Transcriptome-wide interrogation of RNA secondary structure in living cells with icSHAPE

2016

Published Web Location

https://doi.org/10.1038/nprot.2016.011

Abstract

icSHAPE allows transcriptome-wide RNA structure profiling in living cells. It uses a clickable SHAPE reagent to enable biotin-based enrichment of SHAPE-modified RNA, reducing the necessary sequencing depth.

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- Chirkin, D;
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Transcriptome-wide interrogation of RNA secondary structure in living cells with icSHAPE

Published Web Location