High-Throughput Single-Molecule R-loop Footprinting Reveals Principles of R-loop Formation

We have successfully characterized R-loop structures using non-denaturing bisulfite treatment coupled with single-molecule sequencing to reveal that R-loops form defined overlapping molecular clusters around promoter, gene body, and terminal regions of genes. Our results uncovers that R-loop formation is both driven by favorable DNA sequence as well as topological state. Characterization of R-loop formation of targeted human genes using single-molecule R-loop footprinting couple with Pacific Bioscience's long-read sequencing (SMRF-seq)