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    Author information
    First name: Yutaka
    Last name: Akiyama
    DBLP: 63/6483
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    Below you find the publications which have been written by this author.

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    Journal article
    Takehiro Shimoda, Shuji Suzuki, Masahito Ohue, Takashi Ishida, Yutaka Akiyama.
    Protein-protein docking on hardware accelerators: comparison of GPU and MIC architectures.
    BMC Systems Biology 2015, Volume 9 (0) 2015
    Conference paper
    Shuji Suzuki, Masanori Kakuta, Takashi Ishida, Yutaka Akiyama.
    Faster sequence homology searches by clustering subsequences.
    Bioinformatics 2015, Volume 31 (0) 2015
    Conference paper
    Yuki Komatsu, Takashi Ishida, Yutaka Akiyama.
    Metagenomic Phylogenetic Classification Using Improved Naïve Bayes.
    Intelligent Computing in Bioinformatics - 10th International Conference, ICIC 2014, Taiyuan, China, August 3-6, 2014. Proceedings 2014 (0) 2014
    Conference paper
    Masahito Ohue, Takehiro Shimoda, Shuji Suzuki, Yuri Matsuzaki, Takashi Ishida, Yutaka Akiyama.
    MEGADOCK 4.0: an ultra-high-performance protein-protein docking software for heterogeneous supercomputers.
    Bioinformatics 2014, Volume 30 (0) 2014
    Conference paper
    Masahiro Yano, Hiroshi Mori, Yutaka Akiyama, Takuji Yamada, Ken Kurokawa.
    CLAST: CUDA implemented large-scale alignment search tool.
    BMC Bioinformatics 2014, Volume 15 (0) 2014
    Journal article
    Youhei Namiki, Takashi Ishida, Yutaka Akiyama.
    Acceleration of sequence clustering using longest common subsequence filtering.
    BMC Bioinformatics 2013, Volume 14 (0) 2013
    Conference paper
    Yuri Matsuzaki, Nobuyuki Uchikoga, Masahito Ohue, Takehiro Shimoda, Toshiyuki Sato, Takashi Ishida, Yutaka Akiyama.
    MEGADOCK 3.0: a high-performance protein-protein interaction prediction software using hybrid parallel computing for petascale supercomputing environments.
    Source Code for Biology and Medicine 2013, Volume 8 (0) 2013
    Conference paper
    Takehiro Shimoda, Takashi Ishida, Shuji Suzuki, Masahito Ohue, Yutaka Akiyama.
    MEGADOCK-GPU: Acceleration of Protein-Protein Docking Calculation on GPUs.
    ACM Conference on Bioinformatics, Computational Biology and Biomedical Informatics. ACM-BCB 2013, Washington, DC, USA, September 22-25, 2013 2013 (0) 2013
    Conference paper
    Takehiro Shimoda, Masahito Ohue, Yuri Matsuzaki, Takayuki Fujiwara, Nobuyuki Uchikoga, Takashi Ishida, Yutaka Akiyama.
    The MEGADOCK project: Ultra-high-speed protein-protein interaction prediction tools on supercomputing environments.
    ACM Conference on Bioinformatics, Computational Biology and Biomedical Informatics. ACM-BCB 2013, Washington, DC, USA, September 22-25, 2013 2013 (0) 2013
    Conference paper
    Masahito Ohue, Yuri Matsuzaki, Takehiro Shimoda, Takashi Ishida, Yutaka Akiyama.
    Improvement of Protein-Protein Interaction Prediction by Integrating Template-Based and Template-Free Protein Docking.
    ACM Conference on Bioinformatics, Computational Biology and Biomedical Informatics. ACM-BCB 2013, Washington, DC, USA, September 22-25, 2013 2013 (0) 2013
    Conference paper
    Youhei Namiki, Takashi Ishida, Yutaka Akiyama.
    Fast DNA Sequence Clustering Based on Longest Common Subsequence.
    Emerging Intelligent Computing Technology and Applications - 8th International Conference, ICIC 2012, Huangshan, China, July 25-29, 2012. Proceedings 2012 (0) 2012
    Conference paper
    Masahito Ohue, Yuri Matsuzaki, Takashi Ishida, Yutaka Akiyama.
    Improvement of the Protein-Protein Docking Prediction by Introducing a Simple Hydrophobic Interaction Model: An Application to Interaction Pathway Analysis.
    Pattern Recognition in Bioinformatics - 7th IAPR International Conference, PRIB 2012, Tokyo, Japan, November 8-10, 2012. Proceedings 2012 (0) 2012
    Conference paper
    Shuji Suzuki, Takashi Ishida, Yutaka Akiyama.
    An Ultra-Fast Computing Pipeline for Metagenome Analysis with Next-Generation DNA Sequencers.
    2012 SC Companion: High Performance Computing, Networking Storage and Analysis, Salt Lake City, UT, USA, November 10-16, 2012 2012 (0) 2012
    Conference paper
    Katsuya Kikuchi, Chihiro Ueda, Fumiaki Fujii, Yutaka Akiyama, Naoya Watanabe, Yasuhiro Kitamura, Toshio Gomyo, Toshikazu Okubo, Tetsuya Koyama, Tadashi Kamada, Masahiro Aoyagi, Kanji Otsuka.
    PDN impedance analysis of TSV-decoupling capacitor embedded Silicon interposer for 3D-integrated CMOS image sensor system.
    2011 IEEE International 3D Systems Integration Conference (3DIC), Osaka, Japan, January 31 - February 2, 2012 2012 (0) 2011
    Conference paper
    Wisnu Ananta Kusuma, Yutaka Akiyama.
    Design and Simulation of Hybrid de novo DNA Sequence Assembly for Large Eukaryotic Genomes.
    Proceedings of the International Conference on Parallel and Distributed Processing Techniques and Applications, PDPTA 2010, Las Vegas, Nevada, USA, July 12-15, 2010, 2 Volumes 2010 (0) 2010
    Conference paper
    Koki Tsukamoto, Tatsuya Yoshikawa, Yuichiro Hourai, Kazuhiko Fukui, Yutaka Akiyama.
    Development of an Affinity Evaluation and Prediction System by Using the Shape complementarity Characteristic between proteins.
    J. Bioinformatics and Computational Biology 2008, Volume 6 (0) 2008
    Conference paper
    Akira Nukada, Yuichiro Hourai, Akira Nishida, Yutaka Akiyama.
    High Performance 3D Convolution for Protein Docking on IBM Blue Gene.
    Parallel and Distributed Processing and Applications, 5th International Symposium, ISPA 2007, Niagara Falls, Canada, August 29-31, 2007, Proceedings 2007 (0) 2007
    Conference paper
    Masakazu Sekijima, Junta Doi, Tamotsu Noguchi, Yutaka Akiyama, S. Shimizu.
    Optimization and evaluation of parallel molecular dynamics simulation on blue gene/L.
    Proceedings of the IASTED International Conference on Parallel and Distributed Computing and Networks, as part of the 25th IASTED International Multi-Conference on Applied Informatics, February 13-15 2007, Innsbruck, Austria 2007 (0) 2007
    Conference paper
    Yuichiro Hourai, Tatsuya Akutsu, Yutaka Akiyama.
    Optimizing substitution matrices by separating score distributions.
    Bioinformatics 2004, Volume 20 (0) 2004
    Conference paper
    Kentaro Tomii, Yutaka Akiyama.
    FORTE: a profile-profile comparison tool for protein fold recognition.
    Bioinformatics 2004, Volume 20 (0) 2004
    Conference paper
    Ayuta Yamada, Hitoshi Tsunashima, Yoshinori Arai, Toru Ishizuka, Yutaka Akiyama.
    Generation of 3D solid model from 3DX multi image micro CT (methods and application).
    CARS 2003. Computer Assisted Radiology and Surgery. Proceedings of the 17th International Congress and Exhibition, London, June 25-28, 2003 2003 (0) 2003
    Conference paper
    Masakazu Sekijima, Chie Motono, Satoshi Yamasaki, Kiyotoshi Kaneko, Yutaka Akiyama.
    Molecular Dynamics Simulation of Prion Protein by Large Scale Cluster Computing.
    High Performance Computing, 5th International Symposium, ISHPC 2003, Tokyo-Odaiba, Japan, October 20-22, 2003, Proceedings 2003 (0) 2003
    Conference paper
    Daisuke Tominaga, Katsutoshi Takahashi, Yutaka Akiyama.
    Distributed Genetic Algorithm for Inference of Biological Scale-Free Network Structure.
    High Performance Computing, 5th International Symposium, ISHPC 2003, Tokyo-Odaiba, Japan, October 20-22, 2003, Proceedings 2003 (0) 2003
    Conference paper
    Tamotsu Noguchi, Yutaka Akiyama.
    PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB) in 2003.
    Nucleic Acids Research 2003, Volume 31 (0) 2003
    Conference paper
    Kentaro Onizuka, Tamotsu Noguchi, Yutaka Akiyama, Hideo Matsuda.
    Using Data Compression for Multidimensional Distribution Analysis.
    IEEE Intelligent Systems 2002, Volume 17 (0) 2002
    Conference paper
    Tamotsu Noguchi, Hideo Matsuda, Yutaka Akiyama.
    PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB).
    Nucleic Acids Research 2001, Volume 29 (0) 2001
    Conference paper
    Makoto Ando, Yutaka Akiyama, Hideo Matsuda.
    Hierarchical Approach to Parallel Tree Search for Protein Conformational Analysis.
    Proceedings of the International Conference on Parallel and Distributed Processing Techniques and Applications, PDPTA 2000, June 24-29, 2000, Las Vegas, Nevada, USA 2000 (0) 2000
    Conference paper
    Tamotsu Noguchi, Kentaro Onizuka, Makoto Ando, Hideo Matsuda, Yutaka Akiyama.
    Quick selection of representative protein chain sets based on customizable requirements.
    Bioinformatics 2000, Volume 16 (0) 2000
    Conference paper
    Yutaka Akiyama, Kentaro Onizuka, Tamotsu Noguchi, Makoto Ando.
    Biological- and Chemical- Parallel Applications on a PC Cluster.
    High Performance Computing, Second International Symposium, ISHPC'99, Kyoto, Japan, May 26-28, 1999, Proceedings 1999 (0) 1999
    Conference paper
    Makoto Ando, Yutaka Akiyama, Kentaro Onizuka, Tamotsu Noguchi.
    ESCAPE: Parallel Tree Search System for Conformational Analysis of Peptides.
    Proceedings of the International Conference on Parallel and Distributed Processing Techniques and Applications, PDPTA 1999, June 28 - Junlly 1, 1999, Las Vegas, Nevada, USA 1999 (0) 1999
    Conference paper
    Yutaka Akiyama, Kiyotaka Misoo, Yoshiharu Omura, Hiroshi Matsumoto, Minoru Saito, Tamotsu Noguchi, Kentaro Onizuka, Makoto Ando.
    Parallelization of Space Plasma Particle Simulation.
    High Performance Computing, International Symposium, ISHPC'97, Fukuoka, Japan, November 4-6, 1997, Proceedings 1997 (0) 1997
    Conference paper
    Kentaro Onizuka, Tamotsu Noguchi, Minoru Saito, Yutaka Akiyama.
    Parallel PDB Data Retriever PDB Diving Booster
    High Performance Computing, International Symposium, ISHPC'97, Fukuoka, Japan, November 4-6, 1997, Proceedings 1997 (0) 1997
    Conference paper
    Tamotsu Noguchi, Kentaro Onizuka, Yutaka Akiyama, Minoru Saito.
    PDB-REPRDB: A Database of Representative Protein Chains in PDB (Protein Data Bank).
    Proceedings of the 5th International Conference on Intelligent Systems for Molecular Biology, Halkidiki, Greece, June 21-26, 1997 1997 (0) 1997
    Conference paper
    Masahiro Kajiura, Yutaka Akiyama, Yuichiro Anzai.
    Solving large scale puzzles with neural networks.
    IEEE International Workshop on Tools for Artificial Intelligence: Architectures, Languages and Algorithms, TAI 1989, Fairfax, VA, USA, October 23-25, 1989 1989 (0) 1989
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