Figure 3

Predicted graph by Bayesian network model with logit link function and blockwise coordinate descent algorithm, with 339 nodes including expression level of 245 genes (yellow), copy number at 82 sites (blue), methylation at 11 sites (green) and 1 somatic mutation at gene TP53 , connected by 698 directed edges. Direction of the edge indicates the downstream feature is regulated by the upstream one. Red edge represents activation and black edge represents suppression. Details are listed in Additional file 3: Table S3.