Tackling Structures of Long Noncoding RNAs

Novikova, Irina; Hennelly, Scott; Sanbonmatsu, Karissa

doi:10.3390/ijms141223672

Tackling Structures of Long Noncoding RNAs

Journal Article · Sun Dec 01 00:00:00 EST 2013 · International Journal of Molecular Sciences (Online)

DOI:https://doi.org/10.3390/ijms141223672· OSTI ID:1628370

Novikova, Irina ^[1]; Hennelly, Scott ^[2]; Sanbonmatsu, Karissa ^[2]

Los Alamos National Laboratory (LANL), Los Alamos, NM (United States); DOE/OSTI
Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)

RNAs are important catalytic machines and regulators at every level of gene expression. A new class of RNAs has emerged called long non-coding RNAs, providing new insights into evolution, development and disease. Long non-coding RNAs (lncRNAs) predominantly found in higher eukaryotes, have been implicated in the regulation of transcription factors, chromatin-remodeling, hormone receptors and many other processes. The structural versatility of RNA allows it to perform various functions, ranging from precise protein recognition to catalysis and metabolite sensing. While major housekeeping RNA molecules have long been the focus of structural studies, lncRNAs remain the least characterized class, both structurally and functionally. Here, we review common methodologies used to tackle RNA structure, emphasizing their potential application to lncRNAs. When considering the complexity of lncRNAs and lack of knowledge of their structure, chemical probing appears to be an indispensable tool, with few restrictions in terms of size, quantity and heterogeneity of the RNA molecule. Probing is not constrained to in vitro analysis and can be adapted to high-throughput sequencing platforms. Significant efforts have been applied to develop new in vivo chemical probing reagents, new library construction protocols for sequencing platforms and improved RNA prediction software based on the experimental evidence.

View Accepted Manuscript (DOE)

Research Organization:: Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)

Sponsoring Organization:: USDOE Office of Science (SC)

Grant/Contract Number:: AC52-06NA25396

OSTI ID:: 1628370

Journal Information:: International Journal of Molecular Sciences (Online), Journal Name: International Journal of Molecular Sciences (Online) Journal Issue: 12 Vol. 14; ISSN 1422-0067; ISSN IJMCFK

Publisher:: MDPICopyright Statement

Country of Publication:: United States

Language:: English

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Identifying Structural Domains and Conserved Regions in the Long Non-Coding RNA lncTCF7 Owens, Michael C.; Clark, Sean C.; Yankey, Allison International Journal of Molecular Sciences, Vol. 20, Issue 19 https://doi.org/10.3390/ijms20194770	journal	September 2019

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