Figure 2

RNAi data analysis overview. Histograms of targeted genes binned by standard deviations from the mean (z-scores). A. Histogram of z-scores for Notch-induced E(spl)m3 reporter (NΔecn >m3-luc) normalized by the signal from the control reporter (con-luc) (Additional file 1). B. Signals of Notch-induced E(spl)m3 reporter (NΔecn >m3-luc) normalized by the signal from the non-induced E(spl)m3 reporter (Additional file 2). Cutoffs for genes selected are highlighted in grey for both A and B. C. Plot of the z-scores from histogram 2A on the x-axis and histogram 2B on the y-axis. Regions outside the red box are listed as potential hits and the overlaps between the two normalization methods are shaded in blue (area a). Area a. represents the subset of genes that either affect Notch induced transcription specifically or have opposing effects on induced and non-induced reporter transcription (e.g. Su(H)). RNAi for this overlapping set was redesigned and retested (Additional file 5). Area b. represents genes that affect both Notch induced and non-induced transcription by similar percent amounts (e.g. heph and Bap55). Area c. represents genes that primarily affect non-induced reporter transcription specifically (e.g. H, RpL19 and Bap170). Red and/or boxed genes have known genetic interactions with Notch. Blue are chromatin components, Yellow are mRNA processing factors, and Green are ribosomal components (Minute class).