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Figure 2


Fig. 2. Chromatin immunoprecipitation of neuralized murine EBs. (A-H) Selected positive targets showing the mean fold enrichment of Gli1FLAG ChIPs representing three biological replicates, each with four technical replicates. The plots show the mean fold enrichment of ChIPed sequence versus input. Approximately half of the peaks lie outside the proximal promoter region. Multiple peaks are numbered to correspond to the peaks listed in Table 1 and in Table S2 in the supplementary material; arrows indicate previously described Gli regulatory regions. Below each graph, the position of exons (rectangles) and the direction transcription (arrows) are shown relative to the ChIPed region. (I,J) De novo motif analysis recovers a consensus site (I) similar to a previously described Gli1 consensus sequence (J) (Transfac # M01037) (I).





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