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 
GPR65ENSG00000140030  0.00    0.02    0.01    0.00    0.00    0.04    0.01    0.04    0.06    0.05    0.00    0.00    0.00    0.05    0.05    0.05    0.09    0.02    0.04    0.05    0.09    0.06    0.02    0.04    0.00    0.03    0.01    0.03    0.01    0.01    0.01    0.10    0.00    0.31    0.13    0.00    0.01    0.01    0.00    0.00    0.03    0.09    0.20    0.16    0.06    0.06    0.03    0.01    0.06    0.02    0.04    0.10    0.03    0.01    0.00    0.00    0.00    0.00    0.00    0.10    0.01    0.07    0.03    0.01    0.01    0.06  
SLC24A4ENSG00000140090  0.00    0.02    0.02    0.01    0.00    0.04    0.01    0.05    0.05    0.06    0.00    0.00    0.00    0.05    0.05    0.05    0.12    0.02    0.04    0.05    0.08    0.05    0.04    0.04    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    0.02    0.08    0.10    0.03    0.01    0.00    0.00    0.03    0.00    0.01    0.10    0.02    0.06    0.03    0.01    0.01    0.06  
SERPINA10ENSG00000140093  0.00    0.02    0.01    0.00    0.00    0.04    0.02    0.04    0.04    0.06    0.00    0.00    0.00    0.05    0.03    0.06    0.11    0.02    0.05    0.04    0.07    0.06    0.03    0.05    0.00    0.03    0.01    0.02    0.01    0.01    0.02    0.10    0.00    0.31    0.05    0.00    0.01    0.01    0.00    0.00    0.04    0.09    0.20    0.18    0.07    0.09    0.05    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  
WARSENSG00000140105  0.00    0.02    0.01    0.02    0.00    0.04    0.02    0.03    0.08    0.06    0.00    0.00    0.00    0.09    0.04    0.06    0.17    0.03    0.06    0.05    0.09    0.04    0.04    0.06    0.00    0.03    0.02    0.04    0.01    0.02    0.01    0.10    0.00    0.31    0.14    0.00    0.04    0.03    0.00    0.00    0.06    0.07    0.21    0.17    0.06    0.10    0.06    0.02    0.06    0.09    0.12    0.05    0.03    0.01    0.00    0.00    0.19    0.00    0.00    0.08    0.02    0.06    0.03    0.01    0.01    0.06  
SLC25A47ENSG00000140107  0.00    0.02    0.01    0.02    0.00    0.04    0.02    0.03    0.08    0.06    0.00    0.00    0.00    0.09    0.04    0.05    0.17    0.03    0.06    0.05    0.09    0.04    0.04    0.06    0.00    0.03    0.02    0.04    0.01    0.02    0.01    0.10    0.00    0.31    0.14    0.00    0.04    0.03    0.00    0.00    0.06    0.07    0.20    0.17    0.06    0.10    0.06    0.02    0.06    0.02    0.12    0.05    0.03    0.01    0.00    0.00    0.19    0.00    0.00    0.08    0.02    0.06    0.03    0.01    0.01    0.06  
SLC12A6ENSG00000140199  0.01    0.00    0.00    0.02    0.14    0.00    0.02    0.05    0.03    0.08    0.00    0.00    0.01    0.37    0.02    0.10    0.04    0.10    0.03    0.04    0.07    0.08    0.02    0.07    0.01    0.07    0.01    0.05    0.00    0.04    0.01    0.02    0.00    0.07    0.02    0.08    0.00    0.00    0.00    0.00    0.04    0.12    0.07    0.30    0.04    0.05    0.02    0.08    0.05    0.48    0.06    0.08    0.03    0.03    0.00    0.00    0.00    0.04    0.00    0.02    0.01    0.12    0.00    0.00    0.02    0.14  
MFAP1ENSG00000140259  0.00    0.01    0.00    0.02    0.14    0.00    0.01    0.05    0.02    0.05    0.00    0.00    0.02    0.33    0.01    0.09    0.02    0.08    0.02    0.04    0.04    0.05    0.01    0.06    0.01    0.06    0.00    0.06    0.00    0.04    0.00    0.02    0.00    0.07    0.02    0.09    0.00    0.00    0.00    0.00    0.01    0.10    0.04    0.32    0.01    0.10    0.02    0.07    0.05    0.30    0.06    0.09    0.01    0.03    0.00    0.00    0.02    0.18    0.00    0.02    0.01    0.11    0.00    0.00    0.02    0.17  
DUOX2ENSG00000140279  0.00    0.01    0.00    0.02    0.14    0.00    0.01    0.05    0.03    0.05    0.00    0.00    0.02    0.31    0.01    0.09    0.01    0.08    0.02    0.03    0.04    0.05    0.02    0.06    0.01    0.05    0.00    0.06    0.00    0.03    0.01    0.02    0.00    0.03    0.03    0.08    0.00    0.00    0.00    0.00    0.03    0.10    0.04    0.29    0.01    0.09    0.00    0.07    0.05    0.26    0.08    0.09    0.01    0.03    0.00    0.00    0.02    0.14    0.00    0.03    0.00    0.11    0.00    0.00    0.02    0.15  
FGF7ENSG00000140285  0.00    0.00    0.00    0.01    0.14    0.00    0.01    0.04    0.05    0.04    0.00    0.00    0.04    0.12    0.01    0.06    0.03    0.05    0.02    0.03    0.03    0.03    0.01    0.07    0.01    0.04    0.00    0.05    0.00    0.03    0.00    0.03    0.00    0.01    0.02    0.03    0.00    0.00    0.00    0.00    0.06    0.08    0.05    0.23    0.00    0.10    0.00    0.07    0.08    0.26    0.10    0.06    0.01    0.03    0.00    0.00    0.02    0.05    0.00    0.03    0.00    0.10    0.00    0.00    0.03    0.12  
HDCENSG00000140287  0.00    0.00    0.00    0.01    0.14    0.00    0.01    0.04    0.05    0.03    0.00    0.00    0.07    0.11    0.01    0.05    0.03    0.05    0.03    0.02    0.03    0.02    0.01    0.07    0.01    0.03    0.00    0.05    0.00    0.02    0.02    0.02    0.00    0.01    0.02    0.03    0.00    0.00    0.00    0.00    0.07    0.08    0.06    0.20    0.01    0.09    0.00    0.07    0.08    0.26    0.10    0.04    0.01    0.03    0.00    0.00    0.06    0.05    0.00    0.02    0.00    0.09    0.00    0.00    0.04    0.11  
BCL2A1ENSG00000140379  0.00    0.00    0.00    0.00    0.02    0.02    0.01    0.01    0.03    0.03    0.00    0.00    0.11    0.02    0.03    0.01    0.09    0.01    0.04    0.02    0.09    0.03    0.10    0.02    0.03    0.01    0.03    0.00    0.05    0.01    0.05    0.03    0.05    0.01    0.06    0.00    0.00    0.00    0.00    0.00    0.12    0.02    0.21    0.11    0.14    0.00    0.03    0.03    0.13    0.05    0.06    0.06    0.00    0.00    0.00    0.00    0.06    0.00    0.01    0.01    0.01    0.02    0.00    0.00    0.16    0.00  
MAN2C1ENSG00000140400  0.00    0.00    0.00    0.00    0.02    0.02    0.01    0.03    0.03    0.03    0.00    0.00    0.09    0.00    0.03    0.02    0.09    0.01    0.02    0.02    0.07    0.03    0.06    0.05    0.02    0.02    0.03    0.03    0.03    0.01    0.05    0.03    0.00    0.01    0.05    0.00    0.01    0.00    0.00    0.00    0.08    0.03    0.16    0.16    0.12    0.01    0.03    0.04    0.17    0.07    0.05    0.06    0.00    0.00    0.00    0.01    0.06    0.15    0.01    0.01    0.01    0.04    0.00    0.00    0.13    0.03  
CYP1A1ENSG00000140465  0.00    0.00    0.00    0.01    0.02    0.02    0.01    0.03    0.04    0.02    0.00    0.00    0.09    0.00    0.05    0.02    0.06    0.02    0.02    0.03    0.07    0.03    0.05    0.03    0.02    0.02    0.03    0.03    0.03    0.02    0.04    0.03    0.00    0.01    0.06    0.00    0.00    0.00    0.00    0.00    0.08    0.04    0.15    0.15    0.12    0.01    0.03    0.04    0.14    0.03    0.05    0.09    0.00    0.00    0.00    0.01    0.06    0.00    0.01    0.01    0.01    0.03    0.00    0.00    0.13    0.01  
ULK3ENSG00000140474  0.00    0.00    0.00    0.01    0.02    0.02    0.01    0.03    0.04    0.02    0.00    0.00    0.09    0.00    0.03    0.02    0.07    0.02    0.02    0.03    0.08    0.03    0.05    0.04    0.02    0.02    0.03    0.03    0.03    0.02    0.04    0.03    0.00    0.01    0.12    0.00    0.00    0.00    0.00    0.00    0.08    0.04    0.16    0.15    0.12    0.01    0.04    0.04    0.17    0.07    0.05    0.08    0.00    0.00    0.00    0.01    0.06    0.00    0.01    0.01    0.01    0.03    0.00    0.00    0.13    0.01  
PCSK6ENSG00000140479  0.00    0.00    0.00    0.00    0.02    0.00    0.02    0.03    0.07    0.03    0.03    0.00    0.06    0.00    0.07    0.02    0.27    0.02    0.11    0.01    0.21    0.03    0.23    0.01    0.05    0.01    0.08    0.02    0.07    0.00    0.14    0.07    0.05    0.01    0.19    0.00    0.00    0.00    0.00    0.00    0.21    0.04    0.45    0.08    0.17    0.02    0.07    0.02    0.14    0.04    0.29    0.09    0.01    0.01    0.00    0.00    0.06    0.00    0.03    0.01    0.02    0.02    0.00    0.00    0.20    0.03  
CYP1A2ENSG00000140505  0.00    0.00    0.00    0.01    0.02    0.02    0.01    0.03    0.04    0.02    0.00    0.00    0.09    0.00    0.05    0.02    0.06    0.02    0.02    0.03    0.07    0.03    0.05    0.03    0.02    0.02    0.03    0.03    0.03    0.02    0.05    0.03    0.00    0.01    0.05    0.00    0.00    0.00    0.00    0.00    0.08    0.04    0.16    0.15    0.12    0.01    0.03    0.04    0.14    0.07    0.05    0.09    0.00    0.00    0.00    0.01    0.06    0.00    0.01    0.01    0.01    0.03    0.00    0.00    0.13    0.01  
HAPLN3ENSG00000140511  0.00    0.00    0.00    0.00    0.02    0.02    0.02    0.02    0.04    0.02    0.03    0.00    0.06    0.00    0.05    0.01    0.19    0.00    0.05    0.02    0.16    0.02    0.21    0.01    0.04    0.01    0.10    0.00    0.06    0.01    0.06    0.04    0.05    0.01    0.05    0.00    0.00    0.00    0.00    0.00    0.15    0.03    0.29    0.07    0.18    0.00    0.04    0.03    0.22    0.05    0.11    0.04    0.00    0.00    0.00    0.00    0.06    0.00    0.01    0.01    0.01    0.01    0.00    0.00    0.19    0.01  
RLBP1ENSG00000140522  0.01    0.00    0.00    0.01    0.02    0.02    0.03    0.02    0.04    0.02    0.03    0.00    0.06    0.00    0.05    0.01    0.22    0.00    0.06    0.02    0.16    0.01    0.22    0.00    0.04    0.01    0.10    0.00    0.06    0.00    0.05    0.04    0.05    0.01    0.05    0.00    0.00    0.00    0.00    0.00    0.15    0.02    0.31    0.08    0.19    0.00    0.04    0.03    0.26    0.05    0.10    0.03    0.00    0.00    0.00    0.00    0.06    0.00    0.02    0.01    0.01    0.01    0.00    0.00    0.20    0.01  
MFGE8ENSG00000140545  0.00    0.00    0.00    0.00    0.02    0.02    0.03    0.02    0.04    0.02    0.03    0.00    0.06    0.00    0.05    0.01    0.19    0.00    0.05    0.02    0.16    0.02    0.21    0.01    0.04    0.01    0.10    0.00    0.06    0.01    0.06    0.04    0.05    0.01    0.05    0.00    0.00    0.00    0.00    0.00    0.15    0.03    0.29    0.07    0.18    0.00    0.04    0.03    0.22    0.05    0.11    0.04    0.00    0.00    0.00    0.00    0.06    0.00    0.01    0.01    0.01    0.01    0.00    0.00    0.19    0.01  
FURINENSG00000140564  0.00    0.00    0.00    0.00    0.02    0.00    0.02    0.02    0.04    0.03    0.03    0.00    0.06    0.00    0.06    0.01    0.20    0.00    0.06    0.02    0.22    0.01    0.25    0.01    0.05    0.01    0.10    0.00    0.06    0.00    0.07    0.05    0.05    0.01    0.07    0.02    0.00    0.00    0.00    0.00    0.15    0.02    0.34    0.08    0.18    0.01    0.07    0.02    0.37    0.01    0.16    0.03    0.00    0.01    0.00    0.00    0.06    0.00    0.02    0.00    0.03    0.01    0.00    0.00    0.20    0.01  

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