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Comprehensive identification of microRNAs that control atopic dermatitis using a gene regulatory network

Research Project

Project/Area Number 15K21631
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field System genome science
Dermatology
Research InstitutionInstitute of Physical and Chemical Research

Principal Investigator

Kawakami Eiryo  国立研究開発法人理化学研究所, 科学技術ハブ推進本部, 上級研究員 (30725338)

Project Period (FY) 2015-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
Fiscal Year 2016: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
Fiscal Year 2015: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Keywords遺伝子制御ネットワーク / 転写因子 / マイクロRNA / アトピー性皮膚炎 / Gene set enrichment解析
Outline of Final Research Achievements

The greatest result of this research is the development of wPGSA (weighted Parametric Gene Set Analysis) method which comprehensively predicts control factors from gene expression data taking stochastic control relationship into account (Kawakami et al. Nucleic Acids Research 2016). Prediction of transcriptional regulators by the wPGSA method is not limited to atopic dermatitis, but it has revealed the involvement of regulatory factors that have not been known until now in many life phenomena / diseases, and we are conducting joint research with more than 20 experimental groups.

Report

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

    (11 results)

All 2017 2016 2015 Other

All Journal Article (4 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 3 results,  Open Access: 3 results,  Acknowledgement Compliant: 2 results) Presentation (5 results) (of which Int'l Joint Research: 2 results,  Invited: 4 results) Remarks (2 results)

  • [Journal Article] 公共ハイスループットChIPデータを用いた 遺伝子制御ネットワークの構築と その活用法2017

    • Author(s)
      川上英良、大田達郎
    • Journal Title

      実験医学増刊

      Volume: Vol. 35 Pages: 112-118

    • Related Report
      2016 Annual Research Report
  • [Journal Article] Network analyses based on comprehensive molecular interaction maps reveal robust control structures in yeast stress response pathways2016

    • Author(s)
      Eiryo Kawakami, Vivek K Singh, Kazuko Matsubara, Takashi Ishii, Yukiko Matsuoka, Takeshi Hase,Priya Kulkarni, Kenaz Siddiqui, Janhavi Kodilkar, Nitisha Danve, Indhupriya Subramanian, Manami Katoh, Yuki Shimizu-Yoshida, Samik Ghosh, Abhay Jere & Hiroaki Kitano
    • Journal Title

      npj Systems Biology and Applications

      Volume: 2 Issue: 1 Pages: 15018-15018

    • DOI

      10.1038/npjsba.2015.18

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Weighted enrichment method for prediction of transcription regulators from transcriptome and global chromatin immunoprecipitation data2016

    • Author(s)
      Eiryo Kawakami, Shinji Nakaoka, Tazro Ohta and Hiroaki Kitano
    • Journal Title

      Nucleic Acids Research

      Volume: 印刷中 Issue: 11 Pages: 5010-5021

    • DOI

      10.1093/nar/gkw355

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Significant impact of miRNA-target gene networks on genetics of human complex traits.2016

    • Author(s)
      Okada Y, Muramatsu T, Suita N, Kanai M, Kawakami E et al.
    • Journal Title

      Sci Rep

      Volume: 6 Issue: 1 Pages: 22223-22223

    • DOI

      10.1038/srep22223

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Presentation] ウイルス・細菌感染における宿主転写制御2017

    • Author(s)
      川上英良
    • Organizer
      第90回 日本細菌学会総会
    • Place of Presentation
      仙台国際センター(宮城県・仙台市)
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 生物ネットワークに潜む情報を探る:タンパク質相互作用ネットワークに基づくシグナル伝達パスウェイ網羅的再構成2016

    • Author(s)
      川上英良
    • Organizer
      第89回 日本生化学会大会
    • Place of Presentation
      仙台国際センター(宮城県・仙台市)
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 公共ChIPデータを活用した遺伝子制御ネットワーク構築と転写因子予測2016

    • Author(s)
      川上英良
    • Organizer
      トーゴーの日シンポジウム2016
    • Place of Presentation
      東京大学(東京都・文京区)
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 遺伝子発現から転写制御因子を予測する確率的Gene Set Enrichment解析2015

    • Author(s)
      川上英良、中岡慎治、北野宏明
    • Organizer
      BMB2015 (第38回日本分子生物学会年会、第88回日本生化学会大会 合同大会)
    • Place of Presentation
      神戸ポートアイランド(兵庫・神戸市)
    • Year and Date
      2015-12-04
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] Impaired balance between antagonistic transcriptional modules during the progression of inflammatory skin disease2015

    • Author(s)
      Eiryo Kawakami, Hisahiro Yoshida, Takuwa Yasuda, Shinji Nakaoka, Hiroaki Kitano, Haruhiko Koseki
    • Organizer
      Functional Genomics and Systems Biology: From Model Organisms to Human Health
    • Place of Presentation
      Welcome Trust Sanger Institute(United Kingdom)
    • Year and Date
      2015-10-29
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research
  • [Remarks] wPGSA

    • URL

      http://wpgsa.org/

    • Related Report
      2016 Annual Research Report 2015 Research-status Report
  • [Remarks] 遺伝子発現から転写因子を予測 -ChIPビッグデータを活用して遺伝子制御ネットワークを構築-

    • URL

      http://www.riken.jp/pr/press/2016/20160510_1/

    • Related Report
      2015 Research-status Report

URL: 

Published: 2015-04-16   Modified: 2018-03-22  

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