Figure 1: MeCP2 binding is accurately predicted by GC%.
From: Sequence features accurately predict genome-wide MeCP2 binding in vivo
(a) Wiggle plots showing sequence GC%, CpG methylation level, mCpG% and MeCP2 ChIP-seq and Input profiles for each replicate around the Bdnf locus. ChIP-qPCR bars indicate MeCP2 ChIP/Input (%). See Supplementary Table 1 for primer sequences. (b) ROC curve for predicting MeCP2 ChIP-seq peaks using Random Forest regressor based on GC% in 200 bp windows. (c) Relative importance of different sequence features in predicting MeCP2 binding using the Random Forrest regressor algorithm (Methods). Trees with maximal depth 8 were used, but the dominant importance of GC% did not depend on this choice. (d) GC% and CpG% dependence of the mean MeCP2 enrichment (colours) calculated using 150 bp windows. The contours indicate the genome-wide joint distribution p(GC%, CpG%) and contour labels indicate the enclosed genome fraction. The inset shows mean MeCP2 enrichment versus GC%.
