BisMapR: a strand-specific, nuclease-based method for genome-wide R-loop detection

We have developed an antibody-independent and strand-specific R-loop detection strategy, BisMapR, that combines nuclease-based R-loop isolation with non-denaturing bisulfite chemistry to produce high-resolution, genome-wide R-loop sequencing maps. Overall design: BisMapR and MapR was performed on E14 mouse embryonic stem cells, with two replicates per method. As controls, BisMapR was performed on RNase A-treated R-loop samples, MapR was performed with a nonspecific MNase protein, and MapR was performed with second-strand synthesis but without bisulfite conversion.