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    National Tsing Hua University Institutional Repository > 電機資訊學院 > 資訊工程學系 > 會議論文  >  Comparative Exon Prediction based on Heuristic Coding Region Alignment


    Please use this identifier to cite or link to this item: http://nthur.lib.nthu.edu.tw/dspace/handle/987654321/13921


    Title: Comparative Exon Prediction based on Heuristic Coding Region Alignment
    Authors: Hsieh,Shu Ju
    Lin,Chun Yuan
    Chung,Yun Sheng
    Tang,Chuan Yi
    Date: 2005
    Publisher: Institute of Electrical and Electronics Engineers Computer Society
    Keywords: Heuristic programming
    Computer aided analysis
    Encoding
    Genetic engineering
    Molecular biology
    Proteins
    Signal filtering and prediction
    Abstract: Identifying protein coding genes is one of most challenging problems in computational molecular biology. With increasing numbers of sequenced eukaryotic genomes and syntenic maps across species, it is possible to apply genomic comparison for gene recognition. Here, we propose a program, EXONALIGN, which simultaneously aligns and predicts exons between homologous genomic sequences. The program applies CORAL (COding Region ALignment), a heuristic linear time alignment tool, to determine whether the regions following the conserved splice signals pairs are significant or not. The approach which combines the intrinsic splice site strength with the conservation of protein coding regions and exon-intron structures reduces the computation time and increases the prediction accuracy. EXONALIGN was tested on ROSETTA data set of 117 human-mouse homologous sequence pairs. At the exon level the sensitivity and specificity of EXONALIGN are respectively 89% and 88%, and both are 98% at the nucleotide level. The rates of missing exons and wrong exons are as low as 2%.
    Relation Link: http://webservices.ieee.org/pindex_basic.html
    URI: http://nthur.lib.nthu.edu.tw/handle/987654321/13921
    Appears in Collections:[資訊工程學系] 會議論文
    [資訊系統與應用研究所] 會議論文
    [電腦與通訊科技研發中心] 會議論文
    [腦科學研究中心] 會議論文

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