RNA secondary structure is critical to RNA regulation and function. We report a new N3-kethoxal reagent that allows fast and reversible labeling of single-stranded guanine bases in live cells. This N3-kethoxal-based chemistry allows efficient RNA labeling under mild conditions and transcriptome-wide RNA secondary structure mapping.
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All genomic data sets have been deposited in the Gene Expression Omnibus under accession number GSE122096. Other data and materials are available from the authors upon reasonable request.
All custom codes used in this study are available at https://github.com/Tsinghua-gongjing/Keth-seq.
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This work was supported by the National Natural Science Foundation of China (grant nos. 21572172, 21778040 and 21822704 to X.W.; 21432008, 91753201 and 21721005 to X.Z.; 31671355, 91740204 and 31761163007 to Q.C.Z.) and National Institutes of Health grant no. HG008935 (C.H.). C.H. is an investigator of the Howard Hughes Medical Institute. X.W. was supported by China Scholarship Council (CSC) during his visit to the University of Chicago. We acknowledge S. Frank, who edited the manuscript.
C.H. is a scientific founder and a member of the scientific advisory board of Accent Therapeutics, Inc., and a shareholder of Epican Genetech.
Publisher’s note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
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Weng, X., Gong, J., Chen, Y. et al. Keth-seq for transcriptome-wide RNA structure mapping. Nat Chem Biol 16, 489–492 (2020). https://doi.org/10.1038/s41589-019-0459-3
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