Protein Networks as Logic Functions in Development and Cancer
Figure 4
Classification performance and validation of markers of breast cancer metastasis.
(A) Average area under the ROC curve for NGF, RF, NGF applied to permuted networks (NGF**), and Naïve Bayes, compared to reported scores for representative previous methods (error bars denote standard deviation estimated over 100 runs). (B) General cancer and breast cancer associated genes identified among the 100 top-scoring genes or 100 most abundant genes in the forest created using RF or NGF. using the real network or networks with permuted edges (average over 100 permutations is shown). (C) Genes ranked by their importance for classification in two independent breast cancer patient cohorts (y vs. x axis). Network-Guided Forest, blue points; regular Random Forest, green points.