DNA Methylation-Based High-Resolution Mapping of Long-Distance Chromosomal Interactions in Nucleosome-Depleted Regions (ChIP)
Here, we present Methyltransferase Targeting-based chromosome Architecture Capture (MTAC), a method that maps the contacts between a target site (viewpoint) and the rest of the genome with high resolution and sensitivity. By targeting M.CviPI DNA methyltransferase to the viewpoint and by detecting differentially methylated regions, MTAC detects hundreds of intra- and inter-chromosomal interactions in the budding yeast genome that cannot be captured by  4C, Hi-C, or Micro-C. Overall design: MeDIP-seq data of targeted S. cerevisiae strains (LacO array inserted into the corresponding viewpoints) and control strains (No LacO insertion) under different conditions (growth condition, M.CviPI induction time, LacO copy numbers etc.). 4C-seq data of different viewpoints and Hi-C data for chromosome conformation capture in S. cerevisiae. ChIP-seq data for Met4. RNA-seq data of S. cerevisiae cells in -met condition.