Figure 2

Determining the genomic classifier by discriminant analysis. (A) The misclassification error (y-axis) as a function of the threshold (x-axis) and the number of genes (top x-axis). The red arrow identifies the optimal threshold (2.25), which gave an overall error rate of 0.123. (B) Median and 90th percentile of the false discovery rate (FDR, y-axis) as a function of threshold (top x-axis), and number of genes (x-axis). The red arrow identifies the optimal threshold (2.25). (C) The posterior probability of the patients in our trial being classified as a non-responder (<0.5, red) or a responder (>0.5, blue). Patients 1-7 were histological non-responders, and patients 8-16 were responders. Two patients 6 and 7 were mis-identified by the classifier as responders when they were histological non-responders.