US EPA

5953254 

Journal Article 

Review 

Methods to study RNA-protein interactions 

Ramanathan, M; Porter, DF; Khavari, PA 

2019 

1 

Nature Methods
ISSN: 1548-7091
EISSN: 1548-7105 

16 

3 

225-234 

English 

30804549 

10.1038/s41592-019-0330-1 

WOS:000459804000018 

Noncoding RNA sequences, including long noncoding RNAs, small nucleolar RNAs, and untranslated mRNA regions, accomplish many of their diverse functions through direct interactions with RNA-binding proteins (RBPs). Recent efforts have identified hundreds of new RBPs that lack known RNA-binding domains, thus underscoring the complexity and diversity of RNA-protein complexes. Recent progress has expanded the number of methods for studying RNA-protein interactions in two general categories: approaches that characterize proteins bound to an RNA of interest (RNA-centric), and those that examine RNAs bound to a protein of interest (protein-centric). Each method has unique strengths and limitations, which makes it important to select optimal approaches for the biological question being addressed. Here we review methods for the study of RNA-protein interactions, with a focus on their suitability for specific applications.