國家衛生研究院 NHRI:Item 3990099045/10357
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    Please use this identifier to cite or link to this item: http://ir.nhri.org.tw/handle/3990099045/10357


    Title: NMD Classifier: A reliable and systematic classification tool for nonsense-mediated decay events
    Authors: Hsu, MK;Lin, HY;Chen, FC
    Contributors: Division of Biostatistics and Bioinformatics
    Abstract: Nonsense-mediated decay (NMD) degrades mRNAs that include premature termination codons to avoid the translation and accumulation of truncated proteins. This mechanism has been found to participate in gene regulation and a wide spectrum of biological processes. However, the evolutionary and regulatory origins of NMD-targeted transcripts (NMDTs) have been less studied, partly because of the complexity in analyzing NMD events. Here we report NMD Classifier, a tool for systematic classification of NMD events for either annotated or de novo assembled transcripts. This tool is based on the assumption of minimal evolution/regulation-an event that leads to the least change is the most likely to occur. Our simulation results indicate that NMD Classifier can correctly identify an average of 99.3% of the NMD-causing transcript structural changes, particularly exon inclusions/exclusions and exon boundary alterations. Researchers can apply NMD Classifier to evolutionary and regulatory studies by comparing NMD events of different biological conditions or in different organisms.
    Date: 2017-04-03
    Relation: PLoS ONE. 2017 Apr 03;12(4):Article number e0174798.
    Link to: http://dx.doi.org/10.1371/journal.pone.0174798
    JIF/Ranking 2023: http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=NHRI&SrcApp=NHRI_IR&KeyISSN=1932-6203&DestApp=IC2JCR
    Cited Times(WOS): https://www.webofscience.com/wos/woscc/full-record/WOS:000399351000045
    Cited Times(Scopus): https://www.scopus.com/inward/record.url?partnerID=HzOxMe3b&scp=85017018481
    Appears in Collections:[Feng-Chi Chen] Periodical Articles

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