R-ChIP for genome-wide mapping of R-loops by using catalytically inactive RNASEH1

• Published in: Nature protocols Vol. 14; no. 5; pp. 1661 - 1685
• Main Authors: Chen, Jia-Yu, Zhang, Xuan, Fu, Xiang-Dong, Chen, Liang
• Format: Journal Article
• Language: English
• Published: London Nature Publishing Group UK 01.05.2019; Nature Publishing Group
• Subjects: 631/1647/2217/2088; 631/337/572; 631/61/212; Analytical Chemistry; Animals; Biological activity; Biological Techniques; Biomedical and Life Sciences; Cell Line; Cell lines; Chromatin; Chromatin Immunoprecipitation - methods; Chromosome Mapping - methods; Computational Biology/Bioinformatics; Deoxyribonucleic acid; DNA; DNA - chemistry; DNA - genetics; DNA damage; DNA repair; DNA structure; DNA-directed RNA polymerase; Gene expression; Gene mapping; Genetic aspects; Genetic research; Genomes; Genomic instability; Genomics; Hybrid structures; Hybrids; Hydrolases; Immunoprecipitation; Life Sciences; Mapping; Methods; Microarrays; Monoclonal antibodies; Mutation; Myelodysplastic syndrome; Organic Chemistry; Protocol; R-loops; Ribonuclease H - chemistry; Ribonuclease H - genetics; Ribonuclease H - metabolism; Ribonucleic acid; RNA; RNA - chemistry; RNA - genetics; RNA polymerase; RNA polymerase II; Splicing; Splicing factors; Stability; Structure; Transcription; United States

Nascent RNA may form a three-stranded structure with DNA, called an R-loop, which has been linked to fundamental biological processes such as transcription, replication and genome instability. Here, we provide a detailed protocol for a newly developed strategy, named R-ChIP, for robust capture of R-...