Fig. 1

Naked DNA correction improves nucleosome mapping from partially digested MNase-seq data. a, b Metagene analysis of occupancy in the chromatin (blue before the correction, red after the correction) and naked DNA signals (green). Genes were scaled to the same length and then aligned to their TSS (a) or their pAS (b) according to the data in [66]. All the genes in the yeast genome, for which a TSS/pAS is available, were considered. c, d Spectral analysis of the promoter and gene body nucleosomes. Genes were scaled to the same length and then aligned to their TSS as a. A spectral analysis was plotted after classifying nucleosomes in the gene body (in the 0–1000 region) (c) and promoter nucleosomes (in the − 500 to 0 region) (d). e The fuzziness score distribution before (blue) and after correction (red). f Comparison of the fuzziness score distribution after correction, between gene bodies and promoter regions, as defined in c