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Akihiko Konagaya: [Publications] [Author Rank by year] [Co-authors] [Prefers] [Cites] [Cited by]

Publications of Author

  1. Hiroshi Kobayashi, Ryuzo Azuma, Akihiko Konagaya
    Kinetic Analysis of Ligand-Receptor Complex Formation with the Aid of Computer Simulation. [Citation Graph (0, 0)][DBLP]
    AINA Workshops (1), 2007, pp:727-732 [Conf]
  2. Akihiko Konagaya
    A Stochastic Approach to Genetic Information Processing. [Citation Graph (0, 0)][DBLP]
    ALT, 1992, pp:25-36 [Conf]
  3. Mitsuhiro Okada, Yutaro Sugimoto, Sumi Yoshikawa, Akihiko Konagaya
    Drug Interaction Ontology (DIO) and the Resource-Sensitive Logical Inferences. [Citation Graph (0, 0)][DBLP]
    Essays Dedicated to Joseph A. Goguen, 2006, pp:616-642 [Conf]
  4. Akihiko Konagaya
    OBIGrid: Towards the 'Ba' for Sharing Resources, Services and Knowledge for Bioinformatics. [Citation Graph (0, 0)][DBLP]
    CCGRID, 2006, pp:37- [Conf]
  5. Fumikazu Konishi, Manabu Ishii, Shingo Ohki, Ryo Umestu, Akihiko Konagaya
    RABC: A Conceptual Design of Pervasive Infrastructure for Browser Computing based on Ajax technologies. [Citation Graph (0, 0)][DBLP]
    CCGRID, 2007, pp:661-672 [Conf]
  6. Junko Hosaka, Judice L. Y. Koh, Akihiko Konagaya
    Effect of utilizing terminology on extraction of protein-protein interaction information from biomedical literature. [Citation Graph (0, 0)][DBLP]
    EACL, 2003, pp:107-110 [Conf]
  7. Fumikazu Konishi, Manabu Ishii, Shingo Ohki, Yusuke Hamano, Shuichi Fukuda, Akihiko Konagaya
    Improving the Research Environment of High Performance Computing for Non-cluster Experts Based on Knoppix Instant Computing Technology. [Citation Graph (0, 0)][DBLP]
    Euro-Par, 2006, pp:1169-1178 [Conf]
  8. Shingo Masuno, Tsutomu Maruyama, Yoshiki Yamaguchi, Akihiko Konagaya
    Multidimensional Dynamic Programming for Homology Search on Distributed Systems. [Citation Graph (0, 0)][DBLP]
    Euro-Par, 2006, pp:1127-1137 [Conf]
  9. Craig A. Stewart, Michael Schroeder, Concettina Guerra, Akihiko Konagaya
    Topic 17: High-Performance Bioinformatics. [Citation Graph (0, 0)][DBLP]
    Euro-Par, 2006, pp:1125-1126 [Conf]
  10. Hidenori Itoh, Hidetoshi Monoi, Shigeki Shibayama, Nobuyoshi Miyazaki, Haruo Yokota, Akihiko Konagaya
    Knowledge Base System in Logic Programming Paradigm. [Citation Graph (0, 0)][DBLP]
    FGCS, 1988, pp:37-53 [Conf]
  11. Koichi Konishi, Tsutomu Maruyama, Akihiko Konagaya, Kaoru Yoshida, Takashi Chikayama
    Implementing Streams on Parallel Machines with Distributed Memory. [Citation Graph (0, 0)][DBLP]
    FGCS, 1992, pp:791-798 [Conf]
  12. Shingo Masuno, Tsutomu Maruyama, Yoshiki Yamaguchi, Akihiko Konagaya
    Multidimensional Dynamic Programming for Homology Search. [Citation Graph (0, 0)][DBLP]
    FPL, 2005, pp:173-178 [Conf]
  13. Yoshiki Yamaguchi, Tsutomu Maruyama, Akihiko Konagaya
    Three-Dimensional Dynamic Programming for Homology Search. [Citation Graph (0, 0)][DBLP]
    FPL, 2004, pp:505-515 [Conf]
  14. Yoshiki Yamaguchi, Yosuke Miyajima, Tsutomu Maruyama, Akihiko Konagaya
    High Speed Homology Search Using Run-Time Reconfiguration. [Citation Graph (0, 0)][DBLP]
    FPL, 2002, pp:281-291 [Conf]
  15. Yoshiki Yamaguchi, Tsutomu Maruyama, Ryuzo Azuma, Akihiko Konagaya
    Spatiotemporal Simulation of a Single Living Cell. [Citation Graph (0, 0)][DBLP]
    FPT, 2005, pp:267-274 [Conf]
  16. Minoru Asogawa, Yukiko Fujiwara, Akihiko Konagaya
    A combination of a functional motif model and a structural motif model for a database validation. [Citation Graph (0, 0)][DBLP]
    HICSS (5), 1995, pp:174-183 [Conf]
  17. Atsushi Atarashi, Akihiko Konagaya, Shinichi Habata, Minoru Yokota
    Implementation and Evaluation of Dynamic Predicates on the Sequential Inference Machine CHI. [Citation Graph (0, 0)][DBLP]
    ICCL, 1990, pp:236-244 [Conf]
  18. Aki Hasegawa, Kazumi Kuriyama-Matsumura, Xiaomei Yu, Mariko Hatakeyama, Akihiko Konagaya
    Software-Aided Mass Spectrometry Analysis for Identification of Protein-Protein Interaction in Signal Transduction Pathways. [Citation Graph (0, 0)][DBLP]
    ICDE Workshops, 2005, pp:1157- [Conf]
  19. Tsutomu Maruyama, Tetsuya Hirose, Akihiko Konagaya
    A Fine-Grained Parallel Genetic Algorithm for Distributed Parallel Systems. [Citation Graph (0, 0)][DBLP]
    ICGA, 1993, pp:184-190 [Conf]
  20. Kenji Yamanishi, Akihiko Konagaya
    Learning Stochastic Motifs from Genetic Sequences. [Citation Graph (0, 0)][DBLP]
    ML, 1991, pp:467-471 [Conf]
  21. Ryuzo Azuma, Tetsuji Kitagawa, Hiroshi Kobayashi, Akihiko Konagaya
    Particle Simulation Approach for Sub-cellular Dynamics and Interactions of Biological Molecules. [Citation Graph (0, 0)][DBLP]
    IMSCCS (1), 2006, pp:150-157 [Conf]
  22. Ryosei Nakazaki, Akihiko Konagaya, Shinichi Habata, Hideo Shimazu, Mamoru Umemura, Masahiro Yamamoto, Minoru Yokota, Takashi Chikayama
    Design of a High-speed Prolog Machine (HPM). [Citation Graph (0, 0)][DBLP]
    ISCA, 1985, pp:191-197 [Conf]
  23. Naohiko Heida, Yoshikazu Hasegawa, Yoshiki Mochizuki, Katsura Hirosawa, Akihiko Konagaya, Tetsuro Toyoda
    TraitMap: an XML-based genetic-map database combining multigenic loci and biomolecular networks. [Citation Graph (0, 0)][DBLP]
    ISMB/ECCB (Supplement of Bioinformatics), 2004, pp:152-160 [Conf]
  24. Yukiko Fujiwara, Minoru Asogawa, Akihiko Konagaya
    Stochastic Motif Extraction Using Hidden Markov Model. [Citation Graph (0, 0)][DBLP]
    ISMB, 1994, pp:121-129 [Conf]
  25. Hidetoshi Tanaka, Masato Ishikawa, Kiyoshi Asai, Akihiko Konagaya
    Hidden Markov Models and Iterative Aligners: Study of Their Equivalence and Possibilities. [Citation Graph (0, 0)][DBLP]
    ISMB, 1993, pp:395-401 [Conf]
  26. Akinobu Fukuzaki, Takeshi Nagashima, Kaori Ide, Fumikazu Konishi, Mariko Hatakeyama, Shigeyuki Yokoyama, Seiki Kuramitsu, Akihiko Konagaya
    Genome-Wide Functional Annotation Environment forin OBIGrid. [Citation Graph (0, 0)][DBLP]
    LSGRID, 2004, pp:82-91 [Conf]
  27. Fumikazu Konishi, Akihiko Konagaya
    The Architectural Design of High-Throughput BLAST Services on OBIGrid. [Citation Graph (0, 0)][DBLP]
    LSGRID, 2004, pp:32-42 [Conf]
  28. Kenji Satou, Yasuhiko Nakashima, Shin'ichi Tsuji, Xavier Défago, Akihiko Konagaya
    An Integrated System for Distributed Bioinformatics Environment on Grids. [Citation Graph (0, 0)][DBLP]
    LSGRID, 2004, pp:8-19 [Conf]
  29. Yohei Minakuchi, Kenji Satou, Akihiko Konagaya
    Prediction of Protein-Protein Interaction Sites Using Support Vector Machines. [Citation Graph (0, 0)][DBLP]
    METMBS, 2003, pp:22-28 [Conf]
  30. Shouji Tatsumoto, Kenji Satou, Akihiko Konagaya
    Prediction of Protein Secondary Structure from PDB Structure Information Based on Sequence Segments Homology Searching. [Citation Graph (0, 0)][DBLP]
    METMBS, 2004, pp:250-255 [Conf]
  31. Sumi Yoshikawa, Akihiko Konagaya
    DIO: Drug Interaction Ontology - Application to Inferences in Possible Drug-Drug Interactions. [Citation Graph (0, 0)][DBLP]
    METMBS, 2003, pp:231-236 [Conf]
  32. Shouji Tatsumoto, Kenji Satou, Akihiko Konagaya, Jun'ichi Kurita, Hideto Shimahara, Shin-ichi Tate
    Development of Support Tool for NMR Spectrum Analysis. [Citation Graph (0, 0)][DBLP]
    METMBS, 2003, pp:159-164 [Conf]
  33. Akihiko Konagaya, Ryosei Nakazaki, Mamoru Umemura
    A Co-Operative Programming Environment for a Back-End Type Sequential Inference Machine CHI. [Citation Graph (0, 0)][DBLP]
    Parallel Algorithms and Architectures, 1987, pp:196-205 [Conf]
  34. Makoto Taiji, Tetsu Narumi, Yousuke Ohno, Akihiko Konagaya
    MDGRAPE-3: A Petaflops Special-Purpose Computer System for Molecular Dynamics Simulations. [Citation Graph (0, 0)][DBLP]
    PARCO, 2003, pp:669-676 [Conf]
  35. Xavier Défago, Akihiko Konagaya
    Circle formation for oblivious anonymous mobile robots with no common sense of orientation. [Citation Graph (0, 0)][DBLP]
    POMC, 2002, pp:97-104 [Conf]
  36. Tsutomu Maruyama, Akihiko Konagaya, Koichi Konishi
    An Asynchronous Fine-Grained Parallel Genetic Algorithm. [Citation Graph (0, 0)][DBLP]
    PPSN, 1992, pp:569-578 [Conf]
  37. Yoshiki Yamaguchi, Tsutomu Maruyama, Akihiko Konagaya
    High Speed Homology Search with FPGAs. [Citation Graph (0, 0)][DBLP]
    Pacific Symposium on Biocomputing, 2002, pp:271-282 [Conf]
  38. Tetsuo Ida, Akihiko Konagaya
    Comparison of Closure Reduction and Combinatory Reduction Schemes. [Citation Graph (0, 0)][DBLP]
    RIMS Symposia on Software Science and Engineering, 1984, pp:261-291 [Conf]
  39. Makoto Taiji, Tetsu Narumi, Yousuke Ohno, Noriyuki Futatsugi, Atsushi Suenaga, Naoki Takada, Akihiko Konagaya
    Protein Explorer: A Petaflops Special-Purpose Computer System for Molecular Dynamics Simulations. [Citation Graph (0, 0)][DBLP]
    SC, 2003, pp:15- [Conf]
  40. Akihiko Konagaya, Shinichi Habata, Atsushi Atarashi, Minoru Yokota
    Performance Evaluation of a Sequential Inference Machine CHI. [Citation Graph (0, 0)][DBLP]
    NACLP, 1989, pp:1165-1179 [Conf]
  41. Akihiko Konagaya
    OBIGrid: Towards a New Distributed Platform for Bioinformatics. [Citation Graph (0, 0)][DBLP]
    SRDS, 2002, pp:380-0 [Conf]
  42. Shuhei Kimura, Kaori Ide, Aiko Kashihara, Makoto Kano, Mariko Hatakeyama, Ryoji Masui, Noriko Nakagawa, Shigeyuki Yokoyama, Seiki Kuramitsu, Akihiko Konagaya
    Inference of S-system models of genetic networks using a cooperative coevolutionary algorithm. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2005, v:21, n:7, pp:1154-1163 [Journal]
  43. Shuhei Kimura, Takuji Kawasaki, Mariko Hatakeyama, Takashi Naka, Fumikazu Konishi, Akihiko Konagaya
    OBIYagns: a grid-based biochemical simulator with a parameter estimator. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2004, v:20, n:10, pp:1646-1648 [Journal]
  44. Tetsuo Shibuya, Hisashi Kashima, Akihiko Konagaya
    Efficient filtering methods for clustering cDNAs with spliced sequence alignment. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2004, v:20, n:1, pp:29-39 [Journal]
  45. Tetsuro Toyoda, Akihiko Konagaya
    KnowledgeEditor: a new tool for interactive modeling and analyzing biological pathways based on microarray data. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2003, v:19, n:3, pp:433-434 [Journal]
  46. Tetsuro Toyoda, Yoshiki Mochizuki, Akihiko Konagaya
    GSCope: a clipped fisheye viewer effective for highly complicated biomolecular network graphs. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2003, v:19, n:3, pp:437-438 [Journal]
  47. Shigeru Takasaki, Yoshihiro Kawamura, Akihiko Konagaya
    Selecting effective siRNA sequences based on the self-organizing map and statistical techniques. [Citation Graph (0, 0)][DBLP]
    Computational Biology and Chemistry, 2006, v:30, n:3, pp:169-178 [Journal]
  48. Eli Kaminuma, Naohiko Heida, Yuko Tsumoto, Miki Nakazawa, Nobuharu Goto, Akihiko Konagaya, Minami Matsui, Tetsuro Toyoda
    Three-dimensional Definition of Leaf Morphological Traits of arabidopsis in Silico Phenotypic Analysis. [Citation Graph (0, 0)][DBLP]
    J. Bioinformatics and Computational Biology, 2005, v:3, n:2, pp:401-414 [Journal]
  49. Kaoru Yamamoto, Taku Kudo, Akihiko Konagaya, Yuji Matsumoto
    Use of morphological analysis in protein name recognition. [Citation Graph (0, 0)][DBLP]
    Journal of Biomedical Informatics, 2004, v:37, n:6, pp:471-482 [Journal]
  50. Takeshi Nagashima, Hideo Matsuda, Diego G. Silva, Nikolai Petrovsky, Akihiko Konagaya, Christian Schönbach
    FREP: a database of functional repeats in mouse cDNAs. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2004, v:32, n:Database-Issue, pp:471-475 [Journal]
  51. Tetsuya Sakurai, Masakazu Satou, Kenji Akiyama, Kei Iida, Motoaki Seki, Takashi Kuromori, Takuya Ito, Akihiko Konagaya, Tetsuro Toyoda, Kazuo Shinozaki
    RARGE: a large-scale database of RIKEN Arabidopsis resources ranging from transcriptome to phenome. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2005, v:33, n:Database-Issue, pp:647-650 [Journal]
  52. Peter W. Arzberger, Abbas Farazdel, Akihiko Konagaya, Larry Ang, Shinji Shimojo, Rick L. Stevens
    Life Sciences and Cyberinfrastructure: Dual and Interacting Revolutions that will Drive Future Science. [Citation Graph (0, 0)][DBLP]
    New Generation Comput., 2004, v:22, n:2, pp:- [Journal]
  53. Akihiko Konagaya, Fumikazu Konishi, Mariko Hatakeyama, Kenji Satou
    The Superstructure toward Open Bioinformatics Grid. [Citation Graph (0, 0)][DBLP]
    New Generation Comput., 2004, v:22, n:2, pp:- [Journal]
  54. Akihiko Konagaya, Mamoru Umemura
    Knowledge Information Processing Language: ShapeUp. [Citation Graph (0, 0)][DBLP]
    New Generation Comput., 1984, v:2, n:2, pp:195-201 [Journal]
  55. Yoshiki Yamaguchi, Tsutomu Maruyama, Ryuzo Azuma, Moritoshi Yasunaga, Akihiko Konagaya
    Mesoscopic-level Simulation of Dynamics and Interactions of Biological Molecules Using Monte Carlo Simulation. [Citation Graph (0, 0)][DBLP]
    VLSI Signal Processing, 2007, v:48, n:3, pp:287-299 [Journal]

  56. An FPGA Implementation of Multiple Sequence Alignment Based on Carrillo-Lipman Method. [Citation Graph (, )][DBLP]


  57. High speed tablation system using an FPGA designed for distribution tables of frequent DNA subsequences. [Citation Graph (, )][DBLP]


  58. Ontology-Driven Hypothetic Assertion (OHA) for Drug Interaction Prediction. [Citation Graph (, )][DBLP]


  59. Inference of S-system models of genetic networks using a genetic local search. [Citation Graph (, )][DBLP]


  60. Particle simulation approach for subcellular dynamics and interactions of biological molecules. [Citation Graph (, )][DBLP]


  61. Selecting effective siRNA sequences by using radial basis function network and decision tree learning. [Citation Graph (, )][DBLP]


  62. Trends in life science grid: from computing grid to knowledge grid. [Citation Graph (, )][DBLP]


  63. Drug interaction prediction using ontology-driven hypothetical assertion framework for pathway generation followed by numerical simulation. [Citation Graph (, )][DBLP]


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