Signature comparison. Analysis of consistency between signatures. In A, heatmaps are shown for the pair-wise comparison of all the individual pipeline variants. The pipelines are compared using the percent agreement between the patient grouping for the two pipelines. B, shows the ensemble scores (range 0 to 24) per patient for each signature, patients are on the y-axis and signatures on the x-axis. The signatures are ordered by the number of patients classified unanimously; the signature which was most consistent across single pipeline classifications is on the far left and the least consistent one is on the right. Finally, the scatter plots compare all significant signatures when the number of pipelines used to create the ensemble classification is varied. In C, each point is the log2 of the mean hazard ratio of 2000 permutations. D, similarly shows the effect of the number of methods combined on the number of patients classified. For each array platform, only the signatures which have statistically significant prognostic power with the ensemble classifier (including all 24 methods) by Cox modeling are shown. For HG-U133 Plus 2.0, the Hu signature and the Winter Metagene signature have equivalent numbers of patients classified, therefore the Winter Metagene signature line is hiding the Hu signature.