• Search Research Projects
  • Search Researchers
  • How to Use
  1. Back to project page

2011 Fiscal Year Final Research Report

Extension of the MAFFT algorithm to RNA and protein structural multiple alignment

Research Project

  • PDF
Project/Area Number 21700326
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeSingle-year Grants
Research Field Bioinformatics/Life informatics
Research InstitutionNational Institute of Advanced Industrial Science and Technology (2010-2011)
Kyushu University (2009)

Principal Investigator

KATOH Kazutaka  独立行政法人産業技術総合研究所, 生命情報工学研究センター, 招聘研究員 (70378868)

Project Period (FY) 2009 – 2011
Keywords配列アラインメント / 構造アライメント / タンパク質 / 並列計算 / バイオインフォマティクス
Research Abstract

Alignment of multiple sequences is a basic technique for sequence analysis, and has various applications, including phylogenetic inference and structure prediction. This research aims(1) to extend the MAFFT multiple sequence alignment program to enable structural alignment of proteins and RNAs, and(2) to enhance its usability to contribute to a wide range of studies that use biological sequences. We started a new web services for alignment calculation and distribution of the program in CBRC, AIST and Osaka University. As a result the MAFFT program has gained worldwide popularity. We also have implemented several new features, such as parallelization, and the addition of new sequences into an existing alignment.

  • Research Products

    (12 results)

All 2011 2010 2009 Other

All Journal Article (1 results) (of which Peer Reviewed: 1 results) Presentation (6 results) Book (1 results) Remarks (4 results)

  • [Journal Article] Parallelization of the MAFFT multiple sequence alignment program2010

    • Author(s)
      Katoh K, Toh H
    • Journal Title

      Bioinformatics

      Volume: 26 Pages: 1899-1900

    • DOI

      DOI:10.1093/bioinformatics/btq224

    • Peer Reviewed
  • [Presentation] Effect of adding homologs in phylogenetic analysis. GCOEバイオインフォマティクス公開セミナー2011

    • Author(s)
      Katoh K, Ledergerber C, Dessimoz C, Gil M
    • Organizer
      日本バイオインフォマティクス学会北海道地域部会セミナー
    • Place of Presentation
      北海道大学,札幌
    • Year and Date
      2011-08-04
  • [Presentation] Effect of adding homologs in phylogenetic analysis2011

    • Author(s)
      Katoh K, Ledergerber C, Dessimoz, C, Gil, M
    • Organizer
      SMBE2011
    • Place of Presentation
      Kyoto University, Kyoto, Japan
    • Year and Date
      2011-07-27
  • [Presentation] Effect of adding homologs in phylogenetic analysis2011

    • Author(s)
      Katoh K, Ledergerber C, Dessimoz, C, Gil, M
    • Organizer
      ISMB/ECCB2011
    • Place of Presentation
      Austria Center Vienna, Vienna, Austria
    • Year and Date
      2011-07-18
  • [Presentation] Effect of adding homologs in phylogenetic analysis2011

    • Author(s)
      Katoh K
    • Organizer
      Zurich Colloquium for Computational Molecular Evolution
    • Place of Presentation
      ETH Zurich, Zurich, Switzerland
    • Year and Date
      2011-07-14
  • [Presentation] Two extensions of MAFFT : protein structure-sequence alignment and large-scale sequence alignment2010

    • Author(s)
      Katoh K, Standley D M, Dinh H, Nakamura H, Toh H
    • Organizer
      CBRC2010
    • Place of Presentation
      AIST Tokyo Waterfront Center, Tokyo, Japan
    • Year and Date
      2010-07-28
  • [Presentation] MAFFTash-a structure-sequence multiple alignment program for proteins2009

    • Author(s)
      加藤和貴, Daron M. Standley,中村春木,藤博幸
    • Organizer
      第32回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜,横浜
    • Year and Date
      2009-12-12
  • [Book] Multiple Alignment of DNA Sequences with MAFFT.'Bioinformatics for DNA Sequence Analysis' edited by D. Posada2009

    • Author(s)
      Katoh K, Asimenos G, Toh H
    • Total Pages
      39-64
    • Publisher
      Springer
  • [Remarks]

    • URL

      http://mafft.cbrc.jp/alignment/software/

  • [Remarks]

    • URL

      http://sysimm.ifrec.osaka-u.ac.jp/MAFFTash/

  • [Remarks]

    • URL

      http://sysimm.ifrec.osaka-u.ac.jp/seekquencer/

  • [Remarks]

    • URL

      http://sciencewatch.com/dr/fbp/2009/09octfbp/09octfbpKato/

URL: 

Published: 2013-07-31  

Information User Guide FAQ News Terms of Use Attribution of KAKENHI

Powered by NII kakenhi