The DOI matches its Crossref record; 15 of the 15 references it cites were found in a registry or an index.
hiCLIP reveals the in vivo atlas of mRNA secondary structures recognized by Staufen 1
Open accessAbstract
The structure of messenger RNA is important for post-transcriptional regulation, mainly because it affects binding of trans-acting factors. However, little is known about the in vivo structure of full-length mRNAs. Here we present hiCLIP, a biochemical technique for transcriptome-wide identification of RNA secondary structures interacting with RNA-binding proteins (RBPs). Using this technique to investigate RNA structures bound by Staufen 1 (STAU1) in human cells, we uncover a dominance of intra-molecular RNA duplexes, a depletion of duplexes from coding regions of highly translated mRNAs, an unexpected prevalence of long-range duplexes in 3′ untranslated regions (UTRs), and a decreased incidence of single nucleotide polymorphisms in duplex-forming regions. We also discover a duplex spanning 858 nucleotides in the 3′ UTR of the X-box binding protein 1 (XBP1) mRNA that regulates its cytoplasmic splicing and stability. Our study reveals the fundamental role of mRNA secondary structures in gene expression and introduces hiCLIP as a widely applicable method for discovering new, especially long-range, RNA duplexes.
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iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution
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CLIP and complementary methods
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Metadata
- Authors
- Sugimoto, Y., Vigilante, A., Darbo, E., Zirra, A., Militti, C., D’Ambrogio, A., Luscombe, N. M., & Ule, J.
- Venue
- Nature
- Published
- 2015-03-18
- Volume
- 519
- Issue
- 7544
- Pages
- 491-494
- ISSN
- 0028-0836 (ISSN-L)
- 1476-4687
- OpenAlex
- W2080977835
- Cited by
- 270
- References
- 15
- FWCI
- 15.31
- Type
- journal article
- Language
- en
- Open access
- green
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