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Development of the protein-gene motif dictionary system based on the codon reduced representation

Research Project

Project/Area Number 26330250
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Intelligent informatics
Research InstitutionToyohashi University of Technology

Principal Investigator

KATO HIROAKI  豊橋技術科学大学, 工学(系)研究科(研究院), 講師 (30303704)

Project Period (FY) 2014-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000)
Fiscal Year 2016: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2015: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2014: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Keywords分子構造情報処理 / 配列モチーフ / タンパク質 / 遺伝子 / コドン縮約表現 / コドン重み行列 / 三次元モチーフ / データベース / モチーフ / 分子生命情報学 / 縮約コドン表現 / 配列解析
Outline of Final Research Achievements

In the present work, the author has developed the protein-gene motif dictionary system which connected from an amino acid sequence motif to the corresponding gene sequence (coding region) and protein 3D structure. I have also proposed the motif codon reduced representation, and applied to the functional site prediction in the genomic sequence. As the result of the EF-hand calcium- binding motif, it is successfully identified two motif sites in TNNC1 which were interrupted by introns.

Report

(4 results)
  • 2016 Annual Research Report   Final Research Report ( PDF )
  • 2015 Research-status Report
  • 2014 Research-status Report
  • Research Products

    (10 results)

All 2016 2015 2014

All Presentation (10 results) (of which Int'l Joint Research: 1 results)

  • [Presentation] Development of the protein 3D fragment analysis system focused on ligand binding loop regions2016

    • Author(s)
      A.Hirama, and H.Kato
    • Organizer
      第44回構造活性相関シンポジウム
    • Place of Presentation
      京都大学芝蘭会館(京都府京都市)
    • Year and Date
      2016-11-16
    • Related Report
      2016 Annual Research Report
  • [Presentation] Development of the common fragment set extraction system for compound-protein relationship studies2016

    • Author(s)
      Y.Sato, and H.Kato
    • Organizer
      第44回構造活性相関シンポジウム
    • Place of Presentation
      京都大学芝蘭会館(京都府京都市)
    • Year and Date
      2016-11-16
    • Related Report
      2016 Annual Research Report
  • [Presentation] Development of the protein motif extraction system based on an Artificial Bee Colony algorithm2016

    • Author(s)
      T.Yamamoto, and H.Kato
    • Organizer
      Chem-Bio Informatics Society (CBI) Annual Meeting 2016
    • Place of Presentation
      タワーホール船堀(東京都江戸川区)
    • Year and Date
      2016-10-25
    • Related Report
      2016 Annual Research Report
  • [Presentation] Development of the protein-gene sequence motif extraction system based on EM algorithm2016

    • Author(s)
      T.Matsubara, and H.Kato
    • Organizer
      Informatics in Biology, Medicine and Pharmacology 2016
    • Place of Presentation
      東京国際交流館プラザ平成(東京都江東区)
    • Year and Date
      2016-09-29
    • Related Report
      2016 Annual Research Report
  • [Presentation] Development of the protein-gene sequence motif analysis system based on the codon reduced representation2015

    • Author(s)
      H.Kato, and J.Yamamoto
    • Organizer
      2015 International Chemical Congress of Pacific Basin Societies
    • Place of Presentation
      Sheraton Waikiki (Hawaii, USA)
    • Year and Date
      2015-12-15
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research
  • [Presentation] Development of the structural feature analysis system based on the motif combination pattern of proteins2015

    • Author(s)
      S.Azuma, and H.Kato
    • Organizer
      Chem-Bio Informatics Society (CBI) Annual Meeting 2015
    • Place of Presentation
      タワーホール船堀(東京都江戸川区)
    • Year and Date
      2015-10-27
    • Related Report
      2015 Research-status Report
  • [Presentation] Development of the DP-based genome sequence analysis system using the motif codon reduced representation2015

    • Author(s)
      T.Kobayashi, and H.Kato
    • Organizer
      第43回構造活性相関シンポジウム
    • Place of Presentation
      新潟日報メディアシップ(新潟県新潟市)
    • Year and Date
      2015-09-27
    • Related Report
      2015 Research-status Report
  • [Presentation] 回文フラグメントに注目したタンパク質アミノ酸配列特徴解析システムの開発2014

    • Author(s)
      三浦智大, 加藤博明
    • Organizer
      第37回情報化学討論会
    • Place of Presentation
      豊橋商工会議所(愛知県豊橋市)
    • Year and Date
      2014-11-28
    • Related Report
      2014 Research-status Report
  • [Presentation] コドン縮約表現に基づくタンパク質-遺伝子配列モチーフ解析システムの開発2014

    • Author(s)
      山本潤基, 加藤博明
    • Organizer
      第42回構造活性相関シンポジウム
    • Place of Presentation
      くまもと森都心プラザ(熊本県熊本市)
    • Year and Date
      2014-11-13
    • Related Report
      2014 Research-status Report
  • [Presentation] Construction of the protein 3D fragment library system based on glycine neighboring environment2014

    • Author(s)
      R.Itoh, and H.Kato
    • Organizer
      Chem-Bio Informatics Society (CBI) Annual Meeting 2014
    • Place of Presentation
      タワーホール船堀(東京都江戸川区)
    • Year and Date
      2014-10-28
    • Related Report
      2014 Research-status Report

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Published: 2014-04-04   Modified: 2018-03-22  

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