期刊
NATURE PROTOCOLS
卷 8, 期 5, 页码 849-869出版社
NATURE PUBLISHING GROUP
DOI: 10.1038/nprot.2013.045
关键词
-
资金
- National Institutes of Health [R01-HG004361]
- Agency of Science, Technology and Research of Singapore
RNA structure is important for RNA function and regulation, and there is growing interest in determining the RNA structure of many transcripts. Here we provide a detailed protocol for the parallel analysis of RNA structure (PARS) for probing RNA secondary structures genome-wide. In this method, enzymatic footprinting is coupled to high-throughput sequencing to provide secondary structure data for thousands of RNAs simultaneously. The entire experimental protocol takes similar to 5 d to complete, and sequencing and data analysis take an additional 6-8 d. PARS was developed using the yeast genome as proof of principle, but its approach should be applicable to probing RNA structures from different transcriptomes and structural dynamics under diverse solution conditions.
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