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    ASIA unversity > 資訊學院 > 資訊工程學系 > 期刊論文 >  Item 310904400/25330


    Please use this identifier to cite or link to this item: http://asiair.asia.edu.tw/ir/handle/310904400/25330


    Title: EBARDenovo: Highly accurate de novo assembly of RNA-Seq with efficient chimera-detection
    Authors: 朱學亭;Chu, Hsueh-Ting;William, W.L;William, W.L.Hsiao;陳仁治;Chen, Jen-Chih;葉慈容;Yeh, Tze-Jung;蔡孟勳;Tsai, Mong-Hsun;林翰;Lin, Han;劉燕雯;Liu, Yen-Wenn;李盛安;Lee, Sheng-An;高成炎;Kao, Cheng-Yan
    Contributors: 資訊工程學系
    Date: 2013-04
    Issue Date: 2013-07-11 14:17:57 (UTC+8)
    Abstract: MOTIVATION:
    High-accuracy de novo assembly of the short sequencing reads from RNA-Seq technology is very challenging. We introduce a de novo assembly algorithm, EBARDenovo, which stands for Extension, Bridging And Repeat-sensing Denovo. This algorithm uses an efficient chimera-detection function to abrogate the effect of aberrant chimeric reads in RNA-Seq data.
    RESULTS:
    EBARDenovo resolves the complications of RNA-Seq assembly arising from sequencing errors, repetitive sequences and aberrant chimeric amplicons. In a series of assembly experiments, our algorithm is the most accurate among the examined programs, including de Bruijn graph assemblers, Trinity and Oases. Availability and implementation: EBARDenovo is available at http://ebardenovo.sourceforge.net/. This software package (with patent pending) is free of charge for academic use only.
    SUPPLEMENTARY INFORMATION:
    Supplementary data are available at Bioinformatics online.
    Relation: BIOINFORMATICS, V.29 N.8 :1004-1010.
    Appears in Collections:[資訊工程學系] 期刊論文

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