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Implementation of an Information Management System for Nucleotide Sequences based on BSML using Active Trigger Rules  

Park Sung Hee (충북대학교 전자계산학과)
Jung Kwang Su (충북대학교 전자계산학과)
Ryu Keun Ho (충북대학교 전기전자컴퓨터공학부)
Publication Information
Journal of KIISE:Databases / v.32, no.1, 2005 , pp. 24-42 More about this Journal
Abstract
Characteristics of biological data including genome sequences are heterogeneous and various. Although the need of management systems for genome sequencing which should reflect biological characteristics has been raised, most current biological databases provide restricted function as repositories for biological data. Therefore, this paper describes a management system of nucleotide sequences at the level of biological laboratories. It includes format transformation, editing, storing and retrieval for collected nucleotide sequences from public databases, and handles sequence produced by experiments. It uses BSML based on XML as a common format in order to extract data fields and transfer heterogeneous sequence formats. To manage sequences and their changes, version management system for originated DNA is required so as to detect transformed new sequencing appearance and trigger database update. Our experimental results show that applying active trigger rules to manage changes of sequences can automatically store changes of sequences into databases.
Keywords
Bioinformatics; Nucleotide Sequence; Sequence Management; Sequence Version; BSML;
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