Basic Information

Faculty

• Faculty of Science

Email Address

• Email Address

  kawamata.ibuki.8pkyoto-u.ac.jp

Professional Memberships

• From Jun. 2024, To Present

  物理学会
• From Apr. 2021, To Present

  The Chem-Bio Informatics Society
• 化学とマイクロ・ナノシステム学会
• 生物物理学会
• 応用物理学会

Academic Degree

• 24 Mar. 2014

  東京大学博士（情報理工学）
• 24 Mar. 2011

  東京大学修士（情報理工学）

Academic Resume (Undergraduate School/Majors)

• 東京大学, 理学部情報科学科, 卒業

Research History

• From Dec. 2023, To Present

  Kyoto University, Graduate School of Science Division of Physics and Astronomy, Associate Professor
• From Feb. 2020, To Nov. 2023

  Ochanomizu University, Natural Science Division, Faculty of Core Research, (Concurrent post) Assistant Professor
• From Apr. 2016, To Nov. 2023

  Tohoku University, Department of Robotics, Graduate School of Engineering, Assistant Professor
• From Apr. 2017, To Mar. 2018

  Technical University of Munich, Visiting researcher
• From Apr. 2014, To Mar. 2016

  東北大学 大学院工学研究科 バイオロボティクス専攻
• From Apr. 2011, To Mar. 2014

  JSPS Research Fellowships for Young Scientists(DC1)

ID,URL

• J-Global ID

  201801005123148380

• Researcher number

  30733977

• External link

  https://ibuki-kawamata.org/

researchmap URL

• https://researchmap.jp/IbukiKawamata

Research

Research Interests

• DNA nanotechnology
• DNA origami
• DNA computing
• Molecular robotics
• Molecular Cybernetics
• Reaction-diffusion system
• Pattern formation
• Combinatorial optimization
• Molecular dynamics
• Active matter
• DNA hydrogel

Research Areas

• Informatics, Biological, health, and medical informatics, Molecular Cybernetics, Molecular computation, Molecular programming, DNA computer
• Natural sciences, Bio-, chemical, and soft-matter physics, Active matter, DNA reaction diffusion system, DNA gel
• Nanotechnology/Materials, Nanomaterials, DNA origami, DNA nanotechnology
• Informatics, Robotics and intelligent systems, Molecular robotics

Papers

• Intra- and Interbead Communications by an Anchored DNA Structure and Cascaded DNA Reactions

  Ibuki Kawamata; Satoru Yoshizawa; Keita Abe; Masahiro Takinoue; Shin-Ichiro M. Nomura; Satoshi Murata

  ACS Synthetic Biology, 14 Mar. 2025, Lead author, Corresponding author

  
• Logic-Gated Modulation of Cell Migration via Mesoscale Mechanical Uncaging Effects

  Deepak Karna; Shin Watanabe; Grinsun Sharma; Arpit Sharma; Yaorong Zheng; Ibuki Kawamata; Yuki Suzuki; Hanbin Mao

  ACS Nano, 21 Feb. 2025

  
• Transmembrane DNA Sequence Signaling via Hybridization

  Kai Yoshida; Keita Abe; Yusuke Sato; Ibuki Kawamata; Richard James Archer; Hideaki T. Matsubayashi; Shogo Hamada; Satoshi Murata; Shin-ichiro Nomura

  16 Jul. 2024

  
• Non-catalytic role of phosphoinositide 3-kinase in mesenchymal cell migration through non-canonical induction of p85β/AP2-mediated endocytosis

  Hideaki T. Matsubayashi; Jack Mountain; Nozomi Takahashi; Abhijit Deb Roy; Tony Yao; Amy F. Peterson; Cristian Saez Gonzalez; Ibuki Kawamata; Takanari Inoue

  Nature Communications, 23 Mar. 2024, Peer-reviewed

  
• Autonomous assembly and disassembly of gliding molecular robots regulated by a DNA-based molecular controller

  Ibuki Kawamata; Kohei Nishiyama; Daiki Matsumoto; Shosei Ichiseki; Jakia J. Keya; Kohei Okuyama; Masatoshi Ichikawa; Arif Md. Rashedul Kabir; Yusuke Sato; Daisuke Inoue; Satoshi Murata; Kazuki Sada; Akira Kakugo; Shin-ichiro M. Nomura

  Science Advances, 31 May 2024, Peer-reviewed, Lead author

  Access this paper :

  
• Chemo-mechanical forces modulate the topology dynamics of mesoscale DNA assemblies

  Deepak Karna; Eriko Mano; Jiahao Ji; Ibuki Kawamata; Yuki Suzuki; Hanbin Mao

  Nature Communications, 13 Oct. 2023, Peer-reviewed, Corresponding author

  
• Multi-Reconfigurable DNA Origami Nanolattice Driven by the Combination of Orthogonal Signals

  Kotaro Watanabe; Ibuki Kawamata; Satoshi Murata; Yuki Suzuki

  JACS Au, 27 Apr. 2023, Peer-reviewed

  
• Collective Cargo Transport and Sorting with Molecular Swarms

  Nathanael Aubert-Kato; Geoff Nitschke; Ibuki Kawamata; Akira Kakugo

  The 2023 Conference on Artificial Life, 2023, Peer-reviewed

  
• Self-replication and Mutation of Polymeric Molecules Simulated by Simplified Chemistry

  Taisei Mori; Ibuki Kawamata; Satoshi Murata

  2022 Tenth International Symposium on Computing and Networking Workshops (CANDARW), Nov. 2022, Peer-reviewed

  
• Algorithmic Design of 3D Wireframe RNA Polyhedra

  Antti Elonen; Ashwin Karthick Natarajan; Ibuki Kawamata; Lukas Oesinghaus; Abdulmelik Mohammed; Jani Seitsonen; Yuki Suzuki; Friedrich C. Simmel; Anton Kuzyk; Pekka Orponen

  ACS Nano, 30 Sep. 2022, Peer-reviewed

  
• Lipid bilayer-assisted dynamic self-assembly of hexagonal DNA origami blocks into monolayer crystalline structures with designed geometries

  Yuki Suzuki; Ibuki Kawamata; Kotaro Watanabe; Eriko Mano

  iScience, May 2022, Peer-reviewed

  
• Algorithmic design of 3D wireframe RNA polyhedra

  Antti Elonen; Ashwin K. Natarajan; Ibuki Kawamata; Lukas Oesinghaus; Abdulmelik Mohammed; Jani Seitsonen; Yuki Suzuki; Friedrich C. Simmel; Anton Kuzyk; Pekka Orponen

  28 Apr. 2022

  
• Autonomous and Programmable Strand Generator Implemented as DNA and Enzymatic Chemical Reaction Cascade

  Ibuki Kawamata; Shin-ichiro M. Nomura; Satoshi Murata

  New Generation Computing, 27 Feb. 2022, Peer-reviewed, Lead author, Corresponding author

  
• Web Server with a Simple Interface for Coarse-grained Molecular Dynamics of DNA Nanostructures

  Yudai Yamashita; Kotaro Watanabe; Satoshi Murata; Ibuki Kawamata

  Chem-Bio Informatics Journal, 30 Apr. 2021, Peer-reviewed, Last author, Corresponding author

  
• Chemo-Mechanical Modulation of Cell Motions Using DNA Nanosprings

  Deepak Karna; Morgan Stilgenbauer; Sagun Jonchhe; Kazuya Ankai; Ibuki Kawamata; Yunxi Cui; Yao-Rong Zheng; Yuki Suzuki; Hanbin Mao

  Bioconjugate Chemistry, 17 Feb. 2021, Peer-reviewed

  
• Online Biomolecular Design Competition Across University Boundaries

  Satoshi MURATA; Akinori KUZUYA; Kei FUJIWARA; Junichi TAIRA; Ibuki KAWAMATA; Yusuke SATO; Masahiro TAKINOUE; Shin-ichiro M. NOMURA; Akira KAKUGO; Yutaka HORI; Keita ABE

  Journal of JSEE, 2021, Peer-reviewed

  
• Cascaded pattern formation in hydrogel medium using the polymerisation approach

  Keita Abe; Satoshi Murata; Ibuki Kawamata

  Soft Matter, 2021, Peer-reviewed, Last author, Corresponding author

  
• A large, square-shaped, DNA origami nanopore with sealing function on a giant vesicle membrane

  Shoji Iwabuchi; Ibuki Kawamata; Satoshi Murata; Shin-ichiro M. Nomura

  Chemical Communications, 2021, Peer-reviewed

  
• DNA Ring Motif with Flexible Joints

  Shiyun Liu; Satoshi Murata; Ibuki Kawamata

  Micromachines, 31 Oct. 2020, Peer-reviewed, Last author, Corresponding author

  
• Large Deformation of a DNA-Origami Nanoarm Induced by the Cumulative Actuation of Tension-Adjustable Modules.

  Yuki Suzuki; Ibuki Kawamata; Kohei Mizuno; Satoshi Murata

  Angewandte Chemie (International ed. in English), 06 Apr. 2020, Peer-reviewed, Corresponding author

  
• Turing-completeness of asynchronous non-camouflage cellular automata

  Tatsuya Yamashita; Teijiro Isokawa; Ferdinand Peper; Ibuki Kawamata; Masami Hagiya

  Information and Computation, Mar. 2020, Peer-reviewed

  
• Design Automation of Polyomino Set That Self-Assembles into a Desired Shape

  Matsumura, Yuta; Kawamata, Ibuki; Murata, Satoshi

  26th International Conference on DNA Computing and Molecular Programming (DNA 26), 2020, Peer-reviewed

  
• DNA Origami "Quick" Refolding inside of a Micron-Sized Compartment

  Taiki Watanabe; Yusuke Sato; Hayato Otaka; Ibuki Kawamata; Satoshi Murata; Shin-Ichiro M. Nomura

  MOLECULES, Jan. 2020, Peer-reviewed

  
• Isothermal amplification of specific DNA molecules inside giant unilamellar vesicles

  Yusuke Sato; Ken Komiya; Ibuki Kawamata; Satoshi Murata; Shin-ichiro M. Nomura

  CHEMICAL COMMUNICATIONS, Aug. 2019, Peer-reviewed

  
• Pattern Formation on Discrete Gel Matrix Based on DNA Computing

  Hosoya Takuto; Kawamata Ibuki; Nomura Shin-ichiro M; Murata Satoshi

  NEW GENERATION COMPUTING, Jan. 2019, Peer-reviewed

  
• Diffusion modulation of DNA by toehold exchange

  Thanapop Rodjanapanyakul; Fumi Takabatake; Keita Abe; Ibuki Kawamata; Shinichiro M. Nomura; Satoshi Murata

  Physical Review E, 31 May 2018, Peer-reviewed

  
• Construction of T-Motif-Based DNA Nanostructures through Enzymatic Reactions.

  Ryo Kageyama; Ibuki Kawamata; Kaori Tanabe; Yuki Suzuki; Shin-Ichiro M Nomura; Satoshi Murata

  Chembiochem : a European journal of chemical biology, 16 Apr. 2018, Peer-reviewed

  
• Revolving Vernier Mechanism Controls Size of Linear Homomultimer

  Takeo Uchida; Keita Abe; Yuma Endo; Shosei Ichiseki; Satoru Akita; Shiyun Liu; Sho Aradachi; Masataka Saito; Akihiko Fukuchi; Taiyo Kikkawa; Theo Dammaretz; Ibuki Kawamata; Yuki Suzuki; Shin-ichiro M. Nomura; Satoshi Murata

  SMALL, Nov. 2017, Peer-reviewed, Corresponding author

  
• Stepping operation of a rotary DNA origami device

  Takahiro Tomaru; Yuki Suzuki; Ibuki Kawamata; Shin-ichiro M. Nomura; Satoshi Murata

  CHEMICAL COMMUNICATIONS, Jul. 2017, Peer-reviewed

  
• DNA cytoskeleton for stabilizing artificial cells

  Chikako Kurokawa; Kei Fujiwara; Masamune Morita; Ibuki Kawamata; Yui Kawagishi; Atsushi Sakai; Yoshihiro Murayama; Shin-ichiro M. Nomura; Satoshi Murata; Masahiro Takinoue; Miho Yanagisawa

  PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Jul. 2017, Peer-reviewed

  
• Discretization of Chemical Reactions in a Periodic Cellular Space

  Fumi Takabatake; Ibuki Kawamata; Ken Sugawara; Satoshi Murata

  NEW GENERATION COMPUTING, Jul. 2017, Peer-reviewed

  
• Unzipping and shearing DNA with electrophoresed nanoparticles in hydrogels

  Keitel Cervantes-Salguero; Ibuki Kawamata; Shin-ichiro M. Nomura; Satoshi Murata

  PHYSICAL CHEMISTRY CHEMICAL PHYSICS, Jun. 2017, Peer-reviewed

  
• Micrometer-sized molecular robot changes its shape in response to signal molecules

  Yusuke Sato; Yuichi Hiratsuka; Ibuki Kawamata; Satoshi Murata; Shin-ichiro M. Nomura

  SCIENCE ROBOTICS, Mar. 2017, Peer-reviewed

  
• Non natural tiny-wet machine: Molecular robot.

  Yusuke Sato; Yuichi Hiratsuka; Ibuki Kawamata; Satoshi Murata; Shin-ichiro M. Nomura

  International Symposium on Micro-NanoMechatronics and Human Science, MHS 2017, Nagoya, Japan, December 3-6, 2017, 2017, Peer-reviewed

  
• Evolutionary optimization of self-assembly in a swarm of bio-micro-robots.

  Nathanaël Aubert-Kato,Charles Fosseprez,Guillaume Gines; Ibuki Kawamata; Quang Huy Dinh; Leo Cazenille; Andre Estevez-Torres; Masami Hagiya; Yannick Rondelez; Nicolas Bredèche

  Proceedings of the Genetic and Evolutionary Computation Conference, GECCO 2017, Berlin, Germany, July 15-19, 2017, 2017, Peer-reviewed

  
• Turing-completeness of asynchronous non-camouflage cellular automata

  Tatsuya Yamashita; Teijiro Isokawa; Ferdinand Peper; Ibuki Kawamata; Masami Hagiya

  Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), 2017, Peer-reviewed

  
• How to Develop Students’ Creativity? ~A Case of Student Competition of Biomolecular Design

  Satoshi Murata; Ibuki Kawamata; Shin-ichiro M. Nomura

  Proceeding of IEEE-ICCSE2016, Aug. 2016, Peer-reviewed, Invited

  
• Reversible Gel-Sol Transition of a Photo-Responsive DNA Gel

  Daisuke Kandatsu; Keitel Cervantes-Salguero; Ibuki Kawamata; Shogo Hamada; Shin-ichiro M. Nomura; Kenzo Fujimoto; Satoshi Murata

  CHEMBIOCHEM, Jun. 2016, Peer-reviewed

  
• Supramolecular 1-D polymerization of DNA origami through a dynamic process at the 2-dimensionally confined air-water interface

  Yusuke Yonamine; Keitel Cervantes-Salguero; Kosuke Minami; Ibuki Kawamata; Waka Nakanishi; Jonathan P. Hill; Satoshi Murata; Katsuhiko Ariga

  PHYSICAL CHEMISTRY CHEMICAL PHYSICS, May 2016, Peer-reviewed

  
• Design Automation of Nucleic Acid Reaction System Simulated by Chemical Kinetics based on Graph Rewriting Model

  Ibuki Kawamata; Masami Hagiya

  Evolutionary Computation in Gene Regulatory Network Research, 05 Feb. 2016

  
• Universal Totalistic Asynchonous Cellular Automaton and Its Possible Implementation by DNA

  Teijiro Isokawa; Ferdinand Peper; Ibuki Kawamata; Nobuyuki Matsui; Satoshi Murata; Masami Hagiya

  UNCONVENTIONAL COMPUTATION AND NATURAL COMPUTATION, UCNC 2016, 2016, Peer-reviewed

  
• Discrete DNA Reaction-Diffusion Model for Implementing Simple Cellular Automaton

  Ibuki Kawamata; Satoru Yoshizawa; Fumi Takabatake; Ken Sugawara; Satoshi Murata

  UNCONVENTIONAL COMPUTATION AND NATURAL COMPUTATION, UCNC 2016, 2016, Peer-reviewed

  
• Pattern Formation and Computation by Autonomous Chemical Reaction Diffusion Model Inspired by Cellular Automata

  Ibuki Kawamata; Takuto Hosoya; Fumi Takabatake; Ken Sugawara; Shin-ichiro M. Nomura; Teijiro Isokawa; Ferdinand Peper; Masami Hagiya; Satoshi Murata

  2016 FOURTH INTERNATIONAL SYMPOSIUM ON COMPUTING AND NETWORKING (CANDAR), 2016, Peer-reviewed

  
• Yusuke Yonamine, Keitel Cervantes-Salguero, Waka Nakanishi, Ibuki Kawamata, Kosuke Minami, Hirokazu Komatsu, Satoshi Murata, Jonathan P. Hillab, Katsuhiko Ariga.

  Yusuke Yonamine; Keitel Cervantes-Salguero; Waka Nakanishi; Ibuki Kawamata; Kosuke Minami; Hirokazu Komatsu; Satoshi Murata; Jonathan; P. Hillab; Katsuhiko Ariga

  Physical Chemistry Chemical Physics, 2015, Peer-reviewed

  
• In situ 2D-extraction of DNA wheels by 3D through-solution transport

  Yusuke Yonamine; Keitel Cervantes-Salguero; Waka Nakanishi; Ibuki Kawamata; Kosuke Minami; Hirokazu Komatsu; Satoshi Murata; Jonathan P. Hill; Katsuhiko Ariga

  PHYSICAL CHEMISTRY CHEMICAL PHYSICS, 2015, Peer-reviewed

  
• On DNA-based gellular automata

  Masami Hagiya; Shaoyu Wang; Ibuki Kawamata; Satoshi Murata; Teijiro Isokawa; Ferdinand Peper; Katsunobu Imai

  Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), 2014, Peer-reviewed

  
• Abstraction of graph-based models of bio-molecular reaction systems for efficient simulation

  Ibuki Kawamata; Nathanael Aubert; Masahiro Hamano; Masami Hagiya

  Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), 2012, Peer-reviewed

  
• IT for synthetic biology and DNA nanotechnology.

  Masami Hagiya; Fumiaki Tanaka; Ibuki Kawamata

  ACM Crossroads, 2010, Peer-reviewed

  
• Automatic Design of DNA Logic Gates Based on Kinetic Simulation

  Ibuki Kawamata; Fumiaki Tanaka; Masami Hagiya

  DNA COMPUTING AND MOLECULAR PROGRAMMING, 2009, Peer-reviewed

  

Misc.

• 分子群ロボットの構築

  川又生吹; 角五彰

  ファルマシア, Apr. 2025

  
• フォーカストセッションFS05 分子ロボティクス研究会「動け、細胞/人工細胞フォーラム」

  多田隈尚史; 川又生吹; 佐藤佑介; 小宮健; 豊田太郎

  CBI学会誌, 2025

  
• Programming Pattern Formation by DNA Reaction-diffusion System with Designed Base Sequences

  Keita ABE; Satoshi MURATA; Ibuki KAWAMATA

  Seibutsu Butsuri, 2025

  
• 化学反応系によるリザバー計算 (解説)

  川又生吹; 龔逸鳴

  現代化学, 2024

  
• 研究最前線 "Autonomous assembly and disassembly of gliding molecular robots regulated by a DNA-based molecular controller"

  川又生吹

  分子サイバネティクスニュースレター,, 2024

  
• 口頭発表O04 『分子ロボティクス-1-』

  小宮健; 川又生吹; 多田隈尚史

  CBI学会誌, 2024

  
• 実験自動化による人工多細胞体の作製と観察への取り組みと今後の展望

  川又生吹; 清水 稜; Richard J. Archer; 野村 M. 慎一郎

  実験の自動化・自律化によるR&Dの効率化と運用方法, Dec. 2023

  
• DNA オリガミ法で作るナノ構造体

  川又 生吹

  化学とマイクロ・ナノシステム学会誌, Oct. 2023, Lead author, Last author, Corresponding author

  
• 口頭発表O7 『分子ロボティクス/レギュラトリサイエンス』

  川又生吹

  CBI学会誌, Dec. 2022, Lead author, Last author, Corresponding author

  
• 口頭発表O8 『創薬応用 (3)/分子ロボティクス』

  本間 光貴; 川又生吹

  CBI学会誌, Dec. 2022, Last author

  
• 第6回分子ロボティクス年次大会活動報告

  川又生吹

  学術変革領域（A) Molecular Cybernetics News Letter 分子サイバネティクスニュースレター, Dec. 2022, Lead author, Last author, Corresponding author

  
• Advancement of Computer-aided Design Software and Simulation tools for Nucleic acid Nanostructures and DNA Origami

  Ibuki Kawamata

  DNA Origami: Structures, Technology, and Applications, May 2022, Lead author, Last author, Corresponding author

  
• Development of Browser-Based Software for Intuitively Manipulating and Integrating DNA Nanostructures

  Ibuki Kawamata; Sho Aradachi; Satoshi Murata

  60th Annual Conference of the Society of Instrument and Control Engineers of Japan (SICE), Sep. 2021, Peer-reviewed, Lead author, Corresponding author

  
• 新刊情報 "DNA origami入門 基礎から学ぶDNAナノ構造体の設計技法"

  川又生吹

  Molecular Cybernetics News Letter, 2021

  
• 研究最前線 "Cascaded pattern formation in hydrogel medium using the polymerisation approach"

  川又生吹

  Molecular Cybernetics News Letter, 2021

  
• 口頭発表３ 「ADME・毒性 / バイオインフォマティックス / 分子ロボティクス / その他」

  夏目やよい; 川又生吹

  CBI学会誌, 2021

  
• <口頭発表3> 分子ロボティクス

  佐藤 佑介; 川又 生吹; 小宮 健

  CBI学会誌, Dec. 2020

  
• Programmable reactions and diffusion using DNA for pattern formation in hydrogel medium

  Keita Abe; Ibuki Kawamata; Shin Ichiro; M. Nomura; Satoshi Murata

  Molecular Systems Design and Engineering, 01 Jun. 2019

  
• マイクロ流路デバイスによるゲル微粒子の合成とゲルオートマトンへの応用

  西諒也; 川又生吹; 宮元展義

  高分子学会予稿集(CD-ROM), 29 Aug. 2018

  
• Size Controllable Linear Self-Assembly Module of DNA Origami

  LIU Shiyun; 安部桂太; 内田健央; 遠藤佑真; 秋田賢; 市堰翔成; 荒舘笙; 斎藤正崇; 吉川太陽; 福地成彦; 川又生吹; 野村M.慎一郎; 村田智

  形の科学シンポジウム講演予稿集(Web), Jun. 2018

  
• Pattern formation using DNA reaction diffusion system in hydrogel field

  安部桂太; 川又生吹; 鈴木勇輝; 野村M; 慎一郎; 村田智

  形の科学シンポジウム講演予稿集(Web), Jun. 2018

  
• Making pores on membrane using DNA origami: Design and function evaluation of .PHI.12 nm artificial channel

  岩渕祥璽; 片山航一郎; 川又生吹; 鈴木勇輝; 村田智; 野村M.慎一郎

  形の科学シンポジウム講演予稿集(Web), Jun. 2018

  
• Non natural tiny-wet machine: Molecular robot

  Sato Yusuke; Sato Yusuke; Hiratsuka Yuichi; Kawamata Ibuki; Murata Satoshi; Nomura M. Shin-Ichiro

  MHS 2017 - 28th 2017 International Symposium on Micro-NanoMechatronics and Human Science, 28 Feb. 2018

  
• 環境応答能を有するらせん状DNAオリガミナノ構造体の構築

  水野康平; 鈴木勇輝; 川又生吹; 野村慎一郎; 村田智

  自律分散システム・シンポジウム(CD-ROM), 28 Jan. 2018

  
• DNA反応拡散系によるゲル媒質中でのパターン形成

  安部桂太; 川又生吹; 鈴木勇輝; 野村M; 慎一郎; 村田智

  自律分散システム・シンポジウム(CD-ROM), 28 Jan. 2018

  
• Robustness of DNA Strand Displacement Systems (accepted)

  Takashi Nakakuki; Jun-ichi Imura; Ibuki Kawamata; Satoshi Murata

  5th IFAC Conference on Analysis and Control of Chaotic Systems, 2018

  
• 臨床検査は人工知能AIをどのように利用できるか 4.アメーバ型分子ロボットの可能性

  佐藤佑介; 佐藤佑介; 川又生吹; 野村M.慎一郎

  医療と検査機器・試薬, 10 Jun. 2017

  
• 【臨床検査は人工知能AIをどのように利用できるか】 アメーバ型分子ロボットの可能性

  佐藤 佑介; 川又 生吹; 野村 M. 慎一郎

  医療と検査機器・試薬, Jun. 2017

  
• 膜アンカー型温度応答性高分子が誘起する巨大リポソームの凝集と融合

  飛田航; 森本展之; 川又生吹; 村田智; 野村M.慎一郎

  高分子学会予稿集(CD-ROM), 15 May 2017

  
• 周期的状態遷移セルを持つ非同期セルオートマトンとその計算能力

  礒川悌次郎; PEPER Ferdinand; 川又生吹; 松井伸之; 村田智; 萩谷昌巳

  自律分散システム・シンポジウム(CD-ROM), 30 Jan. 2017

  
• ヘアピンDNA連鎖反応を用いたリポソームの凝集制御

  大瀧悠登; 川又生吹; 高畠芙弥; 野村M慎一郎; 村田智

  自律分散システム・シンポジウム(CD-ROM), 30 Jan. 2017

  
• DNAナノテクノロジー : 構造をつくり,計算し,ナノロボットを動かす(第6回)DNAナノ構造のためのソフトウェア

  川又 生吹

  現代化学 = Chemistry today, Sep. 2016

  
• A study on robustness of DNA strand displacement reactions

  Omagari T; Nakakuki T; Kawamata I; Murata S

  Proceedings of the Japan Joint Automatic Control Conference, 2016

  
• 21aPS-4 Reaction-Diffusion Model for Gel-Sol Transition of DNA-Crosslinked Polyacrylamide Hydrogels

  Takabatake F; Kawamata I; Sugawara K; Murata S

  Meeting Abstracts of the Physical Society of Japan, 2015

  
• Toward the Regulation of Molecular Machine Systems by Terahertz Waves : Control of Bio-nanonetworks Using Solitons

  平林 美樹; 川又 生吹; 萩谷 昌己

  計測自動制御学会論文集, Nov. 2013

  
• Analysis on THz Applications for DNA Nanomachines

  M. Hirabayashi; I. Kawamata; M. Hagiya; H. Kojima; K. Oiwa

  2013 38TH INTERNATIONAL CONFERENCE ON INFRARED, MILLIMETER, AND TERAHERTZ WAVES (IRMMW-THZ), 2013

  
• Toward the Regulation of Molecular Machine Systems by Terahertz Waves:—Control of Bio-nanonetworks Using Solitons—

  HIRABAYASHI Miki; KAWAMATA Ibuki; HAGIYA Masami; KOJIMA Hiroaki; OIWA Kazuhiro

  Transactions of the Society of Instrument and Control Engineers, 2013

  
• 26aXZC-3 Verification of modularization algorithms for integrated design of biomolecular machines

  Hirabayashi Miki; Kawamata Ibuki; Hagiya Masami; Kojima Hiroaki; Oiwa Kazuhiro

  Meeting Abstracts of the Physical Society of Japan, 2013

  
• In Silico Design Control of the Trade-Off Balance in Robustness and Fragility of Logical Circuits Using DNA Nanostructures

  Miki Hirabayashi; Ibuki Kawamata; Masami Hagiya; Hiroaki Kojima; Kazuhiro Oiwa

  2012 12TH IEEE CONFERENCE ON NANOTECHNOLOGY (IEEE-NANO), 2012

  
• Abstraction of DNA Graph Structures for Efficient Enumeration and Simulation

  Ibuki Kawamata; Fumiaki Tanaka; Masami Hagiya

  研究報告数理モデル化と問題解決（MPS）, 11 Jul. 2011

  
• DNA Sensors, DNA Actuators, and DNA Robots

  KAWAMATA Ibuki; HIRABAYASHI Miki; NISHIKAWA Akio

  Journal of the Robotics Society of Japan, 15 Dec. 2010

  
• Towards a controllable 3D DNA nanostructure

  Fumiaki Tanaka; Akio Nishikawa; Ibuki Kawamata; Masami Hagiya

  7th Annual Conference on Foundations of Nanoscience: Self-Assembled Architectures and Devices, FNANO 2010, 01 Dec. 2010

  

Books and Other Publications

• DNA origami入門: 基礎から学ぶDNAナノ構造の設計技法

  川又生吹; 鈴木勇輝; 村田智, Joint work, 全13章中11章

  May 2021

  
• 分子ロボティクス概論 : 分子のデザインでシステムをつくる

  分子ロボティクス研究会; 村田, 智

  CBI学会, 2019

  Find Kyoto University's collection of books :

  
• DNA分子デザインのすべて : BIOMOD虎の巻

  分子ロボティクス研究会

  情報計算化学生物学会, 2016

  Find Kyoto University's collection of books :

  

Awards

• 17 Jun. 2010

  ISNSCE Award(International Meeting on DNA Computing and Molecular Programming)
• 28 Oct. 2018

  Grand Prize(BIOMOD)
• 22 Nov. 2017

  1st place for Grid Graph Widest Improvement ranking(The Order/Degree Problem Co)
• 31 Oct. 2013

  Excellent Poster Award(情報計算化学生物学会)
• 15 Mar. 2016

  若手奨励賞(新学術領域分子ロボティクス領域会議)
• 14 May 2023

  Lab on a Chip outstanding research award(一般社団法人 化学とマイクロ・ナノシス)
• 05 Nov. 2023

  Grand Prize(BIOMOD)
• 27 Oct. 2019

  3rd place for Grand Prize(BIOMOD)
• 02 Nov. 2009

  Gold medal(iGEM)
• 04 Nov. 2012

  Gold for Project Award(BIOMOD)
• 03 Nov. 2013

  3rd place for Grand Prize(BIOMOD)
• 02 Nov. 2014

  3rd place for Grand Prize(BIOMOD)
• 01 Nov. 2015

  Grand Prize(BIOMOD)
• 30 Oct. 2016

  2nd place of Grand Prize(BIOMOD)

External funds: Kakenhi

• 分子シミュレーションと実験自動化による大規模DNA構造体設計手法の開発

  Grant-in-Aid for Scientific Research (C)

  Basic Section 62010:Life, health and medical informatics-related

  Tohoku University

  川又 生吹

  From 01 Apr. 2022, To 31 Mar. 2026, Granted

  DNAナノテクノロジー;DNAオリガミ;DNAタイル;組み合わせ最適化;配列設計;分子ロボティクス;トラス型構造体

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-22K12255/
• Molecular swarm robotics: Verifying working ability of molecular robots and their implementation in social contexts

  Grant-in-Aid for Scientific Research (A)

  Medium-sized Section 13:Condensed matter physics and related fields

  Kyoto University;Hokkaido University

  角五 彰

  From 05 Apr. 2021, To 31 Mar. 2024, Granted

  分子群ロボット;アクティブマター;集団運動;分子ロボット;群ロボット;DNAコンピューター;リザバーコンピューティング

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-21H04434/
• Development of Molecular Memory / Molecular Learning Circuits for Minimal Artificial Brain

  Grant-in-Aid for Transformative Research Areas (A)

  Transformative Research Areas, Section (IV)

  Kyushu Institute of Technology

  中茎 隆

  From 19 Nov. 2020, To 31 Mar. 2025, Granted

  DNAコンピューティング;分子コンピューティング;記憶と学習;可塑性

  https://kaken.nii.ac.jp/grant/KAKENHI-PLANNED-20H05971/
• New development of spatio-temporal molecular programming

  Grant-in-Aid for Scientific Research (A)

  Medium-sized Section 62:Applied informatics and related fields

  Tohoku University

  村田 智

  From 01 Apr. 2020, To 31 Mar. 2025, Granted

  空間分子プログラミング;DNAコンピューティング;反応拡散系;マテリアライゼーション;時空間分子プログラミング;ＤＮＡコンピューティング

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-20H00618/
• Optimization of molecular robot swarms for the emergence of collective behaviors

  Fund for the Promotion of Joint International Research (Fostering Joint International Research (B))

  Medium-sized Section 62:Applied informatics and related fields

  Ochanomizu University

  オベル加藤 ナタナエル

  From 07 Oct. 2019, To 31 Mar. 2024, Granted

  Molecular Robotics;Collective Behaviors;Swarm;Microfluidics;Reaction-Diffusion;Quality-Diversity;Evolutionary Algorithm

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-19KK0261/
• Development of Artificial Membrane System by DNA Membrane Motif

  Grant-in-Aid for Challenging Research (Exploratory)

  Medium-sized Section 62:Applied informatics and related fields

  Tohoku University

  Satoshi Murata

  From 29 Jun. 2018, To 31 Mar. 2020, Project Closed

  DNA分子膜;人工細胞;分子ロボティクス;DNA膜;DNAモチーフ;人工膜

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-18K19830/
• Development of novel platform to rationally design DNA origami

  Grant-in-Aid for Early-Career Scientists

  Basic Section 62010:Life, health and medical informatics-related

  Tohoku University

  Ibuki Kawamata

  From 01 Apr. 2018, To 31 Mar. 2021, Project Closed

  DNAオリガミ;DNAナノテクノロジー;DNAコンピュータ;データベース;設計ソフトウェア;分子ロボティクス;分子サイバネティクス;DNA超分子

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-18K18144/
• A study on molecular robotics blood glucose level control method with NOD mice

  Grant-in-Aid for Scientific Research (A)

  Tokyo Institute of Technology

  Akihiko KONAGAYA

  From 01 Apr. 2017, To 31 Mar. 2020, Project Closed

  分子ロボティクス;DNAコンピュータ;糖尿病

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-17H00769/
• Construction of Control System for Behavior Programming of Molecular Robots

  Grant-in-Aid for Scientific Research (A)

  Tohoku University

  Satoshi Murata

  From 01 Apr. 2015, To 31 Mar. 2019, Project Closed

  分子ロボット;DNAコンピューティング;シーケンス制御;レギュレータ;DNAコンピュータ;分子ロボティクス

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-15H01715/
• Design and implementation of programmable reaction diffusion system using nucleic acids

  Grant-in-Aid for Research Activity Start-up

  Tohoku University

  Ibuki Kawamata

  From 29 Aug. 2014, To 31 Mar. 2016, Project Closed

  DNAコンピュータ;分子プログラミング;反応拡散系;パターン形成;ゲルオートマトン;DNAコンピューティング;分子計算;セルオートマトン;分子ロボティクス

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-26880002/
• Motion generation based on cooperation of structured gel and chemical reaction field

  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)

  Science and Engineering

  The University of Tokyo

  Masami Hagiya

  From 28 Jun. 2012, To 31 Mar. 2017, Project Closed

  分子ロボティクス;分子コンピューティング;知能ロボティクス;ゲルアクチュエータ;ゲル反応拡散場;ゲルオートマトン;ナノマシン;ナノバイオ;ナオ材料;ソフトコンピューティング;ナノ材料

  https://kaken.nii.ac.jp/grant/KAKENHI-PLANNED-24104005/
• Development of molecular robotics based on DNA nanoengineering

  Grant-in-Aid for Scientific Research (S)

  Tohoku University

  Satoshi MURATA

  From 01 Apr. 2010, To 31 Mar. 2015, Project Closed

  分子ロボティクス;DNAナノエンジニアリング;DNAナノ構造;機能性ゲル;自律分散システム;分子デバイス;分散・協調;コンパートメント;自己集合;人工光クロスリンク;DNAオリガミ;リポソーム;インターフェース

  https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-22220001/

Education

Teaching subject(s)

• From 01 Apr. 2024, To 31 Mar. 2025

  Special study course II(Physical Science) Q8

  5217, Year-long, Faculty of Science, 12
• From 01 Apr. 2024, To 31 Mar. 2025

  Frontiers of Physics

  3250, Fall, Faculty of Science, 1
• From 01 Apr. 2024, To 31 Mar. 2025

  Computational Methods in Physics 1

  2236, Fall, Faculty of Science, 2
• From 01 Apr. 2024, To 31 Mar. 2025

  Laboratory Work in Physics B8

  8281, Fall, Faculty of Science, 5
• From 01 Apr. 2024, To 31 Mar. 2025

  Laboratory Work in Physics B8

  8280, Spring, Faculty of Science, 5
• From 01 Apr. 2024, To 31 Mar. 2025

  Seminar on Dissipative & Biological Physics B

  2028, Fall, Graduate School of Science, 2
• From 01 Apr. 2024, To 31 Mar. 2025

  Seminar on Dissipative & Biological Physics A

  2027, Spring, Graduate School of Science, 2
• From 01 Apr. 2024, To 31 Mar. 2025

  Advanced Experimental Physics III-1

  2209, Spring, Graduate School of Science, 2
• From 01 Apr. 2024, To 31 Mar. 2025

  Seminar on Dissipative & Biological Physics D

  2030, Fall, Graduate School of Science, 2
• From 01 Apr. 2024, To 31 Mar. 2025

  Seminar on Dissipative & Biological Physics C

  2029, Spring, Graduate School of Science, 2
• From 01 Apr. 2024, To 31 Mar. 2025

  Advanced Experimental Physics III-2

  2210, Spring, Graduate School of Science, 2

Academic, Social Contribution

Committee Memberships

• From Jan. 2025, To Dec. 2026

  Editor, New Generation Computing
• To Nov. 2025

  実行委員, 第13回ソフトマター研究会
• To Oct. 2025

  プログラム委員, CBI学会2025年大会
• To Sep. 2025

  シンポジウムオーガナイザー, 第63回日本生物物理学会年会 シンポジウム「生物物理からのアクティブマターへのアプローチ」
• To Sep. 2025

  世話人, 第14回分子モーター討論会
• To Mar. 2025

  実行委員, 第8回分子ロボティクス年次大会
• To Nov. 2024

  Committee of Domestic Meeting, BIOMOD 2024
• To Oct. 2024

  プログラム委員, CBI学会2024年大会
• From Jul. 2024, To Sep. 2024

  実行委員, 分子ロボティクス夏の学校2024
• To Sep. 2024

  Program Committee, the 30th International Conference on DNA Computing and Molecular Programming
• From Jun. 2024

  代議員, 分子ロボティクス研究会
• To Mar. 2024

  ウェブ担当, 第7回分子ロボティクス年次大会
• From Mar. 2024

  Workshop Organizer, Utilization of DNA nanotechnology
• From Nov. 2023

  Steering Committee (Accounting), BIOMOD 2023
• From Nov. 2023

  モデレーター, CBI学会2023年フォーカストセッションFS07「分子ロボティクス研究会」
• To Oct. 2023

  プログラム委員, CBI学会2023年大会
• From Sep. 2023

  Program Committee, the 29th International Conference on DNA Computing and Molecular Programming (DNA29)
• From Sep. 2023

  Local Organization Committee, the 29th International Conference on DNA Computing and Molecular Programming (DNA29)
• From Sep. 2023

  主催, DNAナノ構造体のモデル化および可視化のためのソフトウェア講習
• From Jun. 2023, To Aug. 2023

  実行委員, 分子ロボティクス夏の学校2023
• From 2023

  幹事（ウェブ担当）, 分子ロボティクス研究会
• From Jan. 2022, To Dec. 2022

  プログラム委員, CBI学会2022年大会
• From Jan. 2022, To Dec. 2022

  主査, 知能分子ロボティクス調査研究会
• From May 2022, To Nov. 2022

  大会実行委員長, 第6回分子ロボティクス年次大会
• From Nov. 2019, To Oct. 2022

  評議員, 「細胞を創る」研究会
• From Apr. 2022, To Sep. 2022

  実行委員, 分子ロボティクス夏の学校2022
• From Apr. 2022, To Sep. 2022

  運営チーム、チームEメンター, BIOMOD Japan Open 2021
• From Jan. 2021, To Dec. 2021

  副主査, 知能分子ロボティクス調査研究会
• From Jan. 2021, To Dec. 2021

  プログラム委員, CBI学会2021年大会
• From Jan. 2021, To Dec. 2021

  Special Issue Editor, Nano and Micro Scale Fabrication for Molecular Cybernetics and Molecular Robotics
• From Aug. 2021, To Nov. 2021

  Committee, Team D mentor, BIOMOD Japan Open 2021
• From Jun. 2021, To Nov. 2021

  プログラム委員, 第5回分子ロボティクス年次大会
• From Jun. 2021, To Aug. 2021

  実行委員, 分子ロボティクス夏の学校2021
• From Jan. 2020, To Dec. 2020

  プログラム委員, 第4回分子ロボティクス年次大会
• From Jan. 2020, To Dec. 2020

  プログラム委員, CBI学会2020年大会
• From May 2020, To Sep. 2020

  Committee, super mentor, BIOMOD Japan Open 2020
• From Jan. 2019, To Dec. 2019

  プログラム委員, CBI学会2019年大会
• From Nov. 2018, To Oct. 2019

  プログラム委員長, 「細胞を創る」研究会12.0,
• From Nov. 2017, To Oct. 2018

  大会運営事務局長, 「細胞を創る」研究会11.0