Table of Contents

Direct R-Loop Visualization on Genomic DNA by Native Automated Electron Microscopy.- Detection of R-Loop Structures by Immunofluorescence Using the S9.6 Monoclonal Antibody.- R-Loop Detection in Bacteria.- Detection of R-Loops by In Vivo and In Vitro Cytosine Deamination in Saccharomyces cerevisiae.- Identification of RNA-DNA Hybrids Associated with R-Loops at the IgH Switch Sequence in Activated B Cells.- Locus-Specific Analysis of Replication Dynamics and Detection of DNA:RNA Hybrids by Immuno Electron Microscopy.- RNase H1, the Gold Standard for R-Loop Detection.- RNase H1 Hybrid-Binding Domain-Based Tools for Cellular Biology Studies of DNA-RNA Hybrids in Mammalian Cells.- Detection and Quantification of RNA Modifications on RNA/DNA Hybrids Using SID–UPLC–MS/MS.- DNA:RNA Hybrids at Telomeres in Budding Yeast.- Detection of TERRA R-Loops at Human Telomeres.- R-Loops and Mitochondrial DNA Metabolism.- Highly-Purified Top1-Bound DNA Fragments.- R-Loop Immunoprecipitation: A Method to Detect R-Loop Interacting Factors In Vivo.- Studies on Protein–RNA:DNA Hybrid Interactions by Microscale Thermophoresis (MST).- Studying R-Loop Recognizing Proteins Using Single-Molecule DNA Curtain Technique and Electrophoretic Mobility Shift Assay.- Immunostaining and Protein Pull-Down of Methyl-5-Cytosine-Marked RNA:DNA Hybrids.- In Vitro Binding of GADD45A to RNA:DNA Hybrids.- Proximity Ligation Assay for Detection of R-Loop Complexes upon DNA Damage.- Biochemical Analysis of RNA-DNA Hybrid and R-Loop Unwinding via Motor Proteins.- Topology of RNA:DNA Hybrids and R-Loops in Yeast.- Detecting and Mapping N6-Methyladenosine on RNA/DNA Hybrids.- Genome-Wide Native R-Loop Profiling by R-Loop Cleavage Under Targets and Tagmentation (R-Loop CUT&Tag).- Mapping R-Loops Using Catalytically Inactive RNaseH1 (R-ChIP).- Targeted Nuclease Approaches for Mapping Native R-Loops.- Quantitative DNA-RNA Immunoprecipitation-Sequencing with Spike-Ins.- DNA:RNA Immunoprecipitation from S. pombe Cells for qPCR and Genome-Wide Sequencing.- Genome-Wide Analysis of DNA-RNA Hybrids in Yeast by DRIPc-Seq and DRIP-Seq.- Quantitative, Convenient, and Efficient Genome-Wide R-Loop Profiling by ssDRIP-Seq in Multiple Organisms.