Information theoretical analysis of signaling network

• Project/Area Number: 25830142
• Research Category: Grant-in-Aid for Young Scientists (B)
• Allocation Type: Multi-year Fund
• Research Field: System genome science
• Research Institution: Kyushu University (2014-2015); The University of Tokyo (2013)
• Principal Investigator: UDA SHINSUKE 九州大学, 生体防御医学研究所, 准教授 (20599609)
• Project Period (FY): 2013-04-01 – 2016-03-31
• Project Status: Completed (Fiscal Year 2015)
• Budget Amount: ¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000); Fiscal Year 2015: ¥780,000 (Direct Cost: ¥600,000、Indirect Cost: ¥180,000); Fiscal Year 2014: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000); Fiscal Year 2013: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
• Keywords: システム生物学 / シグナル伝達 / 情報理論 / 堅牢性 / 頑健性

Outline of Final Research Achievements

Robust transmission of information despite the presence of variation is a fundamental problem in cellular functions. However, the capability and characteristics of information transmission in signaling pathways remain poorly understood. We describe robustness and compensation of information transmission of signaling pathways at the cell population level. We calculated the mutual information transmitted through signaling pathways for the growth factor, which mediated gene expression. Growth factors appeared to carry only information sufficient for a binary decision. Information transmission was generally more robust than average signal intensity despite pharmacological perturbations, and compensation of information transmission occurred. Information transmission to the biological output of neurite extension appeared robust. Cells may use information entropy as information so that messages can be robustly transmitted despite variation in molecular activities among individual cells.

Research Products

• [Journal Article] Analysis of cellular signal transduction from an information theoretic approach (2016)
  • Author(s): Shinsuke Uda and Shinya Kuroda
  • Journal Title: Seminars in Cell & Developmental Biology Volume: 51 Pages: 24-31
  • DOI: 10.1016/j.semcdb.2015.12.011
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Robustness and Compensation of Information of Signaling Pathways. (2013)
  • Author(s): Shinsuke Uda, Takeshi H Saito, Takamasa Kudo, Toshiya Kokaji, Takaho Tsuchiya, Hiroyuki Kubota, Yasunori Komori, Yu-ichi Ozaki, and Shinya Kuroda
  • Journal Title: Science Volume: 341 Issue: 6145 Pages: 558-561
  • DOI: 10.1126/science.1234511
  • Peer Reviewed
• [Presentation] TBD (2016)
  • Author(s): Shinsuke Uda
  • Organizer: 第39回日本分子生物学会
  • Place of Presentation: 横浜
  • Year and Date: 2016-12-01
  • Invited
• [Presentation] Information Theoretical Analysis of Signaling Pathway (2016)
  • Author(s): Shinsuke Uda
  • Organizer: The 6th Annual World Congress of Molecular & Cell Biology
  • Place of Presentation: Dalian, China
  • Year and Date: 2016-04-26
  • Int'l Joint Research / Invited
• [Presentation] 細胞内情報伝達システムの情報理論的解析 (2016)
  • Author(s): 宇田新介
  • Organizer: 6.「生命動態の理解と制御のための基盤技術の創出」研究領域・第5回数理デザイン道場
  • Place of Presentation: 東京
  • Year and Date: 2016-02-19
  • Invited
• [Presentation] データドリブンモデルから解明するPC12細胞の神経分化誘導における細胞内シグナル伝達のデコーディングメカニズム (2014)
  • Author(s): 土屋貴穂，宇田新介，工藤隆将，唐沢康暉，黒田真也
  • Organizer: 第37回分子生物学会年会
  • Place of Presentation: 横浜
  • Year and Date: 2014-11-26
• [Presentation] データドリブンモデルから解明するPC12細胞の神経分化誘導における細胞内シグナル伝達のデコーディングメカニズム (2014)
  • Author(s): 土屋貴穂，宇田新介，工藤隆将，黒田真也
  • Organizer: 第87回日本生化学会大会
  • Place of Presentation: 京都
  • Year and Date: 2014-10-17
• [Presentation] Robustness and compensation of information transmission of signaling pathways despite perturbation (2014)
  • Author(s): Shinsuke Uda and Shinya Kuroda
  • Organizer: The Joint Annual Meeting of the Japanese Society for Mathematical Biology and the Society for Mathematical Biology
  • Place of Presentation: Osaka
  • Year and Date: 2014-07-30
  • Invited
• [Presentation] Robustness and compensation of information transmission of signaling pathways despite perturbation (2013)
  • Author(s): S. Uda, and S. Kuroda
  • Organizer: Workshop: Gradients and Signalling: from chemotaxis to development
  • Place of Presentation: 沖縄科学技術大学院大学（沖縄県）
  • Invited