Probing RNA structure in vivo

Research output: Contribution to journalReview articlepeer-review

51 Scopus citations


RNA structure underpins many essential functions in biology. New chemical reagents and techniques for probing RNA structure in living cells have emerged in recent years. High-throughput, genome-wide techniques such as Structure-seq2 and DMS-MaPseq exploit nucleobase modification by dimethylsulfate (DMS) to obtain complete structuromes, and are applicable to multiple domains of life and conditions. New reagents such as 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide (EDC), glyoxal, and nicotinoyl azide (NAz) greatly expand the capabilities of nucleobase probing in cells. Additionally, ribose-targeting reagents in selective 2’-hydroxyl acylation and primer extension (SHAPE) detect RNA flexibility in vivo. These techniques, coupled with crosslinking nucleobases in psoralen analysis of RNA interactions and structures (PARIS), provide new and diverse ways to elucidate RNA secondary and tertiary structure in vivo and genome-wide.

Original languageEnglish (US)
Pages (from-to)151-158
Number of pages8
JournalCurrent Opinion in Structural Biology
StatePublished - Dec 2019

All Science Journal Classification (ASJC) codes

  • Structural Biology
  • Molecular Biology


Dive into the research topics of 'Probing RNA structure in vivo'. Together they form a unique fingerprint.

Cite this