Relative detection sensitivity of differential gene expression. The number of probe sets shown to increase from 2 to 5 weeks of murine mammary gland development was tabulated as a function of the number of probe sets expected to increase by chance. (a) ChipStat (pps = 0.05), vs t-test. (b) Optimization of ChipStat sensitivity as a function of pps. (c) ChipStat vs other techniques: reported P values. For ChipStat, the number of probe sets expected to increase by chance was empirically estimated from negative control data. For the t-test, SAM, dChip and logit-T, reported P values from the 2-week vs 5-week mammary gland comparison were used. (d) ChipStat vs other techniques: empirical P values. The number of probe sets expected to increase by chance was empirically estimated for ChipStat, t-test, SAM, dChip and logit-T (representative points).
Master et al. Genome Biology 2005 6:R20 doi:10.1186/gb-2005-6-2-r20