Figure 5

DAM accessibility correlates with SAGE expression levels. X-axis indicates SAGE scores (i.e. SAGE hit counts). Y-axis indicates DAM accessibility index (ratio of tissue-specific DAM hits normalized over control genomic DNA DAM hits). Only tags that had at least four hit half sites (where each half site must have been hit at least once for any one of the tissue samples myo-3, rol-6, vit-2, and genomic DNA control) were used in the analysis. Following a calculation for each sample of the average number of hits per GATC site (using the tags' "txStart" and "txEnd" from the UCSC genome browser version WS170), the final DAM accessibility index for a particular tissue was determined by normalizing average hits per GATC to that observed for the in vitro DAM treated C. elegans genomic DNA control. Each point represents the average of the accessibility indices of all genes that have the same SAGE score. The "9+" category represents the aggregate average of all DAM accessibility indices with SAGE scores greater than 9.