    0.01    0.09    0.03    0.08    0.03    0.04    0.06    0.04    0.04    0.04    0.01    0.03    0.02    0.04    0.02    0.02    0.00    0.06    0.05    0.01    0.06    0.05    0.00    0.01    0.00    0.01    0.04    0.08    0.04    0.33    0.03    0.04    0.01    0.08    0.01    0.27    0.07    0.07    0.00    0.10    0.01    0.05    0.03    0.00    0.00    0.01    0.02    0.04    0.00    0.00    0.02    0.09  
AGTENSG00000135744  0.01    0.02    0.01    0.01    0.00    0.00    0.01    0.09    0.12    0.04    0.02    0.02    0.05    0.03    0.09    0.01    0.12    0.02    0.05    0.00    0.21    0.04    0.10    0.01    0.03    0.03    0.04    0.02    0.01    0.01    0.16    0.01    0.23    0.02    0.04    0.00    0.01    0.04    0.00    0.00    0.24    0.02    0.43    0.07    0.08    0.01    0.09    0.01    0.28    0.00    0.02    0.23    0.04    0.04    0.02    0.00    0.02    0.15    0.00    0.02    0.04    0.04    0.09    0.03    0.15    0.03  
ABCB10ENSG00000135776  0.01    0.02    0.01    0.01    0.00    0.00    0.01    0.09    0.10    0.04    0.02    0.02    0.05    0.03    0.08    0.01    0.12    0.01    0.07    0.00    0.19    0.04    0.11    0.01    0.03    0.02    0.06    0.00    0.01    0.01    0.16    0.02    0.23    0.02    0.04    0.00    0.01    0.04    0.00    0.00    0.23    0.02    0.45    0.06    0.08    0.02    0.08    0.02    0.23    0.00    0.05    0.24    0.04    0.04    0.02    0.00    0.02    0.15    0.00    0.02    0.02    0.05    0.09    0.03    0.13    0.03  
RNASELENSG00000135828  0.02    0.00    0.00    0.01    0.00    0.00    0.01    0.03    0.21    0.02    0.02    0.00    0.10    0.03    0.11    0.00    0.14    0.01    0.03    0.00    0.15    0.02    0.10    0.00    0.03    0.00    0.12    0.00    0.04    0.00    0.15    0.01    0.17    0.01    0.02    0.04    0.02    0.00    0.01    0.00    0.16    0.01    0.35    0.03    0.08    0.01    0.08    0.00    0.27    0.00    0.22    0.03    0.07    0.00    0.01    0.00    0.30    0.02    0.01    0.00    0.02    0.01    0.02    0.00    0.13    0.02  
GPR55ENSG00000135898  0.01    0.08    0.04    0.04    0.00    0.05    0.02    0.03    0.00    0.32    0.00    0.03    0.00    0.07    0.04    0.04    0.02    0.19    0.01    0.18    0.04    0.15    0.04    0.04    0.02    0.03    0.02    0.03    0.07    0.01    0.04    0.05    0.05    0.01    0.03    0.05    0.00    0.01    0.00    0.01    0.02    0.09    0.15    0.19    0.02    0.37    0.04    0.05    0.13    0.06    0.04    0.37    0.04    0.03    0.00    0.00    0.00    0.00    0.00    0.07    0.01    0.01    0.01    0.08    0.01    0.08  
HTR2BENSG00000135914  0.01    0.08    0.04    0.04    0.00    0.05    0.01    0.03    0.00    0.32    0.00    0.03    0.00    0.07    0.04    0.04    0.02    0.19    0.01    0.18    0.05    0.15    0.03    0.05    0.02    0.04    0.02    0.03    0.07    0.01    0.03    0.05    0.05    0.01    0.03    0.05    0.02    0.01    0.00    0.01    0.03    0.08    0.15    0.20    0.02    0.37    0.04    0.05    0.13    0.06    0.05    0.36    0.04    0.03    0.00    0.00    0.00    0.00    0.00    0.07    0.01    0.01    0.01    0.08    0.02    0.08  
SLC19A3ENSG00000135917  0.01    0.07    0.04    0.04    0.00    0.05    0.01    0.02    0.00    0.33    0.00    0.03    0.00    0.10    0.03    0.04    0.01    0.19    0.01    0.18    0.05    0.14    0.05    0.03    0.02    0.02    0.04    0.02    0.05    0.02    0.04    0.05    0.00    0.04    0.03    0.03    0.00    0.01    0.00    0.01    0.03    0.09    0.17    0.18    0.01    0.35    0.02    0.06    0.17    0.06    0.10    0.26    0.06    0.03    0.00    0.00    0.00    0.03    0.00    0.05    0.00    0.01    0.02    0.05    0.02    0.07  
WNT10AENSG00000135925  0.01    0.06    0.04    0.04    0.00    0.03    0.01    0.02    0.01    0.27    0.00    0.01    0.00    0.10    0.02    0.03    0.04    0.19    0.00    0.18    0.03    0.11    0.06    0.04    0.02    0.01    0.02    0.02    0.05    0.03    0.03    0.04    0.00    0.01    0.04    0.02    0.01    0.00    0.00    0.01    0.04    0.06    0.18    0.15    0.04    0.34    0.06    0.04    0.19    0.05    0.08    0.19    0.08    0.01    0.00    0.00    0.00    0.04    0.01    0.02    0.01    0.00    0.02    0.02    0.03    0.03  
MFSD9ENSG00000135953  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.01    0.09    0.01    0.00    0.00    0.00    0.01    0.03    0.02    0.10    0.01    0.07    0.01    0.18    0.02    0.07    0.02    0.00    0.00    0.02    0.00    0.01    0.01    0.01    0.02    0.00    0.01    0.03    0.02    0.00    0.00    0.00    0.00    0.04    0.02    0.14    0.07    0.03    0.01    0.04    0.01    0.09    0.00    0.14    0.04    0.02    0.01    0.00    0.00    0.00    0.03    0.00    0.00    0.01    0.01    0.00    0.00    0.02    0.00  
EDARENSG00000135960  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.03    0.05    0.01    0.00    0.00    0.00    0.00    0.04    0.01    0.09    0.01    0.07    0.01    0.17    0.01    0.08    0.01    0.01    0.01    0.01    0.00    0.00    0.01    0.00    0.03    0.00    0.01    0.02    0.03    0.00    0.00    0.00    0.00    0.06    0.03    0.09    0.11    0.04    0.02    0.04    0.01    0.06    0.00    0.16    0.03    0.02    0.01    0.00    0.00    0.04    0.05    0.00    0.00    0.01    0.01    0.00    0.00    0.02    0.01  
GPR45ENSG00000135973  0.00    0.00    0.00    0.01    0.00    0.00    0.01    0.02    0.04    0.02    0.00    0.00    0.00    0.02    0.05    0.01    0.08    0.02    0.07    0.01    0.22    0.01    0.09    0.02    0.00    0.01    0.03    0.00    0.00    0.01    0.01    0.03    0.00    0.01    0.04    0.02    0.00    0.00    0.00    0.00    0.04    0.03    0.10    0.08    0.02    0.02    0.04    0.02    0.09    0.00    0.10    0.02    0.02    0.01    0.00    0.00    0.00    0.05    0.00    0.00    0.01    0.01    0.00    0.00    0.01    0.01  
ALDH1L2ENSG00000136010  0.01    0.01    0.02    0.00    0.06    0.02    0.04    0.03    0.06    0.03    0.00    0.00    0.04    0.02    0.02    0.05    0.02    0.04    0.01    0.03    0.04    0.04    0.04    0.04    0.00    0.01    0.02    0.03    0.00    0.06    0.03    0.04    0.00    0.22    0.01    0.02    0.00    0.03    0.00    0.00    0.03    0.08    0.07    0.22    0.01    0.01    0.02    0.04    0.02    0.11    0.14    0.04    0.00    0.01    0.00    0.00    0.10    0.00    0.01    0.02    0.03    0.01    0.00    0.00    0.01    0.08  

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