Fig. 6: H3K27me3 colocalizes with MBD-2 non-NuRD-overlapping peaks but not NuRD-overlapping ones. | Nature Communications

Fig. 6: H3K27me3 colocalizes with MBD-2 non-NuRD-overlapping peaks but not NuRD-overlapping ones.

From: Dual genomic localizations and gene regulatory functions of MBD-2 with and without NuRD in Caenorhabditis elegans which lacks DNA methylation

Fig. 6: H3K27me3 colocalizes with MBD-2 non-NuRD-overlapping peaks but not NuRD-overlapping ones.The alternative text for this image may have been generated using AI.

A Genome browser view showing log-transformed enrichment of MBD-2, histone marks, NuRD complex components, and transcription factors based on normalized read signals in the ChIP sample over the input, along all six C. elegans chromosomes. B MBD-2 and histone modification ChIP-seq read count is normalized by count per million (CPM) for both ChIP and input. The ratios of the normalized read counts of ChIP vs. input are z-transformed and plotted as heatmap. The z-score of all the samples at NuRD-overlapping and non-NuRD-overlapping MBD-2 peak centers ± 3 kb are shown. Scale bars of the heatmaps depict the z-max and z-min of all panels. Green color depicts active histone modifications, while red color indicates repressive histone modifications. C Heatmap illustrating the percentage of MBD-2 ChIP-seq peaks overlapping with various histone modifications (peaks with ≥ 1-bp overlap). All MBD-2 peaks, non-NuRD-overlapping and NuRD-overlapping MBD-2 peaks were plotted. n = total number of peaks. (D) Genome browser view showing examples of non-NuRD-overlapping MBD-2 and NuRD-overlapping MBD-2 binding regions on Chromosome X arm. Non-NuRD-overlapping MBD-2 peaks are enriched with silent histone modifications, H3K27me3, H3K9me2, and H3K9me3. On the other hand, NuRD-overlapping MBD-2 peaks are enriched with active histone modifications, H3K4me3 and H3K27ac (more examples in Supplementary Fig. 8D).

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