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A realization of Aqueous Computing by using Droplet Microfluidic Devices and Molecular Reinforcement Learning.

Research Project

Project/Area Number 14380157
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Intelligent informatics
Research InstitutionTOKYO INSTITUTE OF TECHNOLOGY

Principal Investigator

YAMAMURA Masayuki  Tokyo Institute of Technology, Department of Computational Intelligence and Systems Science, Interdisciplinary Graduate School of Science and Engineering, Professor, 大学院・総合理工学研究科, 教授 (00220442)

Co-Investigator(Kenkyū-buntansha) FUJII Teruo  University of Tokyo, Institute of Industrial Science, Associate professor, 生産技術研究所, 助教授 (30251474)
YAMAMOTO Takatoki  University of Tokyo, Institute of Industrial Science, Assistant, 生産技術研究所, 助手 (20322688)
Project Period (FY) 2002 – 2004
Project Status Completed (Fiscal Year 2004)
Budget Amount *help
¥16,900,000 (Direct Cost: ¥16,900,000)
Fiscal Year 2004: ¥3,300,000 (Direct Cost: ¥3,300,000)
Fiscal Year 2003: ¥5,700,000 (Direct Cost: ¥5,700,000)
Fiscal Year 2002: ¥7,900,000 (Direct Cost: ¥7,900,000)
KeywordsDNA Computing / Molecular Memory / Reinforcement Learning / Droplet / Microfluidic Device / Aqueous Computing / NP-complete / PNA / マイクロリアクター / パプチド核酸 / 電気泳動 / アクエリアスコンピューティング
Research Abstract

DNA computing has three issues to lead to breakthrough ; (a)achievement of a general purpose framework, (b)improvement of experimentally operational protocols, and (c)killer applications. The purpose of this research is to solve these issues by using droplet micro-fluidic devices ; (a)realizes a general purpose computational scheme ‘Aqueous computing', (b)automates its experimental protocols, and (c)proposes an algorithm for molecular reinforcement learning as a candidate of killer applications. As the result of research, we achieved to realize a micro-fluidic device to write PNAs replacing into DNA molecular memory by high efficiency, and also proposed an algorithm for a part of molecular reinforcement learning with LAMP method.

Report

(4 results)
  • 2004 Annual Research Report   Final Research Report Summary
  • 2003 Annual Research Report
  • 2002 Annual Research Report
  • Research Products

    (39 results)

All 2005 2004 2003 2002 Other

All Journal Article (28 results) Publications (11 results)

  • [Journal Article] A design for cellular evolutionary computation by using bacteria.2005

    • Author(s)
      Kenichi Wakabayashi, Masayuki Yamamura
    • Journal Title

      Natural Computing(Rozenberg and Spaink H.P.(eds))

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] 分子強化学習の実現に関する研究2005

    • Author(s)
      新野賢央, 山村雅幸
    • Journal Title

      計測自動制御学会 第32回知能システムシンポジウム資料集

      Pages: 333-338

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Annual Research Report 2004 Final Research Report Summary
  • [Journal Article] アクエアスコンピューティングのスケールアップ2005

    • Author(s)
      山村雅幸, 清尾康志, 藤本健造
    • Journal Title

      計測自動制御学会 第32回知能システムシンポジウム資料集

      Pages: 339-344

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Annual Research Report 2004 Final Research Report Summary
  • [Journal Article] A Bilological Realization of Molecular Reinforcement Learning2005

    • Author(s)
      Shinno K, Yamamura M.
    • Journal Title

      Proc.SICE 32nd Intelligent Systems Symposium(in Japanese)

      Pages: 333-338

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Towards Scaling up Aqueous Computing2005

    • Author(s)
      Yamamura M., Seio K., Fujimoto K.
    • Journal Title

      Proc.SICE 32nd Intelligent Systems Symposium(in Japanese)

      Pages: 339-344

    • NAID

      10015797111

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] A design for cellular evolutionary computation by using bacteria.2005

    • Author(s)
      Kenichi Wakabayashi, Masayuki Yamamura
    • Journal Title

      Natural Computing(Rozenberg, Spaink H.P.(eds))

    • Related Report
      2004 Annual Research Report
  • [Journal Article] An implementation of Molecule Reinforcement Learning.2004

    • Author(s)
      Shinno K., Yamamura M.
    • Journal Title

      Preliminary Proceedings of 10^<th> International meeting on DNA based computers(DNA10)

      Pages: 432-432

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] An Experimental Analysis of Loop-Free Algorithms for Scale-free Networks.2004

    • Author(s)
      Shigeo DOI, Masayuki YAMAMURA
    • Journal Title

      Proc.4th International Workshop on Ant Colony Optimization and Swarm Intelligence (ANTS2004), Lecture Notes in Computer Science 3172

      Pages: 278-285

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] AntNet and Relative Pheromone Evaporation.2004

    • Author(s)
      Shigeo DOI, Masayuki YAMAMURA
    • Journal Title

      Proc.IEEE 4th International Conference on Intelligent Systems, Design and Applications(ISDA2004)

      Pages: 473-778

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] An implementation of Molecule Reinforcement Learning2004

    • Author(s)
      Shinno K., Yamamura M.
    • Journal Title

      Preliminary Proceedings of 10th International meeting on DNA based computers (DNA10)

      Pages: 432-432

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] A Microfhudic Device of Write-in and Read-out Operations of a Molecular Memory2004

    • Author(s)
      K.mogi S.Kaneda, K.Ono, T.Fukuba, T.Fujii
    • Journal Title

      TAS2004 Malmo, Sweden

      Pages: 569-571

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] An implementation of Molecule Reinforcement Learning.2004

    • Author(s)
      Shinono K., Yamamura M.
    • Journal Title

      Preliminary Proceedings of 10^<th> International meeting on DNA based computers(DNA10)

      Pages: 432-432

    • Related Report
      2004 Annual Research Report
  • [Journal Article] An Experimental Analysis of Loop-Free Algorithms for Scale-free Networks.2004

    • Author(s)
      Shigeo DOI, Masayuki YAMAMURA
    • Journal Title

      Proc. 4th International Workshop on Ant Colony Optimization and Swarm Intelligence (ANTS2004), Lecture Notes in Computer Science 3172

      Pages: 278-285

    • Related Report
      2004 Annual Research Report
  • [Journal Article] AntNet and Relative Pheromone Evaporation.2004

    • Author(s)
      Shigeo DOI, Masayuki YAMAMURA
    • Journal Title

      Proc. IEEE 4th International Conference on Intelligent Systems, Design and Applications (ISDA2004)

      Pages: 473-778

    • Related Report
      2004 Annual Research Report
  • [Journal Article] a Realization of DNA Molecular Memory by using PAGE2003

    • Author(s)
      Yusuke Hiroto, Masayuki Yamamura
    • Journal Title

      Proc.SICE 30^<th> Intelligent Systems Symposium(in Japanese)

      Pages: 109-114

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Multi-task Reinforcement Learning on a Set of MDPs2003

    • Author(s)
      Fumihide Tanaka, Masayuki Yamamura
    • Journal Title

      J.IEEJ(in Japanese) Vol.123, No.5

      Pages: 1004-1011

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Multitask Reinforcement Learning with Value Statistics2003

    • Author(s)
      Fumihide Tanaka, Masayuki Yamamura
    • Journal Title

      Proc.SICE SSI2003

      Pages: 285-290

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Exploiting Value Statistics for Similar Continuing Tasks2003

    • Author(s)
      Fumihide Tanaka, Masayuki Yamamura
    • Journal Title

      12th IEEE Workshop Robot and Human Interactive Communication (ROMAN 2003), San Francisco, November

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Multitask Reinforcement Learning on the Distribution of MDPs2003

    • Author(s)
      Fumihide Tanaka, Masayuki Yamamura
    • Journal Title

      Proc.IEEE International Conference in Robotics and Automation (CIRA2003)

    • NAID

      130000089294

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Combining Droplet-Based Liquid Handling and On-Chip Capillary Electrophoresis With a New Sample Injection Method2003

    • Author(s)
      S.Kaneda, T.Fujii
    • Journal Title

      Proc.mTAS 2003(Squaw Valley, California, USA)

      Pages: 1279-1282

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Small Volume Droplet-Based Liquid Handling Device for DNA Identification and Quantification by Electrophoretic Separation2003

    • Author(s)
      S.Kaneda, K.Ono, T.Yamamoto, Teruo Fujii
    • Journal Title

      Proc.Nanotech(Montreux, Lausanne, Switzerland)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] New Trends for Micro Biochemistry Systems2003

    • Author(s)
      S.Kaneda, K.Ono, T.Fujii
    • Journal Title

      Proc.SICE 9^<th> Emergent Systems Symposium(in Japanese)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Surface Technology for Micro Biochemistry Systems2003

    • Author(s)
      S.Kaneda, T.Fujii
    • Journal Title

      Surface Technology(in Japanese) 54

      Pages: 319-314

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Another Realization of Aqueous Computing with Peptide Nucleic Acid2002

    • Author(s)
      Masayuki Yamamura.Yusuke Hiroto, Taku Matoba
    • Journal Title

      DNA Based Computers, 7^<th> International Meeting on DNA Based Computers (DNA7), Lecture Notes in Computer Science(N.Seeman, N.Jonorska eds.)(Springer-Verlag) (to appear)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Aqueous Computing-a Realization of Parallelly Processed Memories with Biomolecules-2002

    • Author(s)
      Masayuki Yamamura
    • Journal Title

      J.IEEJ(in Japanese) Vol.122, No.3

      Pages: 156-159

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] PDMS-Glass Hybrid Microreactor array with Embedded Temperature Control Device.2002

    • Author(s)
      Yamamoto.T., Nojima, T., Fujii, T.
    • Journal Title

      Application to Cell-Free Protein Synthesis, Lab on a Chip Vol.2, No.4

      Pages: 197-202

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] Hybrid Micro Reactor for Cell Free Protein Synthesis2002

    • Author(s)
      Yamamoto.T., Fujii, T.
    • Journal Title

      Proc.BPSJ 40^<th> Congress(in Japanese) 3R1430

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Journal Article] PDMS Nanostructures for Biomolecules Analysis2002

    • Author(s)
      Leclerc, E., Yamamoto.T., Fujii, T.
    • Journal Title

      Proceedings of the 6th International Conference on Miniaturized Chemical and Biochemical Analysis Systems (□TAS 2002), Nara JAPAN

      Pages: 775-777

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2004 Final Research Report Summary
  • [Publications] 田中文英, 山村雅幸: "MDP集団の上におけるマルチタスク強化学習"電気学会 電子・情報・システム部門誌. 123・5. 1004-1011 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] 田中文英, 山村雅幸: "Multitask Reinforcement Learning with Value Statistics"計測自動制御学会 システム・情報部門学術講演会2003(SSI2003). 285-290 (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] F.Tanaka, M.Yamamura: "Exploiting Value Statistics for Similar Continuing Tasks"Proceedings of 12^<th> IEEE Workshop on Robot and Human Interactive Communication (RO-MAN 2003). (CD-ROM). (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] F.Tanaka, M.Yamamura: "Multitask Reinforcement Learning on the Distribution of MDPs"Proceedings of 15^<th> IEEE International Conference on Tools with Artificial Intelligence (IJCTAI 2003). (CD-ROM). (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] S.kaneda, K.Ono, T.Yamamoto, T.Fujii: "Small Volume Droplet-Based Liquid Handling Device for DNA Identification and Quantification by Electrophoretic Separation"Proceedings of Nanotech 2003. (CD-ROM). (2003)

    • Related Report
      2003 Annual Research Report
  • [Publications] Masayuki Yamamura, Yusuke Hiroto, Taku Matoba: "Another Realization of Aqueous Computing with Peptide Nucleic Acid"7^<th> International Meeting on DNA Based Computers (DNA7), Lecture Notes in Computer Science. (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] 山村 雅幸: "アクエアスコンピューティング-生体分子による並列メモリの実現"電気学会誌. Vol.122,No.3. 156-159 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] 広戸裕介, 山村雅幸: "PAGEを利用したDNA分子メモリの実装"計測自動制御学会第30回知能システムシンポジウム資料. 109-114 (2003)

    • Related Report
      2002 Annual Research Report
  • [Publications] Yamamoto, T., Nojima, T., Fujii, T.: "PDMS-Glass Hybrid Microreactor array with Embedded Temperature Control Device.Application to Cell-Free Protein Synthesis""Lab on a Chip. Vol.2,No.4. 197-202 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] 山本貴富喜, 藤井輝夫: "細胞外タンパク質合成用ハイブリッドマイクロリアクター"日本生物物理学会第40回年会講演予稿集. 3R1430 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] Leclerc, E., Yamamoto, T., Fujii, T: "PDMS Nanostructures for Biomolecules Analysis"Proceedings of the 6th International Conference on Miniaturized Chemical and Biochemical Analysis Systems (μTAS 2002). 775-777 (2002)

    • Related Report
      2002 Annual Research Report

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Published: 2002-04-01   Modified: 2016-04-21  

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