Hori, Yutaka

写真a

Affiliation

Faculty of Science and Technology, Department of Applied Physics and Physico-Informatics （Yagami）

Position

Associate Professor

Related Websites
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Career 【 Display / hide 】

  • 2013.04
    -
    2013.08

    東京大学大学院, 情報理工学系研究科 システム情報学専攻, 特任研究員

  • 2013.09
    -
    2016.03

    California Institute of Technology, Department of Computing and Mathematical Sciences, Postdoctoral Scholar

  • 2017.04
    -
    2019.03

    Institute of Physical and Chemical Research, 統合生命医科学研究センター統合ゲノミクス研究グループ, 客員研究員

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Academic Background 【 Display / hide 】

  • 2008.03

    The University of Tokyo, 工学部, 計数工学科

    University, Graduated

  • 2010.03

    The University of Tokyo, 情報理工学系研究科, システム情報学専攻

    Graduate School, Completed, Master's course

  • 2013.03

    The University of Tokyo, 情報理工学系研究科, システム情報学専攻

    Graduate School, Completed

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Academic Degrees 【 Display / hide 】

  • 学士(工学), The University of Tokyo, 2008.03

  • 修士(情報理工学), The University of Tokyo, 2010.03

  • 博士 (情報理工学), The University of Tokyo, 2013.03

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Research Areas 【 Display / hide 】

  • Manufacturing Technology (Mechanical Engineering, Electrical and Electronic Engineering, Chemical Engineering) / Control and system engineering

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Research Keywords 【 Display / hide 】

  • molecular systems

  • molecular robotics

  • 制御工学

  • 制御理論

  • 合成生物学

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Papers 【 Display / hide 】

  • Multimolecular Competition Effect as a Modulator of Protein Localization and Biochemical Networks in Cell-Size Space

    Nishikawa S., Sato G., Takada S., Kohyama S., Honda G., Yanagisawa M., Hori Y., Doi N., Yoshinaga N., Fujiwara K.

    Advanced Science （Advanced Science)  11 （ 6 ）  2024.02

    　View Summary

    Cells are small, closed spaces filled with various types of macromolecules. Although it is shown that the characteristics of biochemical reactions in vitro are quite different from those in living cells, the role of the co-existence of various macromolecules in cell-size space remains still elusive. Here, using a constructive approach, it is demonstrated that the co-existence of various macromolecules themselves has the ability to tune protein localization for spatiotemporal regulation and a biochemical reaction system in a cell-size space. Both experimental and theoretical analyses reveal that enhancement of interfacial effects by a large surface-area-to-volume ratio facilitates membrane localization of molecules in the cell-size space, and the interfacial effects are alleviated by competitive binding to lipid membranes among multiple proteins even if their membrane affinities are weak. These results indicate that competition for membrane binding among various macromolecules in the cell-size space plays a role in regulating the spatiotemporal molecular organization and biochemical reaction networks. These findings shed light on the importance of surrounding molecules for biochemical reactions using purified elements in small spaces.

  • A Control-Theoretic Model for Bidirectional Molecular Communication Systems

    Kotsuka T., Hori Y.

    IEEE Transactions on Molecular, Biological, and Multi-Scale Communications （IEEE Transactions on Molecular, Biological, and Multi-Scale Communications)  9 （ 3 ） 274 - 285 2023.09

    　View Summary

    Molecular communication (MC) enables cooperation of spatially dispersed molecular robots through the feedback control mediated by diffusing signal molecules. However, conventional analysis frameworks for the MC channels mostly consider the dynamics of unidirectional communication, lacking the effect of feedback interactions. In this paper, we propose a general control-theoretic modeling framework for bidirectional MC systems capable of capturing the dynamics of feedback control via MC in a systematic manner. The proposed framework considers not only the dynamics of molecular diffusion but also the boundary dynamics at the molecular robots that captures the lag due to the molecular transmission/reception process affecting the performance of the entire feedback system. Thus, methods in control theory can be applied to systematically analyze various dynamical properties of the feedback system. We perform a frequency response analysis based on the proposed framework to show a general design guideline for MC channels to transfer signal with desired control bandwidth. Finally, these results are demonstrated by showing the step-by-step design procedure of a specific MC channel satisfying a given specification.

  • L-2L ladder digital-to-analogue converter for dynamics generation of chemical concentrations

    Chatani T., Shiraishi S., Miyazako H., Onoe H., Hori Y.

    Royal Society Open Science （Royal Society Open Science)  10 （ 4 ）  2023.04

    　View Summary

    Cellular response to dynamic chemical stimulation encodes rich information about the underlying reaction pathways and their kinetics. Microfluidic chemical stimulators play a key role in generating dynamic concentration waveforms by mixing several aqueous solutions. In this article, we propose a multi-layer microfluidic chemical stimulator capable of modulating chemical concentrations by a simple binary logic based on the electronic-hydraulic analogy of electronic R-2R ladder circuits. The proposed device, which we call L-2L ladder digital-to-analogue converter (DAC), allows us to systematically modulate 2n levels of concentrations from single sources of solution and solvent by a single operation of 2n membrane valves, which contrasts with existing devices that require complex channel geometry with multiple input sources and valve operations. We fabricated the L-2L ladder DAC with n = 3 bit resolution and verified the concept by comparing the generated waveforms with computational simulations. The response time of the proposed DAC was within the order of seconds because of its simple operation logic of membrane valves. Furthermore, detailed analysis of the waveforms revealed that the transient concentration can be systematically predicted by a simple addition of the transient waveforms of 2n = 6 base patterns, enabling facile optimization of the channel geometry to fine-tune the output waveforms.

  • Graphical and Analytical Approaches for Analyzing Collective Behavior of Dynamic Multi-Agent Systems Governed by Generalized Cyclic Pursuit Mechanism

    Kwak T., Kim Y., Hori Y., Kim T.H.

    IEEE Access （IEEE Access)  11   140481 - 140495 2023

    　View Summary

    In this study, we use graphical and analytical methods to study the collective behavior of a swarm of dynamic agents controlled by the generalized cyclic pursuit (GCP) scheme. The proposed graphical approach reveals the occurrence mechanisms of various formation patterns in terms of agents' dynamics and tuning parameters of the GCP scheme, including the rendezvous, diverging spirals, circular pattern, and spirograph-like patterns. Then, we develop an analytical tool to obtain the crucial information needed to formulate expressions of the circular and spirograph-like steady-state trajectories generated by the GCP-controlled dynamic multi-agent system. In addition, the steady-state formation trajectories of a swarm of dynamic agents are formulated by explicitly considering the agents' general continuous-time linear time-invariant model and the scenario in which more than two pairs of closed-loop poles exist on the imaginary axis of the complex plane. Numerical simulation cases of the GCP-controlled dynamic multi-agent system are presented to demonstrate the effectiveness of the proposed analysis methodology.

  • Stability analysis for circulant structured multi-agent molecular communication systems

    Kotsuka T., Hori Y.

    Proceedings of the 7th Workshop on Molecular Communications  2023

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Papers, etc., Registered in KOARA 【 Display / hide 】

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Reviews, Commentaries, etc. 【 Display / hide 】

  • Special issue on control technology for networked and distributed robotics

    Nagahara M., Cai K., Chatterjee D., Chopra N., Hatanaka T., Hori Y., Ishii H., Quevedo D.E., Reniers M.

    Advanced Robotics (Advanced Robotics)  37 ( 1-2 )  2023

    ISSN  01691864

  • 生体分子を材料とする人工システムの設計と制御 〜生物と人工物をつなぐためのフレームワーク〜

    堀 豊

    計測と制御 60 ( 7 )  2021.07

    Article, review, commentary, editorial, etc. (scientific journal)

  • 確率ゆらぎを利用した生体分子システムの設計

    堀 豊

    計測と制御 60 ( 5 ) 345 - 350 2021.05

    Article, review, commentary, editorial, etc. (scientific journal)

  • Modeling and Analysis of Stochastic Reaction Kinetics in Biomolecular Systems

    Yutaka Hori

    New Generation Computing 38 ( 1 )  2020.05

    Article, review, commentary, editorial, etc. (scientific journal)

  • Control and Biology: Going Beyond the Boundary, and Fusing

    Yutaka Hori

    計測と制御 58 ( 5 ) 323 - 324 2019.05

    Other, Single Work

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Presentations 【 Display / hide 】

  • 化学マスター方程式のパラメタを保存した低次元化法

    宮﨑誠也，堀豊

    第10回 計測自動制御学会制御部門マルチシンポジウム, 

    2023.03

  • 信号の歪みを抑制する分子通信路の設計法

    北田祥一郎，小塚太資，堀豊

    第10回 計測自動制御学会制御部門マルチシンポジウム, 

    2023.03

  • 複数の分子ロボットによる分子通信システムのノイズ抑制解析

    小塚太資，堀豊

    2022.11

  • 双方向型分子通信路のモデル化および周波数応答解析

    小塚太資，堀豊

    第66回システム制御情報学会, 

    2022.05

  • 円形断面マイクロ流路の作製と On-Off バルブへの応用

    上原花織, 堀豊, 石榑崇明

    化学とマイクロ・ナノシステム学会第45回研究会, 

    2022.05

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Research Projects of Competitive Funds, etc. 【 Display / hide 】

  • 反応拡散系として分子的に実装されるニューラルネットワークシステムの開発

    2023.04
    -
    2026.03

    Coinvestigator(s)

  • 再帰性と可塑性を有する分子学習モジュールのシステム設計理論

    2021.09
    -
    2023.03

    MEXT,JSPS, Grant-in-Aid for Scientific Research, 学術変革領域研究(A), Principal investigator

  • Distribution-based design of stochastic response in biomolecular systems

    2021.04
    -
    2025.03

    MEXT,JSPS, Grant-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (B), Principal investigator

  • 再帰性と可塑性を有する分子学習モジュールのシステム設計理論

    2021
    -
    2022

    文部科学省・日本学術振興会, 科学研究費助成事業, Principal investigator

  • 第一原理モデルとデータ駆動型モデルの融合による遺伝子回路のロバスト動態予測

    2018.04
    -
    2022.03

    MEXT,JSPS, Grant-in-Aid for Scientific Research, Grant-in-Aid for Scientific Research (B), Principal investigator

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Intellectual Property Rights, etc. 【 Display / hide 】

  • 線形予測係数算出装置、線形予測係数算出方法、線形予測係数算出プログラム、および記憶媒体

    Date applied： 2008-051149  2008.02 

    Date announced： 2009-210644  2009.09 

    Date issued： 5057334  2012.08

    Patent, Joint

  • 符号化装置、復号化装置、符号化方法、復号化方法、プログラム、記録媒体

    Date applied： 2008-051150  2008.02 

    Date announced： 2009-210645  2009.09 

    Date issued： 5010293  2012.06

    Patent, Joint

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Courses Taught 【 Display / hide 】

  • PRESENTATION TECHNIQUE

    2024

  • MODELING AND CONTROL SYSTEM DESIGN

    2024

  • MATHEMATICS FOR APPLIED PHYSICS (B)

    2024

  • MATHEMATICAL THEORY IN BIOMOLECULAR SYSTEMS

    2024

  • INDEPENDENT STUDY ON FUNDAMENTAL SCIENCE AND TECHNOLOGY

    2024

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Memberships in Academic Societies 【 Display / hide 】

  • 計測自動制御学会

    　

  • システム制御情報学会

    　

  • IEEE

    　
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Committee Experiences 【 Display / hide 】

  • 2023
    -
    Present

    Associate Editor, IEEE Transactions on Molecular, Biological and Multi-Scale Communications

  • 2022.04
    -
    Present

    Treasurer, IEEE Control Systems Society, Japan Chapter

  • 2022.01
    -
    Present

    制御部門・学術委員会委員, 計測自動制御学会

  • 2021

    Guest Editor, Advanced Robotics

  • 2020.10
    -
    Present

    Member of Technical Committeee on (TC8.4) Biosystems and Bioprocesses, International Federation of Automatic Control

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