Literature DB >> 32737940

Chemical Approaches To Analyzing RNA Structure Transcriptome-Wide.

Whitney E England1, Chely M Garfio1, Robert C Spitale1,2,3.   

Abstract

RNA molecules can fold into complex two- and three-dimensional shapes that are critical for their function. Chemical probes have long been utilized to interrogate RNA structure and are now considered invaluable resources in the goal of relating structure to function. Recently, the power of deep sequencing and careful chemical probe design have merged, permitting researchers to obtain a holistic understanding of how RNA structure can be utilized to control RNA biology transcriptome-wide. Within this review, we outline the recent advancements in chemical probe design for interrogating RNA structures inside cells and discuss the recent advances in our understanding of RNA biology through the lens of chemical probing.
© 2020 Wiley-VCH GmbH.

Entities:  

Keywords:  LASER; RNA; SHAPE; probing; structure

Mesh:

Substances:

Year:  2021        PMID: 32737940      PMCID: PMC8769560          DOI: 10.1002/cbic.202000340

Source DB:  PubMed          Journal:  Chembiochem        ISSN: 1439-4227            Impact factor:   3.164


  49 in total

1.  mRNA structure determines specificity of a polyQ-driven phase separation.

Authors:  Erin M Langdon; Yupeng Qiu; Amirhossein Ghanbari Niaki; Grace A McLaughlin; Chase A Weidmann; Therese M Gerbich; Jean A Smith; John M Crutchley; Christina M Termini; Kevin M Weeks; Sua Myong; Amy S Gladfelter
Journal:  Science       Date:  2018-04-12       Impact factor: 47.728

2.  Phase Transitions in Biological Systems with Many Components.

Authors:  William M Jacobs; Daan Frenkel
Journal:  Biophys J       Date:  2017-02-28       Impact factor: 4.033

Review 3.  Liquid phase condensation in cell physiology and disease.

Authors:  Yongdae Shin; Clifford P Brangwynne
Journal:  Science       Date:  2017-09-22       Impact factor: 47.728

4.  A microRNA regulon that mediates endothelial recruitment and metastasis by cancer cells.

Authors:  Kim J Png; Nils Halberg; Mitsukuni Yoshida; Sohail F Tavazoie
Journal:  Nature       Date:  2011-12-14       Impact factor: 49.962

5.  Pervasive Regulatory Functions of mRNA Structure Revealed by High-Resolution SHAPE Probing.

Authors:  Anthony M Mustoe; Steven Busan; Greggory M Rice; Christine E Hajdin; Brant K Peterson; Vera M Ruda; Neil Kubica; Razvan Nutiu; Jeremy L Baryza; Kevin M Weeks
Journal:  Cell       Date:  2018-03-15       Impact factor: 41.582

6.  Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo.

Authors:  Silvi Rouskin; Meghan Zubradt; Stefan Washietl; Manolis Kellis; Jonathan S Weissman
Journal:  Nature       Date:  2013-12-15       Impact factor: 49.962

7.  Keth-seq for transcriptome-wide RNA structure mapping.

Authors:  Xiaocheng Weng; Jing Gong; Yi Chen; Tong Wu; Fang Wang; Shixi Yang; Yushu Yuan; Guanzheng Luo; Kai Chen; Lulu Hu; Honghui Ma; Pingluan Wang; Qiangfeng Cliff Zhang; Xiang Zhou; Chuan He
Journal:  Nat Chem Biol       Date:  2020-02-03       Impact factor: 15.040

8.  In vivo RNA structural probing of uracil and guanine base-pairing by 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide (EDC).

Authors:  David Mitchell; Andrew J Renda; Catherine A Douds; Paul Babitzke; Sarah M Assmann; Philip C Bevilacqua
Journal:  RNA       Date:  2018-10-19       Impact factor: 4.942

9.  Roles of Oncogenic Long Non-coding RNAs in Cancer Development.

Authors:  Hyunhee Do; Wanyeon Kim
Journal:  Genomics Inform       Date:  2018-12-28

Review 10.  Molecular mechanisms of translational control.

Authors:  Fátima Gebauer; Matthias W Hentze
Journal:  Nat Rev Mol Cell Biol       Date:  2004-10       Impact factor: 94.444

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