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Inferring cell differentiation processes based on phylogenetic analysis of genome-wide epigenetic information

Research Project

Project/Area Number 25440186
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Evolutionary biology
Research InstitutionHokkaido University

Principal Investigator

Koyanagi Kanako  北海道大学, 情報科学研究科, 准教授 (20362840)

Project Period (FY) 2013-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥5,200,000 (Direct Cost: ¥4,000,000、Indirect Cost: ¥1,200,000)
Fiscal Year 2015: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2014: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2013: ¥3,120,000 (Direct Cost: ¥2,400,000、Indirect Cost: ¥720,000)
Keywords系統解析 / 細胞分化 / エピジェネティクス / DNAメチル化 / 細胞系譜 / 祖先復元 / 遺伝子発現 / 血球系細胞 / 造血幹細胞
Outline of Final Research Achievements

How cells divide and differentiate is a fundamental question in organismal development; however, analyzing differentiation processes in various cell types is laborious and sometimes impossible. Phylogenetic analysis is usually used to reconstruct evolutionary processes based on inherent characters. It could also be used to reconstruct developmental processes based on the developmental changes during cell proliferation and differentiation. In this study, genome-wide epigenetic information from differentiated cells was used to perform phylogenetic analyses. As a result, it was shown that the hierarchical differentiation processes and epigenetic status of differentiating progenitor cells could be inferred based on genom-wide DNA methylation information for murine hematopoiesis. This analysis was also applied to various differentiated cells of human.

Report

(5 results)
  • 2016 Annual Research Report   Final Research Report ( PDF )
  • 2015 Research-status Report
  • 2014 Research-status Report
  • 2013 Research-status Report
  • Research Products

    (7 results)

All 2017 2015 2014 2013

All Journal Article (1 results) (of which Peer Reviewed: 1 results,  Open Access: 1 results,  Acknowledgement Compliant: 1 results) Presentation (6 results) (of which Int'l Joint Research: 2 results)

  • [Journal Article] Inferring Cell Differentiation Processes Based on Phylogenetic Analysis of Genome-Wide Epigenetic Information: Hematopoiesis as a Model Case2015

    • Author(s)
      Kanako O. Koyanagi
    • Journal Title

      Genome Biology and Evolution

      Volume: 7 Issue: 3 Pages: 699-705

    • DOI

      10.1093/gbe/evv024

    • Related Report
      2015 Research-status Report 2014 Research-status Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Presentation] Inferring cell differentiation processes based on phylogenetic analysis of genome-wide epigenetic information2017

    • Author(s)
      Kanako O. Koyanagi
    • Organizer
      CDB symposium 2017
    • Place of Presentation
      理化学研究所 多細胞システム形成研究センター(神戸市)
    • Year and Date
      2017-03-27
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Inferring cell differentiation processes based on phylogenetic analysis of genome-wide epigenetic information2015

    • Author(s)
      Kanako O. Koyanagi
    • Organizer
      THE 40th NAITO CONFERENCE on Epigenetics―From Histone Code to Therapeutic Strategy
    • Place of Presentation
      CHATERAISE Gateaux Kingdom, Sapporo, Japan
    • Year and Date
      2015-09-17
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research
  • [Presentation] Inferring cell differentiation processes based on the phylogenetic analysis of genome-wide DNA methylation data: Hematopoiesis as a model case2015

    • Author(s)
      Kanako O. Koyanagi
    • Organizer
      Keystone Symposia Conference
    • Place of Presentation
      Keystone Resort, Keystone, Colorado, USA
    • Year and Date
      2015-03-31
    • Related Report
      2014 Research-status Report
  • [Presentation] エピジェネティック情報の最尤推定による細胞分化過程の推定 ーマウス血球系細胞をモデルとして2014

    • Author(s)
      小柳香奈子
    • Organizer
      日本進化学会
    • Place of Presentation
      大阪府高槻市
    • Year and Date
      2014-08-22
    • Related Report
      2014 Research-status Report
  • [Presentation] エピジェネティック情報の系統解析による細胞分化過程の推定 ーマウス血球系細胞をモデルとして2013

    • Author(s)
      小柳香奈子
    • Organizer
      進化学会
    • Place of Presentation
      つくば大学(つくば市)
    • Related Report
      2013 Research-status Report
  • [Presentation] エピジェネティック情報の系統解析による細胞分化過程の推定 ーマウス血球系細胞をモデルとして2013

    • Author(s)
      小柳香奈子
    • Organizer
      分子生物学会
    • Place of Presentation
      神戸国際展示場(神戸市)
    • Related Report
      2013 Research-status Report

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Published: 2014-07-25   Modified: 2019-07-29  

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