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Please use this identifier to cite or link to this item: http://ntour.ntou.edu.tw:8080/ir/handle/987654321/28013

Title: BiMFG : Bioinformatics Tools for Marine and Freshwater Species
Authors: Tsan-Huang Shih;Chien-Ming Chen;Hsin-Wei Wang;Tun-Wen Pai;Hao-Teng Chang
Contributors: NTOU:Department of Computer Science and Engineering
Keywords: marine genomics;freshwater genomics;ocean genomics;multiple sequence alignment;secondary structure profile;multiple structure alignment;protein matching;cross-species comparison
Date: 2010-12
Issue Date: 2011-10-21T02:35:08Z
Publisher: Journal of Bioinformatics and Computational Biology
Abstract: Abstract:Biomolecule sequences and structures of land, air and water species are determined rapidly and the data entries are unevenly distributed for different organisms. It frequently leads the BLAST results of homologous search containing undesirable entries from organisms living in different environments. To reduce irrelevant searching results, a separate database for comparative genomics is urgently required. A comprehensive bioinformatics tool set and an integrated database, named as Bioinformatics tools for Marine and Freshwater Genomics (BiMFG), are constructed for comparative analyses among model species and underwater species. Novel matching techniques based on conserved motifs and/or secondary structure elements are designed for efficiently and effectively retrieving and aligning remote sequences through cross-species comparisons. It is especially helpful when sequences under analysis possessing low similarities and without resolved structural information. In addition, the system provides core techniques of multiple sequence alignment, multiple second structure profile alignment and iteratively refined multiple structural alignments for biodiversity analysis and verification in marine and freshwater biology. The BiMFG web server is freely available for use at http://bimfg.cs.ntou.edu.tw/ .
Relation: 8(1), pp.17-32
URI: http://ntour.ntou.edu.tw/handle/987654321/28013
Appears in Collections:[資訊工程學系] 期刊論文

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