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    Int J Data Min Bioinform. 2009;3(2):160-76.

    Computational identification of protein-coding sequences by comparative analysis.

    Fontaine A, Touzet H.

    Source

    LIFL-UMR CNRS 8022 University Lille 1, INRIA Lille Nord Europe, France. arnaud.fontaine@lifl.fr

    Abstract

    Gene prediction is an essential step in understanding the genome of a species once it has been sequenced. For that, a promising direction in current research on gene finding is a comparative genomics approach. In this paper, we present a novel approach to identifying evolutionarily conserved protein-coding sequences in genomes. The method takes advantage of the specific substitution pattern of coding sequences together with the consistency of reading frames. It has been implemented in a software called PROTEA. Large-scale experimentation shows good results. PROTEA is intended to be a useful complement to existing tools based on homology search or statistical properties of the sequences.

    PMID:
    19517987
    [PubMed - indexed for MEDLINE]

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