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    Untranslated parts of genes interpreted: making heads or tails of high-throughput transcriptomic data via computational methods

    Szkop, Krzysztof and Nobeli, Irene (2017) Untranslated parts of genes interpreted: making heads or tails of high-throughput transcriptomic data via computational methods. BioEssays 39 (12), ISSN 0265-9247.

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    Abstract

    The fate of eukaryotic transcripts is closely linked to their untranslated regions, which are determined by where transcription starts and ends on a genomic locus. The extent of alternative transcription start and alternative poly-adenylation has been revealed by sequencing methods focused on the ends of transcripts, but the application of these methods is not yet widely adopted by the community. In this review we highlight the importance of defining the untranslated parts of transcripts and suggest that computational methods applied to standard high-throughput technologies are a useful alternative to the expertise-demanding 5’ and 3’ sequencing. We present a number of computational approaches for the discovery and quantification of alternative transcription start and poly-adenylation events, focusing on technical challenges and arguing for the need to include better normalization of the data and more appropriate statistical models of the expected variation in the signal.

    Metadata

    Item Type: Article
    Additional Information: This is the submitted version of the article published in Bioessays under the revised title: "Untranslated parts of genes interpreted: Making heads or tails of high-throughput transcriptomic data via computational methods". This is the peer reviewed version of the article, which has been published in final form at the link above. This article may be used for non-commercial purposes in accordance with Wiley Terms and Conditions for Self-Archiving.
    Keyword(s) / Subject(s): Alternative poly-adenylation, alternative transcription start site, untranslated region, RNA-seq
    School: Birkbeck Schools and Departments > School of Science > Biological Sciences
    Depositing User: Irene Nobeli
    Date Deposited: 28 Sep 2017 13:51
    Last Modified: 28 Jul 2019 15:33
    URI: http://eprints.bbk.ac.uk/id/eprint/19830

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