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Identification of non-coding conserved motifs and their relationships with polymorphism

Research Project

Project/Area Number 21510215
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeSingle-year Grants
Section一般
Research Field ゲノム情報科学
Research InstitutionKyoto University

Principal Investigator

SUYAMA Mikita  京都大学, 医学研究科, 准教授 (70452365)

Project Period (FY) 2009 – 2011
Project Status Completed (Fiscal Year 2011)
Budget Amount *help
¥4,550,000 (Direct Cost: ¥3,500,000、Indirect Cost: ¥1,050,000)
Fiscal Year 2011: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2010: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2009: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Keywordsゲノム / バイオインフォマティクス / 多型解析
Research Abstract

By using genome sequence alignments, We have identified many non-coding motifs that are conserved among mammalian species. For these motifs, we mainly focused on the cis-regulatory elements that regulate splicing. As the results, we revealed the existence of a network of cis-regulatory elements to achieve complicated regulations of alternative splicing. Extending this methodology to the identification of transcription factor binding sites, and to analyze the relationships between these motifs and single nucleotide polymorphisms(SNPs) are still under way. The computational environments and programs developed in this research project should facilitate further progress of these analyses in future.

Report

(4 results)
  • 2011 Annual Research Report   Final Research Report ( PDF )
  • 2010 Annual Research Report
  • 2009 Annual Research Report
  • Research Products

    (10 results)

All 2011 2010 2009

All Journal Article (3 results) (of which Peer Reviewed: 3 results) Presentation (7 results)

  • [Journal Article] A polymorphism of the POLG2 gene is genetically associated with the invasiveness of urinary bladder cancer in Japanese males2011

    • Author(s)
      C. Ratanajaraya, H. Nishiyama, M. Takahashi, T. Kawaguchi, R. Saito, Y. Mikami, M. Suyama, M. Lathrop, R. Yamada, O. Ogawa, F. Matsuda.
    • Journal Title

      J. Hum. Genet

      Volume: 56 Issue: 8 Pages: 572-576

    • DOI

      10.1038/jhg.2011.60

    • NAID

      10030660404

    • Related Report
      2011 Annual Research Report 2011 Final Research Report
    • Peer Reviewed
  • [Journal Article] A network of conserved co-occurring motifs for the regulation of alternative splicing2010

    • Author(s)
      Suyama M, Harrington ED, Vinokourova S, von Knebel Doeberitz M, Ohara O, Bork P.
    • Journal Title

      Nucleic Acids Res

      Volume: 38 Issue: 22 Pages: 7916-7926

    • DOI

      10.1093/nar/gkq705

    • Related Report
      2011 Final Research Report
    • Peer Reviewed
  • [Journal Article] A network of conserved co-occurring motifs for the regulation of alternative splicing2010

    • Author(s)
      Suyama M, Harrington ED, Vinokourova S, von Knebel Doeberitz M, Ohara O, Bork P
    • Journal Title

      Nucleic Acids Research

      Volume: 38 Pages: 7916-7926

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Presentation] RNA-Seq解析による胎仔型および成獣型ライディッヒ細胞特異的発現マーカー遺伝子の検索2011

    • Author(s)
      宮林香奈子, 嶋雄一, 馬場崇, 大竹博之, 佐藤哲也, 大川恭行, 須山幹太, 諸橋憲一郎
    • Organizer
      第34回日本分子生物学会年会
    • Place of Presentation
      横浜
    • Related Report
      2011 Final Research Report
  • [Presentation] ChIP-Seq法によるAd4BP/SF-1の標的遺伝子の同定2011

    • Author(s)
      馬場崇, 大竹博之, 宮林香奈子, 嶋雄一, 佐藤哲也, 木村宏, 大川恭行, 須山幹太, 諸橋憲一郎
    • Organizer
      第34回日本分子生物学会年会
    • Place of Presentation
      横浜
    • Related Report
      2011 Final Research Report
  • [Presentation] ChIP-Seqデータを用いた核内受容体共役因子の探索2011

    • Author(s)
      佐藤哲也, 須山幹太
    • Organizer
      第34回日本分子生物学会年会
    • Place of Presentation
      横浜
    • Related Report
      2011 Final Research Report
  • [Presentation] RNA-Seq解析による胎仔型および成獣型ライディッヒ細胞特異的発現マーカー遺伝子の検索2011

    • Author(s)
      宮林香奈子, 嶋雄一, 馬場崇, 大竹博之, 佐藤哲也, 大川恭行, 須山幹太, 諸橋憲一郎
    • Organizer
      第34回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜
    • Related Report
      2011 Annual Research Report
  • [Presentation] ChIP-Seq法によるAd4BP/SF-1の標的遺伝子の同定2011

    • Author(s)
      馬場崇, 大竹博之, 宮林香奈子, 嶋雄一, 佐藤哲也, 木村宏, 大川恭行, 須山幹太, 諸橋憲一郎
    • Organizer
      第34回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜
    • Related Report
      2011 Annual Research Report
  • [Presentation] ChIP-Seqデータを用いた核内受容体共役因子の探索2011

    • Author(s)
      佐藤哲也, 須山幹太
    • Organizer
      第34回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜
    • Related Report
      2011 Annual Research Report
  • [Presentation] Identification of cis-regulatory elements by using genome alignment and high-throughput data2009

    • Author(s)
      Mikita Suyama
    • Organizer
      The 4th Global COE International Symposium 2009 joint with the 19th Hot Spring Harbor Symposium "Molecular Evolution and Bioinformatics"
    • Place of Presentation
      九州大学、福岡
    • Year and Date
      2009-11-02
    • Related Report
      2009 Annual Research Report

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Published: 2009-04-01   Modified: 2016-04-21  

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