Unveiling cellular information transmission through optimality principle

• Project/Area Number: 16K00325
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Multi-year Fund
• Section: 一般
• Research Field: Soft computing
• Research Institution: The University of Tokyo
• Principal Investigator: Hasegawa Yoshihiko 東京大学, 大学院情報理工学系研究科, 准教授 (20512354)
• Project Period (FY): 2016-04-01 – 2019-03-31
• Project Status: Completed (Fiscal Year 2018)
• Budget Amount: ¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000); Fiscal Year 2018: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000); Fiscal Year 2017: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000); Fiscal Year 2016: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
• Keywords: シグナル伝達 / 最適制御 / 生物物理 / システム生物学 / 複雑系 / 生体ダ イ ナ ミ ク ス

Outline of Final Research Achievements

We unveiled mechanisms of cellular information processing from optimal control theory. We obtained biomolecular mechanisms for optimally decoding dynamical signaling pattern using the principle of optimality. Moreover, we theoretically showed that such optimal decoding mechanisms can be implemented biochemically. We studied the effect of the diffusion in biomolecular processes. We mathematically proved conditions when we can ignore the effect of the diffusion. These achievements have been published by international peer reviewed journals.

Academic Significance and Societal Importance of the Research Achievements

最適なデコード機構が分子メカニズム的に実装可能であることを示したが，これにより，将来細胞に人工的な信号を受け取る分子メカニズムを実装する際に，最適なデコードが実装可能であることが分かった．細胞の拡散による影響を理論的に調べた研究では，細胞の動態をモデル化する際に，適切なモデル化の指針が与えられることが分かった．これにより，細胞の薬剤に対する応答のモデル化が効率的かつ正確に行うことが可能となる．

Research Products

• [Journal Article] Topological Time-series Analysis with Delay-variant Embedding (2019)
  • Author(s): Quoc Hoan Tran and Yoshihiko Hasegawa
  • Journal Title: Physical Review E Volume: 99 Issue: 3 Pages: 032209-032209
  • DOI: 10.1103/physreve.99.032209
  • Peer Reviewed
• [Journal Article] An Algebraic Method to Calculate Parameter Regions for Constrained Steady-state Distribution in Stochastic Reaction Networks (2019)
  • Author(s): Tan Van Vu and Yoshihiko Hasegawa
  • Journal Title: Chaos Volume: 29 Issue: 2 Pages: 023123-023123
  • DOI: 10.1063/1.5047579
  • Peer Reviewed
• [Journal Article] Diffusion-Dynamics Laws in Stochastic Reaction Networks (2019)
  • Author(s): Tan Van Vu and Yoshihiko Hasegawa
  • Journal Title: Physical Review E Volume: 99 Issue: 1 Pages: 012416-012416
  • DOI: 10.1103/physreve.99.012416
  • Peer Reviewed
• [Journal Article] Thermodynamics of Collective Enhancement of Precision (2018)
  • Author(s): Yoshihiko Hasegawa
  • Journal Title: Physical Review E Volume: 98 Issue: 3 Pages: 032405-032405
  • DOI: 10.1103/physreve.98.032405
  • Peer Reviewed
• [Journal Article] Multidimensional Biochemical Information Processing of Dynamical Patterns (2018)
  • Author(s): Yoshihiko Hasegawa
  • Journal Title: Physical Review E Volume: 97 Issue: 2 Pages: 022401-022401
  • DOI: 10.1103/physreve.97.022401
  • Peer Reviewed / Open Access
• [Journal Article] Optimal Temporal Patterns for Dynamical Cellular Signaling (2016)
  • Author(s): Yoshihiko Hasegawa
  • Journal Title: New Journal of Physics Volume: 18 Issue: 11 Pages: 113031-113031
  • DOI: 10.1088/1367-2630/18/11/113031
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Improved Sampling Using Loopy Belief Propagation for Probabilistic Model Building Genetic Programming (2015)
  • Author(s): Hiroyuki Sato, Yoshihiko Hasegawa, Danushka Bollegala and Hitoshi Iba
  • Journal Title: Swarm and Evolutionary Computation Volume: 23 Issue: 1 Pages: 1-10
  • DOI: 10.1007/s11071-016-2715-3
  • Peer Reviewed / Int'l Joint Research
• [Presentation] ゆらぎの定理による確率過程のパラメータ推定手法 (2019)
  • Author(s): 土井彬史，長谷川禎彦
  • Organizer: 電子情報通信学会総合大会
• [Presentation] Augmented Variational Superposed Gaussian Approximation for Langevin Equations with Rational Polynomial Functions (2019)
  • Author(s): Xingyan Chu, Yoshihiko Hasegawa
  • Organizer: 電子情報通信学会総合大会
• [Presentation] Ott-Antonsen Ansatzを用いた大域結合系の最適制御 (2019)
  • Author(s): 瀬戸山 亘，長谷川禎彦
  • Organizer: 電子情報通信学会総合大会
• [Presentation] Approximate Vanishing Ideal via Data Knotting (2018)
  • Author(s): 計良宥志，長谷川禎彦
  • Organizer: 第17回情報科学技術フォーラム （FIT2018）
• [Presentation] Approximate Vanishing Ideal via Data Knotting (2018)
  • Author(s): Hiroshi Kera and Yoshihiko Hasegawa
  • Organizer: The Thirty-Second AAAI Conference on Artificial Intelligence
  • Int'l Joint Research
• [Presentation] 数理最適化理論が示す体内時計の設計原理 (2017)
  • Author(s): 長谷川禎彦
  • Organizer: 生命の起源および進化学会
  • Place of Presentation: 福岡（九州工業大学）
  • Year and Date: 2017-03-28
  • Invited
• [Presentation] パーシステントホモロジーを用いた確率的な化学反応ネットワークの分岐点の推定 (2017)
  • Author(s): Tran Quoc Hoan，Vu Van Tan，長谷川 禎彦
  • Organizer: 情報処理学会第51回バイオ情報学（BIO）研究会
• [Presentation] Spatial Effects in Signaling Cascade Network (2017)
  • Author(s): Tan Vu Van, Yoshihiko Hasegawa
  • Organizer: NIG International Symposium 2017
• [Presentation] 実環境画像を用いたノイズ同期現象 (2016)
  • Author(s): 東野孟史，長谷川禎彦
  • Organizer: 電子情報通信学会ソサエティ大会
  • Place of Presentation: 札幌（北海道大学）
  • Year and Date: 2016-09-20
• [Presentation] 遅延要素を含む振動子の目的の位相応答曲線の獲得 (2016)
  • Author(s): 田島新，長谷川禎彦
  • Organizer: 電子情報通信学会ソサエティ大会
  • Place of Presentation: 札幌（北海道大学）
  • Year and Date: 2016-09-20
• [Presentation] 非整数ブラウン運動における時間依存解の近似計算手法 (2016)
  • Author(s): 井村憲吾，長谷川禎彦
  • Organizer: 電子情報通信学会ソサエティ大会
  • Place of Presentation: 札幌（北海道大学）
  • Year and Date: 2016-09-20
• [Presentation] Distributed delayを含むリミットサイクルの位相応答曲線 (2016)
  • Author(s): 宮田圭介，長谷川禎彦
  • Organizer: 電子情報通信学会ソサエティ大会
  • Place of Presentation: 札幌（北海道大学）
  • Year and Date: 2016-09-20