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 
ADCY8ENSG00000155897  0.02    0.00    0.02    0.00    0.09    0.00    0.07    0.02    0.24    0.02    0.02    0.01    0.10    0.04    0.35    0.01    0.37    0.00    0.29    0.00    0.65    0.01    0.25    0.01    0.18    0.01    0.23    0.01    0.18    0.00    0.39    0.01    0.25    0.01    0.08    0.00    0.01    0.01    0.00    0.00    0.48    0.03    1.73    0.02    0.20    0.00    0.19    0.01    0.41    0.00    0.14    0.06    0.03    0.02    0.02    0.00    0.23    0.02    0.20    0.00    0.05    0.02    0.50    0.00    0.20    0.01  
VEGFAENSG00000112715  0.02    0.00    0.01    0.00    0.00    0.00    0.02    0.01    0.21    0.02    0.00    0.00    0.01    0.02    0.11    0.01    0.16    0.04    0.06    0.02    0.76    0.01    0.42    0.01    0.10    0.00    0.21    0.00    0.04    0.00    0.31    0.00    0.05    0.01    0.06    0.00    0.02    0.00    0.00    0.00    0.13    0.03    0.28    0.06    0.09    0.02    0.07    0.01    0.14    0.03    0.15    0.02    0.05    0.01    0.00    0.00    0.09    0.05    0.01    0.00    0.04    0.01    0.02    0.00    0.06    0.00  
MST1RENSG00000164078  0.00    0.17    0.00    0.02    0.00    0.00    0.01    0.02    0.03    0.16    0.02    0.00    0.00    0.54    0.01    0.06    0.00    0.10    0.00    0.06    0.01    0.14    0.02    0.12    0.00    0.06    0.01    0.06    0.00    0.04    0.02    0.05    0.00    0.24    0.01    0.02    0.00    0.02    0.00    0.00    0.01    0.17    0.07    0.19    0.00    0.07    0.07    0.06    0.01    0.31    0.03    0.16    0.02    0.03    0.00    0.01    0.00    0.08    0.02    0.05    0.02    0.03    0.00    0.03    0.01    0.04  
CXADRENSG00000154639  0.00    0.00    0.00    0.01    0.00    0.01    0.02    0.04    0.08    0.05    0.00    0.00    0.01    0.02    0.07    0.06    0.14    0.07    0.05    0.05    0.03    0.13    0.03    0.07    0.01    0.06    0.04    0.13    0.00    0.04    0.02    0.02    0.00    0.03    0.10    0.03    0.00    0.00    0.00    0.00    0.06    0.09    0.17    0.12    0.06    0.04    0.04    0.03    0.04    0.20    0.20    0.10    0.01    0.00    0.06    0.01    0.00    0.00    0.02    0.02    0.04    0.04    0.05    0.00    0.03    0.02  
ATICENSG00000138363  0.01    0.06    0.04    0.03    0.00    0.03    0.01    0.02    0.02    0.27    0.00    0.00    0.00    0.12    0.03    0.03    0.03    0.19    0.01    0.18    0.03    0.11    0.05    0.04    0.02    0.02    0.02    0.02    0.06    0.03    0.03    0.04    0.00    0.01    0.03    0.00    0.00    0.00    0.00    0.01    0.05    0.05    0.17    0.16    0.03    0.33    0.03    0.04    0.08    0.05    0.06    0.18    0.08    0.01    0.00    0.00    0.00    0.04    0.00    0.02    0.00    0.00    0.02    0.02    0.03    0.04  
ATP2A3ENSG00000074370  0.00    0.00    0.00    0.00    0.00    0.00    0.01    0.08    0.05    0.03    0.00    0.00    0.00    0.02    0.01    0.06    0.02    0.02    0.01    0.03    0.05    0.05    0.02    0.02    0.01    0.00    0.00    0.01    0.00    0.03    0.01    0.12    0.02    0.08    0.03    0.05    0.00    0.03    0.00    0.00    0.04    0.05    0.13    0.08    0.01    0.03    0.04    0.04    0.07    0.11    0.15    0.23    0.00    0.02    0.00    0.02    0.00    0.06    0.00    0.00    0.00    0.05    0.00    0.00    0.04    0.03  
SLC17A9ENSG00000101194  0.01    0.00    0.01    0.00    0.00    0.00    0.04    0.00    0.06    0.04    0.00    0.00    0.03    0.00    0.28    0.01    0.07    0.04    0.02    0.01    0.15    0.01    0.17    0.01    0.09    0.00    0.11    0.01    0.03    0.00    0.11    0.00    0.00    0.01    0.05    0.02    0.00    0.00    0.00    0.00    0.34    0.02    0.47    0.04    0.05    0.03    0.12    0.01    0.17    0.00    0.19    0.08    0.02    0.02    0.03    0.00    0.04    0.00    0.02    0.01    0.01    0.02    0.00    0.00    0.12    0.00  
EPM2AENSG00000112425  0.00    0.05    0.00    0.01    0.00    0.05    0.01    0.03    0.06    0.05    0.00    0.01    0.00    0.17    0.02    0.05    0.06    0.03    0.04    0.03    0.11    0.04    0.09    0.02    0.02    0.01    0.03    0.03    0.00    0.03    0.01    0.10    0.00    0.18    0.15    0.03    0.00    0.02    0.00    0.00    0.10    0.06    0.05    0.36    0.01    0.06    0.04    0.04    0.08    0.03    0.39    0.02    0.02    0.04    0.00    0.00    0.00    0.12    0.00    0.06    0.00    0.10    0.00    0.09    0.02    0.13  
ENC1ENSG00000171617  0.01    0.01    0.01    0.01    0.03    0.01    0.01    0.18    0.02    0.13    0.00    0.01    0.00    0.05    0.01    0.07    0.01    0.10    0.01    0.07    0.02    0.15    0.03    0.12    0.01    0.06    0.01    0.03    0.00    0.07    0.02    0.04    0.00    0.21    0.07    0.00    0.00    0.03    0.00    0.00    0.01    0.09    0.03    0.72    0.00    0.06    0.02    0.10    0.10    0.24    0.02    0.05    0.00    0.00    0.00    0.02    0.00    0.00    0.00    0.02    0.00    0.01    0.00    0.00    0.04    0.03  
SMOC1ENSG00000198732  0.01    0.02    0.00    0.01    0.00    0.00    0.01    0.03    0.04    0.07    0.00    0.01    0.00    0.05    0.04    0.05    0.03    0.05    0.03    0.01    0.05    0.03    0.02    0.05    0.02    0.03    0.01    0.03    0.01    0.01    0.01    0.09    0.00    0.33    0.02    0.05    0.01    0.04    0.00    0.00    0.01    0.11    0.06    0.26    0.02    0.03    0.02    0.02    0.07    0.09    0.03    0.14    0.02    0.01    0.00    0.00    0.04    0.02    0.00    0.11    0.01    0.08    0.03    0.00    0.01    0.04  
SLC36A1ENSG00000123643  0.31    0.00    0.02    0.01    0.00    0.00    0.02    0.01    0.02    0.05    0.00    0.00    0.02    0.05    0.04    0.04    0.01    0.04    0.01    0.04    0.03    0.03    0.04    0.04    0.01    0.02    0.04    0.01    0.02    0.01    0.10    0.02    0.09    0.01    0.26    0.04    0.00    0.03    0.01    0.00    0.03    0.03    0.18    0.11    0.02    0.01    0.03    0.02    0.05    0.02    0.07    0.07    0.00    0.00    0.00    0.09    0.04    0.00    0.00    0.06    0.01    0.03    0.00    0.03    0.03    0.14  
EFNA5ENSG00000184349  0.16    0.01    0.02    0.01    0.00    0.01    0.01    0.16    0.04    0.08    0.00    0.01    0.00    0.07    0.03    0.07    0.00    0.09    0.00    0.06    0.03    0.12    0.03    0.13    0.00    0.15    0.01    0.12    0.01    0.04    0.06    0.03    0.00    0.02    0.16    0.02    0.00    0.04    0.00    0.00    0.02    0.09    0.09    0.41    0.00    0.06    0.01    0.04    0.01    0.09    0.08    0.04    0.01    0.00    0.00    0.08    0.04    0.02    0.01    0.02    0.01    0.01    0.00    0.00    0.09    0.06  
KDM5AENSG00000073614  0.02    0.00    0.00    0.01    0.04    0.02    0.01    0.06    0.12    0.04    0.01    0.00    0.04    0.01    0.11    0.07    0.23    0.02    0.19    0.01    0.26    0.04    0.11    0.06    0.14    0.01    0.15    0.03    0.14    0.04    0.04    0.05    0.30    0.08    0.06    0.00    0.00    0.01    0.00    0.00    0.19    0.05    0.47    0.10    0.05    0.03    0.11    0.04    0.32    0.10    0.22    0.14    0.57    0.00    0.00    0.01    0.02    0.03    0.12    0.03    0.05    0.02    0.00    0.03    0.08    0.03  
CD2ENSG00000116824  0.00    0.00    0.00    0.02    0.00    0.00    0.02    0.02    0.08    0.04    0.00    0.00    0.00    0.26    0.02    0.14    0.03    0.18    0.03    0.16    0.09    0.15    0.03    0.08    0.01    0.06    0.02    0.07    0.13    0.02    0.02    0.03    0.00    0.10    0.05    0.05    0.04    0.26    0.00    0.00    0.06    0.08    0.17    0.12    0.02    0.08    0.04    0.02    0.05    0.06    0.05    0.11    0.07    0.03    0.00    0.01    0.03    0.15    0.00    0.01    0.01    0.03    0.00    0.03    0.10    0.10  
CAPN3ENSG00000092529  0.00    0.01    0.00    0.02    0.14    0.00    0.01    0.06    0.01    0.08    0.00    0.00    0.02    0.34    0.00    0.10    0.01    0.09    0.02    0.05    0.02    0.06    0.00    0.08    0.01    0.09    0.00    0.06    0.00    0.05    0.00    0.03    0.00    0.07    0.02    0.07    0.00    0.00    0.00    0.00    0.02    0.11    0.04    0.36    0.00    0.09    0.01    0.08    0.05    0.44    0.06    0.08    0.01    0.04    0.00    0.00    0.02    0.15    0.00    0.03    0.01    0.11    0.00    0.00    0.02    0.17  
CHST1ENSG00000175264  0.01    0.00    0.00    0.00    0.05    0.00    0.00    0.08    0.04    0.05    0.00    0.01    0.00    0.01    0.05    0.02    0.12    0.03    0.12    0.01    0.15    0.05    0.10    0.00    0.01    0.00    0.01    0.00    0.01    0.02    0.02    0.00    0.00    0.07    0.06    0.01    0.00    0.03    0.00    0.00    0.07    0.03    0.15    0.06    0.07    0.02    0.04    0.02    0.06    0.03    0.11    0.07    0.00    0.02    0.00    0.00    0.00    0.00    0.01    0.01    0.01    0.05    0.00    0.02    0.02    0.05  
ADAMTS14ENSG00000138316  0.00    0.01    0.00    0.01    0.03    0.00    0.01    0.04    0.02    0.03    0.00    0.00    0.01    0.00    0.03    0.02    0.07    0.03    0.04    0.02    0.05    0.05    0.10    0.02    0.02    0.03    0.04    0.03    0.01    0.00    0.02    0.02    0.25    0.06    0.00    0.00    0.00    0.00    0.00    0.01    0.08    0.03    0.13    0.11    0.00    0.01    0.06    0.03    0.15    0.03    0.03    0.10    0.01    0.00    0.00    0.00    0.00    0.00    0.00    0.00    0.00    0.02    0.00    0.00    0.00    0.01  
TRIB1ENSG00000173334  0.02    0.00    0.01    0.00    0.09    0.02    0.10    0.01    0.29    0.02    0.02    0.00    0.08    0.01    0.31    0.00    0.35    0.01    0.32    0.00    0.90    0.01    0.37    0.00    0.19    0.00    0.27    0.00    0.18    0.00    0.40    0.01    0.25    0.02    0.08    0.00    0.01    0.02    0.00    0.00    0.55    0.01    1.59    0.02    0.19    0.00    0.20    0.00    0.28    0.00    0.16    0.04    0.03    0.02    0.02    0.00    0.20    0.00    0.21    0.00    0.03    0.01    0.50    0.00    0.20    0.00  
CYP51A1ENSG00000001630  0.01    0.00    0.07    0.00    0.00    0.00    0.05    0.00    0.05    0.01    0.00    0.00    0.03    0.00    0.08    0.01    0.26    0.00    0.25    0.01    0.69    0.01    0.52    0.01    0.03    0.00    0.01    0.01    0.11    0.00    0.14    0.02    0.18    0.01    0.11    0.01    0.00    0.02    0.00    0.00    0.07    0.02    0.15    0.07    0.05    0.01    0.04    0.02    0.08    0.03    0.13    0.04    0.13    0.00    0.00    0.01    0.13    0.00    0.04    0.00    0.12    0.01    0.00    0.00    0.03    0.02  
APLP2ENSG00000084234  0.00    0.01    0.00    0.04    0.00    0.05    0.03    0.05    0.03    0.11    0.00    0.00    0.14    0.06    0.06    0.09    0.04    0.13    0.04    0.15    0.09    0.14    0.06    0.07    0.02    0.01    0.01    0.02    0.02    0.02    0.04    0.09    0.00    0.23    0.02    0.06    0.00    0.05    0.00    0.00    0.05    0.21    0.28    0.18    0.04    0.31    0.06    0.07    0.18    0.19    0.06    0.23    0.00    0.28    0.04    0.00    0.13    0.00    0.05    0.01    0.01    0.02    0.00    0.07    0.01    0.26  

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