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Genome-wide profiling of R-loop by affinity-independent and nuclease-based method [RNA-seq]

GSE270122 Homo sapiens Expression profiling by high throughput sequencing 4 samples Submitted 2025/03/18 Platform GPL29480
Summary
R-loop is abundant triplex nucleic strand in organism, but many physiological and pathological functions remain to be fully understood, owing to a lack of robust and high-resolution methods for genome-wide detection. In this study, we develop R-loop identification assisted by nuclease and high-throughput sequencing (RIAN-seq), a method to identify and quantify R-loop stoichiometry at affinity-independent enrichment. We reveal that RIAN-seq has ultrahigh sensitivity, accuracy and reliability for identifying R-loop sites, compared with all existing methods. In addition, RIAN-seq enables capturing previously unidentified clustered R-loop sites with distinct patterns. In sum, we reveal that RIAN-seq can not only quantitatively dissect the R-loop landscape at unprecedented resolution, but also provide an unbiased and convenient method for R-loop biology.
Published in
Base-pair resolution reveals clustered R-loops and DNA damage-susceptible R-loops
Li Y, Sheng Y, Di C et al. · Molecular cell 2025 · PMID 40112807 · doi:10.1016/j.molcel.2025.02.019
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Also filed as BioProject PRJNA1125036 and SRA study SRP514482. Searching any of these in the dataset finder brings you back here.

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