Methyl-Micro-C
Simultaneous measurement of epigenetic signatures from the same cell and tissue provides significant benefits for research, especially when resources are limited, and precise analysis is essential. Here, we report a technique called Methyl-Micro-C to simultaneously map chromatin accessibility, interaction, and DNA methylation in the same sample. Methyl-Micro-C enhances the resolution of chromatin interaction and the coverage of CpGs by combining MNase-mediated fragmentation with enzymatic conversion. This technique is relatively straightforward, making it easy for researchers to apply. It also allows for the profiling of three-dimensional epigenomes with consistent chromatin accessibility, interaction, and DNA methylation signals in a cost-efficient manner. Overall design: We developed the Methyl-Micro-C method and compared chromatin accessibility, interaction, and DNA methylation using Micro-C, EM-seq, NOMe-seq, and NOMe-Hi-C data.