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2010 Fiscal Year Final Research Report

Mathematical Study of Pattern Formation and Information in Biological Systems

Research Project

  • PDF
Project/Area Number 19340023
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field General mathematics (including Probability theory/Statistical mathematics)
Research InstitutionHiroshima University

Principal Investigator

KOBAYASHI Ryo  Hiroshima University, 大学院・理学研究科, 教授 (60153657)

Co-Investigator(Kenkyū-buntansha) NAKAGAKI Toshiyuki  はこだて未来大学, システム情報工学部, 教授 (70300887)
MIURA Takashi  京都大学, 大学院・医学研究科, 准教授 (10324617)
Project Period (FY) 2007 – 2010
Keywords真正粘菌変形体 / スタイナー問題 / ネットワーク / フェーズフィールド / 卵割 / アメーバ運動 / 数理モデル
Research Abstract

We demonstrated experimentally that the plasmodium of Physarum polycephalum can promote formation of networks equivalent to the transportation network such as railroad system. We presented a new method of network design by constructing mathematical models. Also, we proposed models which describe how information works in the determining process of the geometry of early cleavage and in the formation of branching structure such as lung and blood vessel. We developed mathematical methods that can describe the mechanism combining biological pattern formation and information.

  • Research Products

    (76 results)

All 2011 2010 2009 2008 2007 Other

All Journal Article (23 results) (of which Peer Reviewed: 18 results) Presentation (48 results) Book (3 results) Remarks (2 results)

  • [Journal Article] Construction of seld-organized transportation networks in the polydomous Argentine ant, Journal of The Royal Society2011

    • Author(s)
      T.Latty, K.Pamsch, K.Ito, M.Middendorf, 中垣俊之, M.Beekman
    • Journal Title

      Interface doi:10.1098/rsif.

      Pages: 0612

    • DOI

      10.1098/rsif.2010.0612

    • Peer Reviewed
  • [Journal Article] Mathematical model for contemplative amoeboid locomotion2011

    • Author(s)
      K.Ueda, S.Takagi, Y.Nishiura, 中垣俊之
    • Journal Title

      Physical Review E 83

      Pages: 02191

    • Peer Reviewed
  • [Journal Article] A Mathematical Model Of Cleavage2010

    • Author(s)
      M.Akiyama, A.Tero, 小林亮
    • Journal Title

      J.Theor.Biol. 264(1)

      Pages: 84-94

    • Peer Reviewed
  • [Journal Article] Risk management in spatio-temporally varying field by true slime mold2010

    • Author(s)
      K.Ito, D.Sumpter, 中垣俊之
    • Journal Title

      Nonlinear Theory and Its Applications, IEICE Vol.1

      Pages: 26-36

    • Peer Reviewed
  • [Journal Article] Mathematical analysis to coupled oscillators system with a conservation law2010

    • Author(s)
      T.Miyaji, I.Ohnishi, 小林亮, A.Takamatsu
    • Journal Title

      RIMS Kokyuroku Bessatsu B21

      Pages: 129-147

    • Peer Reviewed
  • [Journal Article] フェーズフィールド法のおもしろさ2010

    • Author(s)
      小林亮
    • Journal Title

      計算工学 15(2)

      Pages: 2287-2290

  • [Journal Article] Fully decentralized control of a soft-bodied robot inspired by true slime mold2010

    • Author(s)
      T.Umedachi, K.Takeda, 中垣俊之, 小林亮, A.Ishiguro
    • Journal Title

      Biol.Cybern. 102

      Pages: 261-269

    • Peer Reviewed
  • [Journal Article] A method inspired by Physarum for solving the Steiner problem2010

    • Author(s)
      A.Tero, 中垣俊之, T.Kazutaka, Y.Kenji, 小林亮
    • Journal Title

      International Journal of Unconventional Computing 6

      Pages: 109-123

    • Peer Reviewed
  • [Journal Article] Rules for biologically-inspired adaptive network design2010

    • Author(s)
      A.Tero, S.Takagi, T.Saigusa, K.Ito, D.P.Bebber, M.D.Fricker, K.Yumiki, 小林亮, 中垣俊之
    • Journal Title

      Science 327

      Pages: 439-442

    • Peer Reviewed
  • [Journal Article] Reaction-Diffusion model as a Framework for Understanding Biological Pattern Formation2010

    • Author(s)
      S.Kondo, 三浦岳
    • Journal Title

      Science 329

      Pages: 1616-1620

    • Peer Reviewed
  • [Journal Article] 反応拡散系の生物のパターン形成現象への応用2010

    • Author(s)
      三浦岳, 長山雅晴
    • Journal Title

      蛋白質核酸酵素 55(1)

      Pages: 114-122

  • [Journal Article] Mechanism of skull suture maintenance and interdigitation2009

    • Author(s)
      三浦岳, C.A.Perlyn, M.Kinboshi, N.Ogihara, M.Kobayashi-Miura G.M.Morriss-Kay, K.Shiota
    • Journal Title

      J.Anat. 215

      Pages: 642-655

    • Peer Reviewed
  • [Journal Article] In vitro vasculogenesis models revisited - Measurement of VEGF's diffusion in Matrigel.2009

    • Author(s)
      三浦岳, R.Tanaka
    • Journal Title

      Mathematical Modelling of Natural Phenomena 4(4)

      Pages: 118-130

    • Peer Reviewed
  • [Journal Article] Computational ability of cells based on dynamics and adaptability2009

    • Author(s)
      中垣俊之, A.Tero, 小林亮, I.Onishi, T.Miyaji
    • Journal Title

      New Generation Computing, Ohmsha-Springer 27(1)

      Pages: 57-81

  • [Journal Article] The cyst-branch difference in developing chick lung results from a different morphogen diffusion coefficient2009

    • Author(s)
      三浦岳, D.Hartman, M.Kinboshi, M.Komada, M.Ishibashi, K.Shiota
    • Journal Title

      Mechanisms of Development 126

      Pages: 160-172

    • Peer Reviewed
  • [Journal Article] Flow-network adaptation in Physarum amoebae2008

    • Author(s)
      A.Tero, K.Yumiki, 小林亮, T.Saigusa, 中垣俊之
    • Journal Title

      Theory In Biosciences 127

      Pages: 89-94

    • Peer Reviewed
  • [Journal Article] Hedgehog signaling is involved in development of the neocortex2008

    • Author(s)
      M.Komada, H.Saitsu, M.Kinboshi, 三浦岳, K.Ishibashi, K.Shiota
    • Journal Title

      Development 135

      Pages: 2717-2727

    • Peer Reviewed
  • [Journal Article] A mathematical model for adaptive transport network in path finding by the true slime mold2007

    • Author(s)
      A.Tero, 小林亮, 中垣俊之
    • Journal Title

      J.Theor.Biol. 244

      Pages: 553-564

    • Peer Reviewed
  • [Journal Article] Effects of food amount on path selection in transport network of an amoeboid organism2007

    • Author(s)
      中垣俊之, T.Saigusa, A.Tero, 小林亮
    • Journal Title

      Topological Aspects of Critical Systems and Networks, World Scientific

      Pages: 94-100

    • Peer Reviewed
  • [Journal Article] Minimum-risk path finding by an adaptive amoebal network2007

    • Author(s)
      中垣俊之, M.Iima, T.Ueda, Y.Nishiura,T.Saigusa, A.Tero, 小林亮, K.Showalter
    • Journal Title

      Phys.Rev.Lett. 99

      Pages: 068104

    • Peer Reviewed
  • [Journal Article] アメーバに学ぶ経路探索の方法2007

    • Author(s)
      手老篤史、中垣俊之、小林亮
    • Journal Title

      Materials Integration 20(5)

      Pages: 55-60

  • [Journal Article] 粘菌による迷路の解法2007

    • Author(s)
      小林亮、手老篤史、中垣俊之
    • Journal Title

      細胞工学 26(7)

      Pages: 769-773

  • [Journal Article] Mechanism of lung branching morphogenesis, Biological and Physical Constraints on the Evolution of Form in Plants and Animals

    • Author(s)
      三浦岳
    • Journal Title

      Vienna series in Theoretical biology in press

    • Peer Reviewed
  • [Presentation] Toward Understanding the Locomotion of Animals2011

    • Author(s)
      小林亮
    • Organizer
      International Workshop on Far-From-Equilibrium Dynamics
    • Place of Presentation
      Kyoto
    • Year and Date
      2011-01-04
  • [Presentation] Mathematical Modeling of Crawling Animals2010

    • Author(s)
      小林亮
    • Organizer
      9th iCeMS International Symposium "Mesoscale Control and Engineering of Self-Organized and Excitable Systems in Biology and Chemistry"
    • Place of Presentation
      Kyoto
    • Year and Date
      2010-12-03
  • [Presentation] Ethology of an amoeba-physiology and mathematical modeling2010

    • Author(s)
      中垣俊之
    • Organizer
      Lecture in GCOE program Industrial Mathematics, Meiji University
    • Place of Presentation
      Tokyo
    • Year and Date
      2010-10-25
  • [Presentation] Mechanisim of lung branching morphogenesis2010

    • Author(s)
      三浦岳
    • Organizer
      34^<th> Altenberg Workshop in Theoretical Biology
    • Place of Presentation
      Vienna, Austria
    • Year and Date
      2010-09-26
  • [Presentation] Mathematical Modeling of the Locomotion of Amoeba2010

    • Author(s)
      小林亮
    • Organizer
      Czech-Japan Seminar in Applied Mathematics
    • Place of Presentation
      Prague, Telc, Czech
    • Year and Date
      2010-08-31
  • [Presentation] Mathematical Modeling for Pattern Formation in Nature2010

    • Author(s)
      小林亮
    • Organizer
      ISSCG-14
    • Place of Presentation
      Dalian, China
    • Year and Date
      2010-08-04
  • [Presentation] 真正粘菌の知性-細胞のエソロジカルダイナミクス-2010

    • Author(s)
      小林亮、中垣俊之、手老篤史
    • Organizer
      理研ASI細胞システムコロキウムシリーズI「理論生物学」
    • Place of Presentation
      和光市
    • Year and Date
      2010-06-04
  • [Presentation] Ethological Dynamics of True Slime Mold2010

    • Author(s)
      中垣俊之、小林亮
    • Organizer
      理研ASI細胞システムコロキウムシリーズI「理論生物学」
    • Place of Presentation
      和光市
    • Year and Date
      2010-06-04
  • [Presentation] Mechamism of lung branching morphogenesis2010

    • Author(s)
      三浦岳
    • Organizer
      日本生理学会みちのくシンポジウム
    • Place of Presentation
      盛岡
    • Year and Date
      2010-05-19
  • [Presentation] Ethology of plasmodial amoeba of slime mold in relation to the capacity of information processing in cell2010

    • Author(s)
      中垣俊之
    • Organizer
      2^<nd> GCOE International Symposium of Animal Global Health. Special lecture
    • Place of Presentation
      Obihiro University of Agriculture and Veterinary Medicine
    • Year and Date
      2010-04-04
  • [Presentation] Ethology of amoeba viewed from nonlinear dynamics2010

    • Author(s)
      中垣俊之
    • Organizer
      La 13e Rencontre du Non-lineaire, nstitut Henri Poincare
    • Place of Presentation
      France
    • Year and Date
      2010-03-15
  • [Presentation] 血管網形成の数理モデル2009

    • Author(s)
      小林亮
    • Organizer
      京都大学再生医科学研究所平成21年度学術講演会
    • Place of Presentation
      京都大学
    • Year and Date
      2009-12-14
  • [Presentation] 自発的パターン形成における拡散と領域成長の役割:培養系での形態制御の可能性2009

    • Author(s)
      三浦岳
    • Organizer
      日本バイオマテリアル学会
    • Place of Presentation
      京都
    • Year and Date
      2009-11-17
  • [Presentation] フェーズフィールドモデルのおもしろさ2009

    • Author(s)
      小林亮
    • Organizer
      日本機械学会第22回計算力学講演会
    • Place of Presentation
      金沢大学
    • Year and Date
      2009-10-10
  • [Presentation] Modeling Lung Branching Morphogenesis", EMBO Conference Series on Morphogenesis and Dynamics of Multicellular Systems2009

    • Author(s)
      三浦岳
    • Organizer
      EMBO Conference Series on Morphogenesis and Dynamics of Multicellular Systems
    • Place of Presentation
      Heidelberg, Germany
    • Year and Date
      2009-10-03
  • [Presentation] Negotiating multi-purpose optimization problem by means of the adaptive method inspired by a single celled organism Physarum2009

    • Author(s)
      A.Tero, M.Yamaguchi, 小林亮, 中垣俊之
    • Organizer
      4th International Workshop on Natural Computing
    • Place of Presentation
      Himeji
    • Year and Date
      2009-09-23
  • [Presentation] 真性粘菌変形体から探る自律分散制御のからくりと大自由度ロボット制御への応用2009

    • Author(s)
      石黒章夫、梅舘拓也、武田光一、中垣俊之、小林亮
    • Organizer
      第19回日本数理生物学会
    • Place of Presentation
      東京大学
    • Year and Date
      2009-09-10
  • [Presentation] 卵割の数理モデル2009

    • Author(s)
      秋山正和、手老篤史、小林亮
    • Organizer
      第19回日本数理生物学会
    • Place of Presentation
      東京大学
    • Year and Date
      2009-09-10
  • [Presentation] A Mathematical Model of Amoeboid Locomotion2009

    • Author(s)
      小林亮
    • Organizer
      Reaction-Diffusion Systems : Modeling and Analysis, Universite de Paris-Sud 11
    • Place of Presentation
      Orsay, France
    • Year and Date
      2009-06-04
  • [Presentation] Biologistics learned from adaptable transport network of food locations in slime mold2009

    • Author(s)
      中垣俊之, 小林亮, A.Tero
    • Organizer
      The 2nd Ladenburger Kolleg meeting on "From Bio-inspired Logistics to Logistics-Inspired Bio-Nano-Engineering"
    • Place of Presentation
      Berlin, Germany
    • Year and Date
      2009-04-20
  • [Presentation] A Mathematical Model of Amoeboid Locomotion2009

    • Author(s)
      小林亮
    • Organizer
      International Conference for Nonlinear Science, Sapporo Winter School
    • Place of Presentation
      Hokkaido University
    • Year and Date
      2009-02-10
  • [Presentation] アメーバ運動の数理モデル2009

    • Author(s)
      小林亮
    • Organizer
      生命数理セミナー研究会
    • Place of Presentation
      北海道虻田郡
    • Year and Date
      2009-01-19
  • [Presentation] アメーバ運動の数理モデル2008

    • Author(s)
      小林亮
    • Organizer
      第46回日本生物物理学会年会
    • Place of Presentation
      福岡国際会議場
    • Year and Date
      2008-12-03
  • [Presentation] アメーバ運動の数理モデル2008

    • Author(s)
      小林亮
    • Organizer
      日本機械学会第21回計算力学講演会CMD2008
    • Place of Presentation
      琉球大学
    • Year and Date
      2008-11-02
  • [Presentation] A Mathematical Model of Amoeboid Locomotion2008

    • Author(s)
      小林亮
    • Organizer
      Mathematical Understanding of Complex Systems arising in Biology and Medicine
    • Place of Presentation
      Meiji University
    • Year and Date
      2008-10-28
  • [Presentation] A Mathematical Model of Amoeboid Locomotion2008

    • Author(s)
      小林亮
    • Organizer
      第18回日本数理生物学会大会
    • Place of Presentation
      京都
    • Year and Date
      2008-09-17
  • [Presentation] A Mathematical Model of Amoeboid Locomotion2008

    • Author(s)
      小林亮
    • Organizer
      Dynamics Days Asia Pacific 5
    • Place of Presentation
      Nara
    • Year and Date
      2008-09-11
  • [Presentation] Patterns and Computations in BiologicalSystems-True Slime Mold-2008

    • Author(s)
      小林亮, A.Tero, 中垣俊之
    • Organizer
      Czech-Japanese Seminar in Applied Mathematics 2008
    • Place of Presentation
      Takachiho, Miyazaki
    • Year and Date
      2008-09-02
  • [Presentation] A Mathematical Model of Locomoting Amoeba2008

    • Author(s)
      小林亮
    • Organizer
      The Second China-Japan Colloquium of Mathematical Biology
    • Place of Presentation
      Okayama
    • Year and Date
      2008-08-05
  • [Presentation] Organic Computing by an amoeba : Optimization in natural systems2008

    • Author(s)
      中垣俊之, A.Tero, 小林亮, D.Sumpter, M.Beekman, M.Middendorf
    • Organizer
      The 9th Human frontier science program awardee meeting, Berlin Brandenburg Academy of Sciences and Humanities
    • Place of Presentation
      Germany
    • Year and Date
      2008-07-24
  • [Presentation] A Mathematical Model of Locomoting Amoeba2008

    • Author(s)
      小林亮
    • Organizer
      European Conference on Mathematical and Theoretical Biology
    • Place of Presentation
      Edinburgh, UK
    • Year and Date
      2008-07-03
  • [Presentation] A Mathematical Model of Amoeboid Locomotion2008

    • Author(s)
      小林亮
    • Organizer
      Gordon Research Conference on Mathematical Biology and Biomathematics
    • Place of Presentation
      Barga, Italy
    • Year and Date
      2008-06-22
  • [Presentation] アメーバの賢さのしくみと制御2008

    • Author(s)
      中垣俊之、手老篤史、三枝徹、小林亮
    • Organizer
      第52回システム制御情報学会研究発表会
    • Place of Presentation
      京都情報大学院大学京都駅前校
    • Year and Date
      2008-05-17
  • [Presentation] Information processing at cell level -smart behaviors in an amoeba of Physarum-2008

    • Author(s)
      中垣俊之, A.Tero, 三枝徹, 小林亮
    • Organizer
      Korean Physical Society Meeting
    • Place of Presentation
      Dejeon, Korea
    • Year and Date
      2008-04-08
  • [Presentation] Functional networking by an amoeba2008

    • Author(s)
      中垣俊之, A.Tero, 三枝徹, 小林亮
    • Organizer
      NSC Winter Workshop 2008 : Complex Nonlinear Dynamics ranging from Biology to Engineering
    • Place of Presentation
      Hokkaido Univrsity
    • Year and Date
      2008-03-08
  • [Presentation] 粘菌ネットワークの流量適応ダイナミクス2007

    • Author(s)
      中垣俊之、手老篤史、小林亮
    • Organizer
      第13回交通流のシミュレーションシンポジウム
    • Place of Presentation
      名古屋大学
    • Year and Date
      2007-12-07
  • [Presentation] A Biologically Motivated Shortest Path Finding Problem2007

    • Author(s)
      小林亮、弓木健嗣、手老篤史、中垣俊之
    • Organizer
      数理解析研究所研究集会
    • Place of Presentation
      京都
    • Year and Date
      2007-11-15
  • [Presentation] 生物の賢さを生み出す情報処理のしくみーアメーバの事例からー2007

    • Author(s)
      中垣俊之、手老篤史、三枝徹、小林亮
    • Organizer
      北海道大学創成科学シンポジウム
    • Place of Presentation
      北海道大学
    • Year and Date
      2007-11-02
  • [Presentation] Dynamical Synchronization in True Slime Mold-Maze Solving Amoeba-2007

    • Author(s)
      小林亮, A.Tero, 中垣俊之
    • Organizer
      The 23rd Symposium of the Society of Population Ecology "Spatial Structure and Dynamics of Ecological System"
    • Place of Presentation
      Sapporo
    • Year and Date
      2007-10-19
  • [Presentation] 細胞行動のダイナミクスに学ぶ自律分散制御2007

    • Author(s)
      中垣俊之、高木清二、手老篤史、三枝徹、小林亮
    • Organizer
      第一回SICE生物制御システム調査研究会
    • Place of Presentation
      早稲田大学
    • Year and Date
      2007-10-18
  • [Presentation] Optimization in an amoeboid system -Networking multiple food-locations-2007

    • Author(s)
      中垣俊之, S.Takagi, 三枝徹, A.Tero, 小林亮
    • Organizer
      European Conference on Complex Systems
    • Place of Presentation
      Dresden, Germany
    • Year and Date
      2007-10-04
  • [Presentation] A Biologically Motivated Shortest Path Finding Algorithm2007

    • Author(s)
      小林亮, A.Tero, 中垣俊之, K.Yumiki
    • Organizer
      The Workshop on Mathematical Modelling and Analysis of Biological Pattern Formations and the Related Topics
    • Place of Presentation
      Nagoya
    • Year and Date
      2007-09-25
  • [Presentation] A Biologically Motivated Shortest Path Finding Algorithm2007

    • Author(s)
      小林亮, A.Tero, 中垣俊之
    • Organizer
      Mathematical Modeling and Analysis in Biological and Chemical Systems
    • Place of Presentation
      Orsay, France
    • Year and Date
      2007-09-04
  • [Presentation] Physarum solver :アメーバに学ぶ計算法-基礎と応用-2007

    • Author(s)
      中垣俊之、三枝徹、手老篤史、小林亮
    • Organizer
      第13回創発システムシンポジウム-相互作用を考える-
    • Place of Presentation
      富山市
    • Year and Date
      2007-08-17
  • [Presentation] Sovling network problem by amoeba : dynamics and computation2007

    • Author(s)
      中垣俊之, A.Tero, 小林亮, 三枝徹
    • Organizer
      Conference on Unconventional Computiong
    • Place of Presentation
      Bristol, UK
    • Year and Date
      2007-07-12
  • [Presentation] アメーバ様生物粘菌の賢さとその自律分散的しくみ2007

    • Author(s)
      中垣俊之、手老篤史、小林亮
    • Organizer
      計測自動制御学会システム・情報部会主催第40回自律分散システム部会研究会
    • Place of Presentation
      北海道大学
    • Year and Date
      2007-06-26
  • [Presentation] Modeling of the adaptive network of true slime mold2007

    • Author(s)
      A.Tero, 小林亮, 中垣俊之, 三枝徹
    • Organizer
      SIAM Conference on Applications of Dynamical Systems
    • Place of Presentation
      Snowbird, Saltlake City, USA
    • Year and Date
      2007-05-29
  • [Presentation] 計算するアメーバ-真正粘菌変形体-2007

    • Author(s)
      小林亮
    • Organizer
      京都算楽会第3回研究会
    • Place of Presentation
      由布市
    • Year and Date
      2007-05-13
  • [Book] 理論生物学(分担執筆)(真正粘菌の運動と知性)2011

    • Author(s)
      小林亮, 中垣俊之
    • Total Pages
      176-200
    • Publisher
      共立出版
  • [Book] PHPサイエンスワールド新書(粘菌?その驚くべき知性?)2010

    • Author(s)
      中垣俊之
    • Total Pages
      198
    • Publisher
      PHP研究所
  • [Book] 「空間」の数理生物学(分担執筆)(フェーズフィールドモデル、シリーズ数理生物学要論巻2)2009

    • Author(s)
      小林亮
    • Total Pages
      167-180
    • Publisher
      共立出版
  • [Remarks] ホームページ等

    • URL

      http://www.kobayashi-lab.jp/kobayashi/intro.html

  • [Remarks]

    • URL

      http://www.fun.ac.jp/staff/staff_comp/nakagakitoshiyuki.html

URL: 

Published: 2012-01-26   Modified: 2023-03-16  

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