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PMID: 30275275 Published · epublish English Journal Article Research Support, U.S. Gov't, Non-P.H.S. Review

Technique Development for Probing RNA Structure In Vivo and Genome-Wide.

Cold Spring Harbor perspectives in biology ·Vol. 10 ·No. 10 ·2018-00-01

Bevilacqua PC, Assmann SM

Abstract

How organisms perceive and respond to their surroundings is one of the great questions in biology. It is clear that RNA plays key roles in sensing. Cellular and environmental cues that RNA responds to include temperature, ions, metabolites, and biopolymers. Recent advances in next-generation sequencing and in vivo chemical probing have provided unprecedented insights into RNA folding in vivo and genome-wide. Patterns of chemical reactivity have implicated control of gene expression by RNA and aided prediction of RNA structure. Central to these advances has been development of molecular biological and chemical techniques. Key advances are improvements in the quality, cost, and throughput of library preparation; availability of a wider array of chemicals for probing RNA structure in vivo; and robustness and user friendliness of data analysis. Insights from probing transcriptomes and future directions are provided.

MeSH Terms
Animals Base Sequence Genome-Wide Association Study/methods Humans Nucleic Acid Amplification Techniques Nucleic Acid Conformation RNA/chemistry,genetics
Chemicals
RNA
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Bevilacqua Philip C ORCID
Departments of Chemistry and Biochemistry & Molecular Biology, Pennsylvania State University, University Park, Pennsylvania 16802.
Assmann Sarah M ORCID
Department of Biology, Pennsylvania State University, University Park, Pennsylvania 16802.
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Article Info
Journal
Cold Spring Harbor perspectives in biology
Abbr.
Cold Spring Harb Perspect Biol
ISSN
1943-0264
DOI
10.1101/cshperspect.a032250
Published
2018-00-01
Epub
2018-00-01
Language
English
Region
United States
NLM ID
101513680
PMCID
PMC6169808
Subset
IM
External Links
PubMed source DOI: 10.1101/cshperspect.a032250 PMC Full Text View journal details
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