Argonaute HITS-CLIP decodes microRNA–mRNA interaction maps View Full Text


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2009-07

AUTHORS

Sung Wook Chi, Julie B. Zang, Aldo Mele, Robert B. Darnell

ABSTRACT

MicroRNAs (miRNAs) have critical roles in the regulation of gene expression; however, as miRNA activity requires base pairing with only 6-8 nucleotides of messenger RNA, predicting target mRNAs is a major challenge. Recently, high-throughput sequencing of RNAs isolated by crosslinking immunoprecipitation (HITS-CLIP) has identified functional protein-RNA interaction sites. Here we use HITS-CLIP to covalently crosslink native argonaute (Ago, also called Eif2c) protein-RNA complexes in mouse brain. This produced two simultaneous data sets-Ago-miRNA and Ago-mRNA binding sites-that were combined with bioinformatic analysis to identify interaction sites between miRNA and target mRNA. We validated genome-wide interaction maps for miR-124, and generated additional maps for the 20 most abundant miRNAs present in P13 mouse brain. Ago HITS-CLIP provides a general platform for exploring the specificity and range of miRNA action in vivo, and identifies precise sequences for targeting clinically relevant miRNA-mRNA interactions. More... »

PAGES

479

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  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/nature08170

    DOI

    http://dx.doi.org/10.1038/nature08170

    DIMENSIONS

    https://app.dimensions.ai/details/publication/pub.1045137706

    PUBMED

    https://www.ncbi.nlm.nih.gov/pubmed/19536157


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