Figure 2

ROC curves for one versus one comparisons of arrays from the Choe data set obtained with different methods. A curve is plotted for each pairwise comparison of a single C array to a single S array (9 grey lines) with the average curve superimposed (broken black). For BGX the curve obtained from an analysis that uses all three C replicate arrays against all three S replicate arrays is also shown (full black line). For BGX ranking (1) is used (see text). For MAS5 and RMA genes are ranked on their absolute value of difference in expression. The lower panels are blow-ups of the leftmost parts of the upper panels. TP: true positives, FP: false positives, TN: true negatives, FN: false negatives.