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iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution

Julian Konig and Kathi Zarnack and Gregor Rot and Tomaz Curk and Melis Kayikci and Blaz Zupan and Daniel J Turner and Nicholas M Luscombe and Jernej Ule (2010) iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution. Nature Structural & Molecular Biology, 17 . pp. 909-915.

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    In the nucleus of eukaryotic cells, nascent transcripts are associated with heterogeneous nuclear ribonucleoprotein (hnRNP) particles that are nucleated by hnRNP C. Despite their abundance, however, it remained unclear whether these particles control pre-mRNA processing. Here, we developed individual-nucleotide resolution UV cross-linking and immunoprecipitation (iCLIP) to study the role of hnRNP C in splicing regulation. iCLIP data show that hnRNP C recognizes uridine tracts with a defined long-range spacing consistent with hnRNP particle organization. hnRNP particles assemble on both introns and exons but remain generally excluded from splice sites. Integration of transcriptome-wide iCLIP data and alternative splicing profiles into an 'RNA map' indicates how the positioning of hnRNP particles determines their effect on the inclusion of alternative exons. The ability of high-resolution iCLIP data to provide insights into the mechanism of this regulation holds promise for studies of other higher-order ribonucleoprotein complexes.

    Item Type: Article
    Keywords: iCLIP splicing
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    Institution: University of Ljubljana
    Department: Faculty of Computer and Information Science
    Item ID: 1147
    Date Deposited: 16 Aug 2010 15:02
    Last Modified: 13 Aug 2011 00:37
    URI: http://eprints.fri.uni-lj.si/id/eprint/1147

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