"分子ロボティクス研究会: 浅沼浩之,遠藤政幸,葛谷明紀,小宮健,小長谷明彦,萩谷昌己,藤本健造,松浦和則,ほか全３０名","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",,"分子ロボティクス概論 ?分子のデザインでシステムをつくる","情報計算化学生物学会（CBI学会）出版",,,,2019,May
"Atsuko Sato,Hitomi Yuki,Chiduru Watanabe,Jun-ichi Saito,Akihiko Konagaya,Teruki Honma","Prediction of the site of CYP3A4 metabolism of tolterodine by  molecular dynamics simulation from multiple initial structures of the  CYP3A4-tolterodine complex",,"Chem-Bio Informatics Journal",,"Vol. 17",,"p. 38-52",2017,May
"Konishi, F.,Konagaya, A.","The Architectural Design of High-Throughput BLAST Services on OBIGrid",,"Heidelberg, Germany",,,,"pp. 32-42",2017,Apr.
"Akihiko Konagaya,Greg Gutmann,Akira Kakugo,Daisuke Inoue","Parallel Interaction Detection Algorithms for a Particle-based Live Controlled Real-time Microtubule Gliding Simulation System Accelerated by GPGPUInter.",,"J. of New Generation Computing (NGC)",,,,,2017,Mar.
"Fukuzaki, A.,Nagashima, T.,Ide, K.,Konishi, F.,Hatakeyama, M.,Yokoyama, S.,Kuramitsu, S.,Konagaya, A.","Genome-wide functional annotation environment for Thermus thermophilus in OBIGrid","Grid Computing in Life Science (LSGRID2004)","LNBI Springer",,,,"pp. 82-91",2017,
"小長谷明彦","特集「AI創薬の可能性について」の企画にあたって",,"日本化学会情報化学部会誌","公益社団法人 日本化学会・情報化学部会","Vol. 35","No. 2","pp. 156",2017,
"渡邊 健太,小長谷明彦","セマンティックウェブを活用した 医薬文書理解支援システムの構築",,"日本化学会情報化学部会誌","公益社団法人 日本化学会・情報化学部会","Vol. 35","No. 2","pp. 180",2017,
"石川 智久,湯田 浩太郎,多田 幸雄,Akihiko Konagaya","医薬農薬化学の開拓者・藤田稔夫先生を偲んで",,"ＣＢＩジャーナル","情報計算化学生物学会(CBI学会)","Vol. 17",,"pp. 110-111",2017,
"Kabir,A.Md.R.,Ito, M.,Uenishi, K.,Anan, S.,Akihiko Konagaya,Sada, K.,Sugiura, M.,Kakugo, A.","A photoregulated ATP generation system for in vitro motility assay",,"Chemistry Letters",,"Vol. 46","No. 2","pp. 178-180",2017,
"Asami, S.,Kiga, D.,Akihiko Konagaya","Constraint-based perturbation analysis with cluster Newton method: A case study of personalized parameter estimations with irinotecan whole-body physiologically based pharmacokinetic model",,"BMC Systems Biology",,"Vol. 11",,,2017,
"Saito, A.,Farhana, T.I.,Kabir,A.Md.R.,Inoue, D.,Akihiko Konagaya,Sada, K.,Kakugo, A.","Understanding the emergence of collective motion of microtubules driven by kinesins: role of concentration of microtubules and depletion force",,"RSC Advances",,"Vol. 7","No. 22","pp. 13191-13197",2017,
"Takahiro Nitta,Arif Md. Rashedul Kabir,Kazuki Sada,Jian Ping Gong,Akihiko Konagaya,Akira Kakugo","Sensing surface mechanical deformation using active probes driven by motor proteins",,"Nature Communications",,,,,2016,Oct.
"?Philippe Gaudreau,Ken Hayami,Y. Aoki,Hassan Safouhi,Akihiko Konagaya","Improvements to the cluster Newton method for underdetermined inverse problems",,"Journal of Computational and Applied Mathematics",,"Vol. 283",,"pp. 122?141",2016,Aug.
"Akihiko Konagaya","Development of an Amoeba-Type Molecular Robot with Sensors and Intelligence","the IEEE Ann. Int. Conf. on Nano/Micro Engineerd and Molecular Systems (NEMS)",,,,,,2016,Apr.
"Greg Gutmann,Daisuke Inoue,Akira Kakugo,Akihiko Konagaya","Using a Master and Slave approach for GPGPU Computing to Achieve Optimal Scaling in a 3D Real-Time Simulation","the IEEE Ann. Int. Conf. on Nano/Micro Engineerd and Molecular Systems (NEMS)",,,,,,2016,Apr.
"Bulibuli Mahemuti,Daisuke Inoue,Akira Kakugo,Akihiko Konagaya","Investigation of the Microtubule Dynamics with Probabilistic Data Association Filter","the IEEE Ann. Int. Conf. on Nano/Micro Engineerd and Molecular Systems (NEMS)",,,,,,2016,Apr.
"Greg Gutmann Daisuke Inoue,Akira Kakugo,Akihiko Konagaya","Real-Time 3D Microtubule Gliding Simulation Accelarated by GPU Computing",,"Inter. J. of Automation and Computing (IJAC)",,,,"pp. 1-9",2016,Feb.
"Ito, M.,Rashedul Kabir, A.M.,Islam, M.S.,Inoue, D.,Wada, S.,Sada, K.,Akihiko Konagaya,Kakugo, A.","Mechanical oscillation of dynamic microtubule rings",,"RSC Advances",,"Vol. 6","No. 73","pp. 69149-69155",2016,
"Maeda, Kazuya,Yoshida, Kenta,Sugiyama, Yuichi,Akihiko Konagaya,Kusuhara, Hiroyuki","PRECISE ESTIMATIONS OF THE INHIBITION CONSTANTS BY PBPK ANALYSES OF METABOLITES' PHARMACOKINETIC ALTERATIONS USING CLUSTER NEWTON METHOD","19th North American Meeting of the International-Society-for-the-Study-of-Xenobiotics (ISSX) / 29th Meeting of the Japanese-Society-for-the-Study-of-Xenobiotics (JSSX)","DRUG METABOLISM REVIEWS","TAYLOR & FRANCIS LTD","Vol. 47",,"pp. 116-117",2015,Nov.
"Toshimoto, Kota,Yoshida, Kenta,Yoshikado, Takashi,Maeda, Kazuya,Kusuhara, Hiroyuki,Akihiko Konagaya,Sugiyama, Yuichi","ESTABLISHING A VERSATILE ANALYSIS METHOD OF DRUG-DRUG INTERACTIONS WITH THE PHYSIOLOGICALLY-BASED PHARMACOKINETIC MODEL USING THE CLUSTER NEWTON METHOD","19th North American Meeting of the International-Society-for-the-Study-of-Xenobiotics (ISSX) / 29th Meeting of the Japanese-Society-for-the-Study-of-Xenobiotics (JSSX)","DRUG METABOLISM REVIEWS","TAYLOR & FRANCIS LTD","Vol. 47",,"pp. 231-232",2015,Nov.
"Yuexing Han,Akito Hara,Akinori Kuzuya,Rousuke Watanabe,Yuichi Ohya,Akihiko Konagaya","Automatic Recognition of DNA Pliers in Atomic Force Microscopy Images",,"New Generation Computing",,"Vol. 33","No. 3","pp. 253-270",2015,July
"?Daisuke Inoue,Bulbul Mahemoti,Arif Md. Rashedul Kabir,Tamann Ishrat Farhana,Kiyotaka Tokuraku,Kazuki Sada,Akihiko Konagaya,Akira Kakugo","Depletion force induced collective motion of microtubules driven by knesin",,"Nanoscale",,,,"pp. 18054-18061",2015,July
"Han, Y.,Daisuke, I.,Kakugo, A.,Akihiko Konagaya","Tracking single microtubules by using B-spline curves and Hausdorff distance",,"2014 4th International Conference on Image Processing Theory, Tools and Applications, IPTA 2014",,,,,2015,
"Akihiko Konagaya","Molecular Robotics and Controlling",,"New Generation Computing",,"Vol. 33","No. 3","pp. 211-212",2015,
"小長谷明彦","21pm1-F2 分子アメーバ型ロボットの実現に向けて",,"マイクロ・ナノ工学シンポジウム","一般社団法人日本機械学会","Vol. 2014","No. 6","pp. "21pm1-F2-1"-"21pm1-F2-2"",2014,Oct.
"Maeda, Kazuya,Yoshida, Kenta,Kusuhara, Hiroyuki,Akihiko Konagaya,Sugiyama, Yuichi","APPLICATION OF A NOVEL COMPUTATIONAL METHOD TO ESTIMATE FEASIBLE SOLUTION SPACES FOR DETERMINING MULTIPLE PARAMETERS IN PHYSIOLOGICALLY-BASED PHARMACOKINETIC (PBPK) MODEL","10th International Meeting of the International-Society-for-the-Study-of-Xenobiotics (ISSX)","DRUG METABOLISM REVIEWS","INFORMA HEALTHCARE","Vol. 45",,"pp. 227-227",2014,Jan.
"Yutaka Ueno,Shuntaro Ito,Akihiko Konagaya","Implementing a modeling software for animated protein-complex interactions using a physics simulation library",,"J. Bioinformatics and Computational Biology",,"Vol. 12","No. 6",,2014,
"Greg Gutmann,Daisuke Inoue,Akira Kakugo,Akihiko Konagaya","Real-Time 3D Microtubule Gliding Simulation, Life System Modeling and Simulation",,"Communications in Compuer and Information Science",,"Vol. 461",,"pp. 13-22",2014,
"Masami Hagiya,Akihiko Konagaya,Satoshi Kobayashi,Satoshi Murata","Molecular Robots with Sensors and Intelligence",,"Accounts of Chemical Research",,"Vol. 47","No. 6","page 1681-1690",2014,
"青木康憲,速水謙,小長谷明彦","劣決定逆問題に対するCluster Newton法とその薬物動態モデルへの応用",,"応用数理",,"Vol. 24","No. 4","pp. 7-15",2014,
"Yasunori Aoki,Ken Hayami,Hans De Sterck,Akihiko Konagaya","Cluster Newton Method for Sampling Multiple Solutions of Underdetermined Inverse Problems:Application to a Parameter Identification Problem in Pharmacokinetics",,"SIAM J. Scientific Computing",,"Vol. 36","No. 1","pp. B14-B44",2014,
"Akihiko konagaya,Masami Hagiya,Satoshi Kobayashi,Hirohide Saito,Satoshi Murata","Molecular Robotics Project: Toward Artifacts with Sensors, Actuators and Intelligence","in Proc. of Int. Conf. on Applied and Theoretical Information Systems Research",,,,,,2013,Nov.
"Yoshida K,Maeda K,Kusuhara H,Konagaya A","Estimation of feasible solution space using Cluster Newton Method: application to pharmacokinetic analysis of irinotecan with physiologically-based pharmacokinetic models",,"BMC Systems Biology",,,,,2013,Oct.
"Yoshida, K.,Maeda, K.,Kusuhara, H.,Akihiko Konagaya,Sugiyama, Y.","PARAMETER OPTIMIZATION IN PHYSIOLOGICALLY-BASED PHARMACOKINETIC (PBPK) MODEL FOR THE PREDICTION OF TRANSPORTER-MEDIATED DRUG-DRUG INTERACTIONS WITH A NEW GLOBAL PARAMETER OPTIMIZATION METHOD","Annual Meeting of the American-Society-for-Clinical-Pharmacology-and-Therapeutics (ASCPT) / Quantitative Systems Pharmacology - An Integrating Framework for Translational Medicine Pre-Conference","CLINICAL PHARMACOLOGY & THERAPEUTICS","NATURE PUBLISHING GROUP","Vol. 93",,"pp. S115-S115",2013,Feb.
"Akihiko Konagaya,Murata S,Konagaya A,Kobayashi S,Saito H,Hagiya M","Molecular Robotics: A New Paradigm for Artifacts",,"New Generation Computing, Ohmsha, Ltd. and Springer",,"Vol. 31","No. 1","pp. 27-45",2013,Feb.
"Daniel Berrar,Akihiko Konagaya,Alfons Schuster","Turing Test Considered Mostly Harmless",,"New Generation Computing",,"Vol. 31","No. 4","pp. 241-263",2013,
"Akihiko K","Towards an In Silico Approach to Personalized Pharmacokinetics",,,,,,,2012,
"Aoki Y,Hayami K,De Sterck Hans,Konagaya A","Cluster Newton Method for Sampling Multiple Solutions of an Underdetermined Inverse Problem: Parmeter Identificaiton for Pharmacokinetics",,"NII Technical Report",,,,,2011,
"小長谷明彦","生命と情報通信-情報通信技術に生命機能を吹き込む-",,"情報処理","一般社団法人情報処理学会","Vol. 51","No. 10","pp. 1370-1370",2010,Oct.
"里城 晴紀,吉瀬 謙二,小長谷 明彦","マルチコアアーキテクチャのための密行列LU分解のプログラミング技術",,"情報処理学会論文誌コンピューティングシステム",,"Vol. 3","No. 3","pp. 199-208",2010,Sept.
"佐藤 賢二,小長谷明彦,Kenji Satou,Akihiko Konagaya,金沢大学,東京工業大学,Kanazawa University,Tokyo Institute of Technology","分子生物情報研究会(SIG-MBI)(<特集>研究会総覧)",,"人工知能学会誌 = Journal of Japanese Society for Artificial Intelligence",,"Vol. 25","No. 4","pp. 555",2010,July
"小長谷明彦","バイオ情報学-パーソナルゲノム解析から生体シミュレーションまで",,"電子情報通信レクチャーシリーズ","コロナ社","Vol. D","No. 23",,2009,June
"里城晴紀,吉瀬謙二,小長谷明彦","Cell/B.E.におけるSIMD論理関数を利用した編集距離計算の実装法","先進的計算基盤システムシンポジウム","SACSIS2009論文集",,,,"pp. 100-101",2009,May
"Arikuma T,Yoshikawa S,Azuma R,Watanabe K,Muramatsu K,Konagaya A","Drug interaction prediction using ontology-driven hypothetical assertion framework for pathway generation followed by numerical simulation",,"BMC Bioinformatics",,"Vol. 9","  6",,2008,May
"小長谷明彦","生体分子間相互作用と局在に関する空間シミュレーションモデル",,"情報処理学会論文誌：数理モデル化と応用",,"Vol. 48","No. SIG15","pp. 11-22",2007,Oct.
"小長谷 明彦,有熊 威,吉川 澄美,我妻 竜三,梅津 亮,小西 史一","オントロジーとシミュレーションを用いたハイブリット型薬物間相互作用予測システムの設計思想",,"シミュレーション",,"Vol. 26","No. 4",,2007,Sept.
"Azuma R.,Umetsu R.,Ohki S.,Konishi F.,Yoshikawa S.,Konagaya A.,Matsumura K","Discovering dynamic characteristics of biochemical pathways using geometric patterns among parameter-parameter dependencies in differential equations.",,"New Generation Computing",,"Vol. 25","No. 4","pp. 425-441",2007,Aug.
"Arikuma, T.,Yoshikawa, S.,Watanabe, K.,Matsumura, K.,Konagaya, A","Ontology-driven hypothetic assertion (OHA) for drug interaction prediction.",,"International Multi-Symposiums on Computer and Computational Sciences",,,,,2007,Aug.
"Takasaki, S.,Kawamura, Y.,Konagaya, A.","Selecting effective siRNA sequences by using radial basis function network and decision tree learning",,"BMC Bioinformatics",,"Vol. 7","no. S5","pp. S22-S22",2006,Dec.
"Azuma, R.,Kitagawa, T.,Kobayashi, H.,Konagaya, A.","Particle simulation approach for sub-cellular dynamic and interactions of biological molecules",,"BMC Bioinformatics",,"Vol. 7","No. 4","pp. S20-1-S20-13",2006,Dec.
"Tan Tin Wee,Peter Arzberger,Akihiko Konagaya","Grid Computing in Life Sciences",,"Proceedings of the 2nd International Life Science Grid Workshop, LSGRID 2005","Biopolis, Singapore",,,,2006,Oct.
"Konagaya, A","Trends in life science grid: from computing grid to knowledge grid",,"BMC Bioinformatics",,"Vol. 7","No. 5","pp. S10-S10",2006,Sept.
"Akihiko Konagaya","An Architecture Design of Open Genome Services","Grid Computing in Life Sciences (LSGRID2005)","World Scientific",,,,"pp. 87-98,",2006,June
"Konagaya, A.",":International Conference etc. OBIGrid: Towards the “Ba” for sharing resources, Services and knowledge for bioinformatics","4th International Workshop on Biomedical Computations on the Grid (BioGrid’06)",,,,,,2006,May
"Akihiko Konagaya","The Grid as a “Ba” for Biomedical Knowledge Creation","Grid Computing in Life Sciences (LSGRID2005)","World Scientific",,,,"pp. 1-10",2005,June
"Satou, K.,Nakashima, Y.,Tsuji, S,Defago, X.,Konagaya, A","An Integrated System for Distributed Bioinformatics Environment on Grids","Grid Computing in Life Science (LSGRID2004)","LNBI Springer",,,,"pp. 8-19",2005,Apr.
"Akihiko Konagaya,Kenji Satou (Ed)","Grid Computing in Life Science",,"Springer","Springer, Berlin, Heidelberg",,,,2005,
"Akihiko Konagaya,P.W. Arzberger,A. Farazdel,A. Konagaya,L. Ang,S. Shimojo,R.L. Stevens:","“Life Sciences and Cyberinfrastructure: Dual and Interacting Revolutions that will Drive Future Science”,",,"New Generation Computing,",,"Vol. 22",,"pp. 970-110",2004,May
"Yoshikawa, S.,Satou, K.,Konagaya, A.","Drug Interaction Ontology (DIO) for Inferences of Possible Drug-Drug Interactions",,"Medinfo",,"Vol. 11","  Pt 1","pp. 454-458",2004,Apr.
"A. Konagaya,F. Konishi,M. Hatakeyama,K. Satou","The Superstructure toward Open Bioinformatics Grid",,"New Generation Computing",,"Vol. 22",,"pp. 167-176",2004,Apr.
"小長谷明彦","遺伝子とコンピュータ 生命の設計図をひもとく",,,"協立出版",,,,2000,
"Han Y,Hara A,Kuzuya A,Watanabe R,Ohya Y,Konagaya A","Automatic Recognition of DNA Nanostructures on Atomic Force Microscopy (AFM) Image: First Experience on DNA Pliers","International Conference on Applied and Theoretical Information Systems Research",,,,,,,