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Molecular computers for molecular robots as hybrid systems

Masami Hagiya, Nathanael Aubert-Kato, Shaoyu Wang, Satoshi Kobayashi
2016 Theoretical Computer Science  
For modeling and designing hybrid systems, formal frameworks, such as hybrid automata, are commonly used.  ...  We then show the possibility of combining existing frameworks of DNA computing to implement a sample hybrid controller for a molecular robot.  ...  Acknowledgements This research is supported by Grant-in-Aid for Scientific Research on Innovative Areas "Molecular Robotic" (No. 24104003 and No. 24104005) of The Ministry of Education, Culture, Sports  ... 
doi:10.1016/j.tcs.2015.11.002 fatcat:eq5ovwhwi5ewtb4dfxukv6iixe

Molecular Robotics: A New Paradigm for Artifacts

Satoshi Murata, Akihiko Konagaya, Satoshi Kobayashi, Hirohide Saito, Masami Hagiya
2013 New generation computing  
The rapid progress of molecular nanotechnology has opened the door to molecular robotics, which uses molecules as robot components.  ...  In order to promote this new paradigm, the Molecular Robotics Research Group 28  ...  Acknowledgements This paper is based on the discussions held in the Molecular Robotics Research Group, SICE. We appreciate all the participants to the discussions. We are also thankful to Prof.  ... 
doi:10.1007/s00354-012-0121-z fatcat:vm3abi5ylrd5tmj3ohsmqjiw2y

1P122 Selective adhesion of single-stranded DNA binding protein to DNA-SWNT hybrids(05A.Nucleic acid: Structure & Property,Poster,The 51st Annual Meeting of the Biophysical Society of Japan)
1P122 一本鎖DNA結合蛋白質のDNA-SWNT複合体への選択的な吸着(05A.核酸:構造・物性,ポスター,日本生物物理学会年会第51回(2013年度))

Daisuke Nii, Takuya Hayashida, Kazuo Umemura
2013 Seibutsu Butsuri  
Here, we propose an autonomously self-assembled RNA molecular robot as an integrated system of molecular computers and nanostructures.  ...  In this system, RNA transcription starts by light stimulation as input information, and the RNA molecules autonomously self-assembles into an RNA molecular robot body.  ...  Here, we propose an autonomously self-assembled RNA molecular robot as an integrated system of molecular computers and nanostructures.  ... 
doi:10.2142/biophys.53.s126_1 fatcat:i7s47chtwfgn5krq65bbnqmmyi

3SAA-06 Gel-based molecular robots and their computational models(Development of Molecular Robots equipped with Sensors and Intelligence,Symposium,The 52th Annual Meeting of the Biophysical Society of Japan(BSJ2014))
3SAA-06 ゲルに基づく分子ロボットとその計算モデル(感覚と運動および知能を備えた分子ロボットの創成,新学術領域研究「感覚と知能を備えた分子ロボットの創成」共催,シンポジウム,第52回日本生物物理学会年会(2014年度))

Masami Hagiya
2014 Seibutsu Butsuri  
Nucleic acid strands that can autonomously hybridize based on Watson-Crick complementarity are promising materials for construction of chemical reaction systems to perform computation.  ...  Integration of advanced molecular sensing systems and molecular control systems is a remaining issue in our future work. 3SAA-06 ゲルに基づく分子ロボットとその計算モデル Gel-based molecular robots and their computational  ...  Nucleic acid strands that can autonomously hybridize based on Watson-Crick complementarity are promising materials for construction of chemical reaction systems to perform computation.  ... 
doi:10.2142/biophys.54.s136_4 fatcat:huethbcp3za7fmnt4wrwrdbame

3SAA-05 Perspectives and objectives of amoeba-type molecular robots(Development of Molecular Robots equipped with Sensors and Intelligence,Symposium,The 52th Annual Meeting of the Biophysical Society of Japan(BSJ2014))
3SAA-05 アメーバ型分子ロボットの課題と展望(感覚と運動および知能を備えた分子ロボットの創成,新学術領域研究「感覚と知能を備えた分子ロボットの創成」共催,シンポジウム,第52回日本生物物理学会年会(2014年度))

Akihiko Konagaya
2014 Seibutsu Butsuri  
Nucleic acid strands that can autonomously hybridize based on Watson-Crick complementarity are promising materials for construction of chemical reaction systems to perform computation.  ...  Integration of advanced molecular sensing systems and molecular control systems is a remaining issue in our future work. 3SAA-06 ゲルに基づく分子ロボットとその計算モデル Gel-based molecular robots and their computational  ...  Nucleic acid strands that can autonomously hybridize based on Watson-Crick complementarity are promising materials for construction of chemical reaction systems to perform computation.  ... 
doi:10.2142/biophys.54.s136_3 fatcat:g4smwcofvfdppfxxrcsfyxri4e

3SAA-04 Implementation of in vitro intelligence for real-time operation of molecular robots(Development of Molecular Robots equipped with Sensors and Intelligence,Symposium,The 52th Annual Meeting of the Biophysical Society of Japan(BSJ2014))
3SAA-04 分子ロボットのリアルタイムな動作を目指した試験管内での知能の実装(感覚と運動および知能を備えた分子ロボットの創成,新学術領域研究「感覚と知能を備えた分子ロボットの創成」共催,シンポジウム,第52回日本生物物理学会年会(2014年度))

Ken Komiya
2014 Seibutsu Butsuri  
Nucleic acid strands that can autonomously hybridize based on Watson-Crick complementarity are promising materials for construction of chemical reaction systems to perform computation.  ...  Integration of advanced molecular sensing systems and molecular control systems is a remaining issue in our future work. 3SAA-06 ゲルに基づく分子ロボットとその計算モデル Gel-based molecular robots and their computational  ...  Nucleic acid strands that can autonomously hybridize based on Watson-Crick complementarity are promising materials for construction of chemical reaction systems to perform computation.  ... 
doi:10.2142/biophys.54.s136_2 fatcat:2wxb7mdugbfrbfc6f2lwl5ksoa

3SBA-01 Toward design of molecular motors(Rise of molecular machines,Symposium,The 52th Annual Meeting of the Biophysical Society of Japan(BSJ2014))
3SBA-01 Toward design of molecular motors(分子機械デザイン,シンポジウム,第52回日本生物物理学会年会(2014年度))

Koga Nobuyasu
2014 Seibutsu Butsuri  
Nucleic acid strands that can autonomously hybridize based on Watson-Crick complementarity are promising materials for construction of chemical reaction systems to perform computation.  ...  Integration of advanced molecular sensing systems and molecular control systems is a remaining issue in our future work. 3SAA-06 ゲルに基づく分子ロボットとその計算モデル Gel-based molecular robots and their computational  ...  Nucleic acid strands that can autonomously hybridize based on Watson-Crick complementarity are promising materials for construction of chemical reaction systems to perform computation.  ... 
doi:10.2142/biophys.54.s136_5 fatcat:ucenzskldrgnxmznqywoyp7tkq

1P127 Zero-dipole summation method for evaluating electrostatic interaction in molecular simulation of biomolecular system(06.Electronic state,Poster,The 51st Annual Meeting of the Biophysical Society of Japan)

Ikuo Fukuda, Narutoshi Kamiya, Haruki Nakamura
2013 Seibutsu Butsuri  
Here, we propose an autonomously self-assembled RNA molecular robot as an integrated system of molecular computers and nanostructures.  ...  In this system, RNA transcription starts by light stimulation as input information, and the RNA molecules autonomously self-assembles into an RNA molecular robot body.  ...  Here, we propose an autonomously self-assembled RNA molecular robot as an integrated system of molecular computers and nanostructures.  ... 
doi:10.2142/biophys.53.s126_6 fatcat:eb7ln7dporfk5kvwmwzwogtnwm

1P123 Defining fundamental steps in the assembly of Drosophila RNAi enzyme complex by TIRF microscopy(05A.Nucleic acid: Structure & Property,Poster,The 51st Annual Meeting of the Biophysical Society of Japan)
1P123 全反射蛍光顕微鏡によるショウジョウバエRNAi酵素複合体形成の基本過程の解明(05A.核酸:構造・物性,ポスター,日本生物物理学会年会第51回(2013年度))

Hiroshi M. Sasaki, Shintaro Iwasaki, Yuriko Sakaguchi, Tsutomu Suzuki, Hisashi Tadakuma, Yukihide Tomari
2013 Seibutsu Butsuri  
Here, we propose an autonomously self-assembled RNA molecular robot as an integrated system of molecular computers and nanostructures.  ...  In this system, RNA transcription starts by light stimulation as input information, and the RNA molecules autonomously self-assembles into an RNA molecular robot body.  ...  Here, we propose an autonomously self-assembled RNA molecular robot as an integrated system of molecular computers and nanostructures.  ... 
doi:10.2142/biophys.53.s126_2 fatcat:5mt3jy7uyrcerjcedjjte2dsua

1P126 A theoretical study on the fluorescent spectrum of enhanced green fluorescent protein(06.Electronic state,Poster,The 51st Annual Meeting of the Biophysical Society of Japan)
1P126 緑色蛍光タンパク質の蛍光スペクトルに関する理論的研究(06.電子状態,ポスター,日本生物物理学会年会第51回(2013年度))

Yoshihiro Uchida, Masahiro Higashi, Shigehiko Hayashi
2013 Seibutsu Butsuri  
Here, we propose an autonomously self-assembled RNA molecular robot as an integrated system of molecular computers and nanostructures.  ...  In this system, RNA transcription starts by light stimulation as input information, and the RNA molecules autonomously self-assembles into an RNA molecular robot body.  ...  Here, we propose an autonomously self-assembled RNA molecular robot as an integrated system of molecular computers and nanostructures.  ... 
doi:10.2142/biophys.53.s126_5 fatcat:mzzlwq3wkvcpxgd2pxazyct2ta

1P125 Tertiary structure prediction of Protein-RNA complexes(05A.Nucleic acid: Structure & Property,Poster,The 51st Annual Meeting of the Biophysical Society of Japan)
1P125 蛋白質-RNAの複合体立体構造予測(05A.核酸:構造・物性,ポスター,日本生物物理学会年会第51回(2013年度))

Tomoshi Kameda, Junichi Iwakiri, Michiaki Hamada, Kiyoshi Asai
2013 Seibutsu Butsuri  
Here, we propose an autonomously self-assembled RNA molecular robot as an integrated system of molecular computers and nanostructures.  ...  In this system, RNA transcription starts by light stimulation as input information, and the RNA molecules autonomously self-assembles into an RNA molecular robot body.  ...  Here, we propose an autonomously self-assembled RNA molecular robot as an integrated system of molecular computers and nanostructures.  ... 
doi:10.2142/biophys.53.s126_4 fatcat:ou3vcctbibfprl2nn2eic5jlgm

1SBA-01 Control of micro-sized nonequilibrium system for the construction of dynamic artificial cells and molecular robots based on microfluidics(1SBA The Exploration of the design principle of biomolecular robots based on biophysics,Symposium,The 51th Annual Meeting of the Biophysical Society of Japan)
1SBA-01 動的人工細胞・分子ロボットの作製のための微小非平衡場の制御(1SBA 新学術領域「感覚と知能を備えた分子ロボットの創成」共催,生物物理学による生体分子ロボットの設計原理の探求,シンポジウム,日本生物物理学会第51回年会(2013年度))

Masahiro Takinoue
2013 Seibutsu Butsuri  
robots Koh-ichiroh Shohda, In the molecular robotics project, a planned molecular robot which is based on a liposome or a gel as a body consists of molecular sensors, molecular computers, and molecular  ...  In this presentation, I show two technologies for the construction of dynamic artificial cells and molecular robots: (i) a micro-sized nonequilibrium reaction system for an artificial cell; (ii) generation  ...  is based on a liposome or a gel as a body consists of molecular sensors, molecular computers, and molecular actuators.  ... 
doi:10.2142/biophys.53.s83_2 fatcat:axanxi34f5bq3f6qmrl6dye3oi

1SBA-04 A development of molecular sensor that delivers environmental information to inside of liposome-based molecular robots(1SBA The Exploration of the design principle of biomolecular robots based on biophysics,Symposium,The 51th Annual Meeting of the Biophysical Society of Japan)
1SBA-04 外部環境情報をリポソーム基盤分子ロボットの内部に伝達する分子センサーの開発(1SBA 新学術領域「感覚と知能を備えた分子ロボットの創成」共催,生物物理学による生体分子ロボットの設計原理の探求,シンポジウム,日本生物物理学会第51回年会(2013年度))

Koh-ichiroh Shohda, Akira Suyama
2013 Seibutsu Butsuri  
robots Koh-ichiroh Shohda, In the molecular robotics project, a planned molecular robot which is based on a liposome or a gel as a body consists of molecular sensors, molecular computers, and molecular  ...  In this presentation, I show two technologies for the construction of dynamic artificial cells and molecular robots: (i) a micro-sized nonequilibrium reaction system for an artificial cell; (ii) generation  ...  is based on a liposome or a gel as a body consists of molecular sensors, molecular computers, and molecular actuators.  ... 
doi:10.2142/biophys.53.s83_5 fatcat:x7miktozkfb2lcsswqidt3woke

1SBA-02 Molecular robotics approach for constructing an artificial cell model(1SBA The Exploration of the design principle of biomolecular robots based on biophysics,Symposium,The 51th Annual Meeting of the Biophysical Society of Japan)
1SBA-02 分子ロボティクス指向による人工細胞構築(1SBA 新学術領域「感覚と知能を備えた分子ロボットの創成」共催,生物物理学による生体分子ロボットの設計原理の探求,シンポジウム,日本生物物理学会第51回年会(2013年度))

M. Shin-ichiro Nomura, Kei Fujiwara
2013 Seibutsu Butsuri  
robots Koh-ichiroh Shohda, In the molecular robotics project, a planned molecular robot which is based on a liposome or a gel as a body consists of molecular sensors, molecular computers, and molecular  ...  In this presentation, I show two technologies for the construction of dynamic artificial cells and molecular robots: (i) a micro-sized nonequilibrium reaction system for an artificial cell; (ii) generation  ...  is based on a liposome or a gel as a body consists of molecular sensors, molecular computers, and molecular actuators.  ... 
doi:10.2142/biophys.53.s83_3 fatcat:ot3ij7ilrfhinn7anzdkp72dem

1SBA-05 Construction of motile artificial cell model using actomyosin and cell-sized giant liposome(1SBA The Exploration of the design principle of biomolecular robots based on biophysics,Symposium,The 51th Annual Meeting of the Biophysical Society of Japan)
1SBA-05 アクチン線維とミオシン、細胞サイズの膜小胞を利用した分子アメーバ構築の試み(1SBA 新学術領域「感覚と知能を備えた分子ロボットの創成」共催,生物物理学による生体分子ロボットの設計原理の探求,シンポジウム,日本生物物理学会第51回年会(2013年度))

Kingo Takiguchi, Masahito Hayashi
2013 Seibutsu Butsuri  
robots Koh-ichiroh Shohda, In the molecular robotics project, a planned molecular robot which is based on a liposome or a gel as a body consists of molecular sensors, molecular computers, and molecular  ...  In this presentation, I show two technologies for the construction of dynamic artificial cells and molecular robots: (i) a micro-sized nonequilibrium reaction system for an artificial cell; (ii) generation  ...  is based on a liposome or a gel as a body consists of molecular sensors, molecular computers, and molecular actuators.  ... 
doi:10.2142/biophys.53.s83_6 fatcat:btd4im6w6jg2vkte4kj3gsgudm
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