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hiCLIP reveals the in vivo atlas of mRNA secondary structures recognized by Staufen 1

Author

Listed:
  • Yoichiro Sugimoto

    (MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge Biomedical Campus, Cambridge CB2 0QH, UK)

  • Alessandra Vigilante

    (Cancer Research UK London Research Institute, 44 Lincoln’s Inn Fields, London WC2A 3LY, UK
    UCL Genetics Institute, Evolution and Environment, University College London, Gower Street, London WC1E 6BT, UK)

  • Elodie Darbo

    (Cancer Research UK London Research Institute, 44 Lincoln’s Inn Fields, London WC2A 3LY, UK)

  • Alexandra Zirra

    (UCL Institute of Neurology, Queen Square, London WC1N 3BG, UK)

  • Cristina Militti

    (UCL Institute of Neurology, Queen Square, London WC1N 3BG, UK)

  • Andrea D’Ambrogio

    (MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge Biomedical Campus, Cambridge CB2 0QH, UK
    UCL Institute of Neurology, Queen Square, London WC1N 3BG, UK)

  • Nicholas M. Luscombe

    (Cancer Research UK London Research Institute, 44 Lincoln’s Inn Fields, London WC2A 3LY, UK
    UCL Genetics Institute, Evolution and Environment, University College London, Gower Street, London WC1E 6BT, UK
    Okinawa Institute of Science & Technology, 1919-1 Tancha, Onna-son, Kunigami-gun, Okinawa 904-0495, Japan)

  • Jernej Ule

    (MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge Biomedical Campus, Cambridge CB2 0QH, UK
    UCL Institute of Neurology, Queen Square, London WC1N 3BG, UK)

Abstract

A method, termed hiCLIP, has been developed to determine the RNA duplexes bound by RNA-binding proteins, revealing an unforeseen prevalence of long-range duplexes in 3′ untranslated regions (UTRs), and a decreased incidence of SNPs in duplex-forming regions; the results also show that RNA structure is able to regulate gene expression.

Suggested Citation

  • Yoichiro Sugimoto & Alessandra Vigilante & Elodie Darbo & Alexandra Zirra & Cristina Militti & Andrea D’Ambrogio & Nicholas M. Luscombe & Jernej Ule, 2015. "hiCLIP reveals the in vivo atlas of mRNA secondary structures recognized by Staufen 1," Nature, Nature, vol. 519(7544), pages 491-494, March.
    • Handle: RePEc:nat:nature:v:519:y:2015:i:7544:d:10.1038_nature14280
    DOI: 10.1038/nature14280
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    Cited by:

    1. Ryan Damme & Kongpan Li & Minjie Zhang & Jianhui Bai & Wilson H. Lee & Joseph D. Yesselman & Zhipeng Lu & Willem A. Velema, 2022. "Chemical reversible crosslinking enables measurement of RNA 3D distances and alternative conformations in cells," Nature Communications, Nature, vol. 13(1), pages 1-13, December.

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