Comparison of models defined with gcrma and MAS5. Microarray data from a set of 125 samples in TRANSBIG+ was normalized with both gcrma and MAS5 on a log2 scale. In (a) the samples were rank ordered by gcrma expression values of MKI67 (212022_s_at) and these values are plotted. The log2 MAS5 expression values for these samples are also plotted. The red line indicates the +/- cutoff for the gcrma values and the blue line the cutoff for MAS5 values, as calculated by the multi-state methods. The calculation of AP4 is completed on both sets of expression values to produce gcrma and MAS5 versions of the test. (b) The Kaplan-Meier plots for the two versions of AP4 are given. The gcrma version of the test has a hazard ratio of 8.83 (95% CI 3.06 – 25.2), while the MAS5 version has a hazard ratio of 4.67 (95% CI 1.62 – 13.5).