Revealing lncRNA Structures and Interactions by Sequencing-Based Approaches

Research output: Journal Publications and Reviews (RGC: 21, 22, 62)21_Publication in refereed journalpeer-review

121 Scopus Citations
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Original languageEnglish
Pages (from-to)33-52
Journal / PublicationTrends in Biochemical Sciences
Volume44
Issue number1
Online published17 Nov 2018
Publication statusPublished - Jan 2019

Abstract

Long noncoding RNAs (lncRNAs) have emerged as significant players in almost every level of gene function and regulation. Thus, characterizing the structures and interactions of lncRNAs is essential for understanding their mechanistic roles in cells. Through a combination of (bio)chemical approaches and automated capillary and high-throughput sequencing (HTS), the complexity and diversity of RNA structures and interactions has been revealed in the transcriptomes of multiple species. These methods have uncovered important biological insights into the mechanistic and functional roles of lncRNA in gene expression and RNA metabolism, as well as in development and disease. In this review, we summarize the latest sequencing strategies to reveal RNA structure, RNA–RNA, RNA–DNA, and RNA–protein interactions, and highlight the recent applications of these approaches to map functional lncRNAs. We discuss the advantages and limitations of these strategies, and provide recommendations to further advance methodologies capable of mapping RNA structure and interactions in order to discover new biology of lncRNAs and decipher their molecular mechanisms and implication in diseases.

Research Area(s)

  • lncRNA, RNA structure, RNA interaction, structure–function relationship, transcriptome, high-throughput sequencing

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