Yutaka Akiyama

Youhei Namiki, Takashi Ishida, Yutaka Akiyama: Fast DNA Sequence Clustering Based on Longest Common Subsequence. ICIC (3) 2012: 453-460

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. PRIB 2012: 178-187

Shuji Suzuki, Takashi Ishida, Yutaka Akiyama: An Ultra-Fast Computing Pipeline for Metagenome Analysis with Next-Generation DNA Sequencers. SC Companion 2012: 1549-1550

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. 3DIC 2011: 1-4

Wisnu Ananta Kusuma, Yutaka Akiyama: Design and Simulation of Hybrid de novo DNA Sequence Assembly for Large Eukaryotic Genomes. PDPTA 2010: 104-108

Yuri Matsuzaki, Yusuke Matsuzaki, Toshiyuki Sato, Yutaka Akiyama: In silico Screening of protein-protein Interactions with All-to-All Rigid docking and Clustering: an Application to Pathway Analysis. J. Bioinformatics and Computational Biology 7(6): 991-1012 (2009)

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 6(6): 1133-1156 (2008)

Akira Nukada, Yuichiro Hourai, Akira Nishida, Yutaka Akiyama: High Performance 3D Convolution for Protein Docking on IBM Blue Gene. ISPA 2007: 958-969

Masakazu Sekijima, Junta Doi, Tamotsu Noguchi, Yutaka Akiyama, S. Shimizu: Optimization and evaluation of parallel molecular dynamics simulation on blue gene/L. Parallel and Distributed Computing and Networks 2007: 242-247

Kentaro Tomii, Yutaka Akiyama: FORTE: a profile-profile comparison tool for protein fold recognition. Bioinformatics 20(4): 594-595 (2004)

Yuichiro Hourai, Tatsuya Akutsu, Yutaka Akiyama: Optimizing substitution matrices by separating score distributions. Bioinformatics 20(6): 863-873 (2004)

Tamotsu Noguchi, Yutaka Akiyama: PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB) in 2003. Nucleic Acids Research 31(1): 492-493 (2003)

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: 1224-1229

Daisuke Tominaga, Katsutoshi Takahashi, Yutaka Akiyama: Distributed Genetic Algorithm for Inference of Biological Scale-Free Network Structure. ISHPC 2003: 214-221

Masakazu Sekijima, Chie Motono, Satoshi Yamasaki, Kiyotoshi Kaneko, Yutaka Akiyama: Molecular Dynamics Simulation of Prion Protein by Large Scale Cluster Computing. ISHPC 2003: 476-485

Kentaro Onizuka, Tamotsu Noguchi, Yutaka Akiyama, Hideo Matsuda: Using Data Compression for Multidimensional Distribution Analysis. IEEE Intelligent Systems 17(3): 48-54 (2002)

Tamotsu Noguchi, Hideo Matsuda, Yutaka Akiyama: PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB). Nucleic Acids Research 29(1): 219-220 (2001)

Tamotsu Noguchi, Kentaro Onizuka, Makoto Ando, Hideo Matsuda, Yutaka Akiyama: Quick selection of representative protein chain sets based on customizable requirements. Bioinformatics 16(6): 520-526 (2000)

Makoto Ando, Yutaka Akiyama, Hideo Matsuda: Hierarchical Approach to Parallel Tree Search for Protein Conformational Analysis. PDPTA 2000

Yutaka Akiyama, Kentaro Onizuka, Tamotsu Noguchi, Makoto Ando: Biological- and Chemical- Parallel Applications on a PC Cluster. ISHPC 1999: 220-233

Makoto Ando, Yutaka Akiyama, Kentaro Onizuka, Tamotsu Noguchi: ESCAPE: Parallel Tree Search System for Conformational Analysis of Peptides. PDPTA 1999: 1537-1543

Yutaka Akiyama, Kiyotaka Misoo, Yoshiharu Omura, Hiroshi Matsumoto, Minoru Saito, Tamotsu Noguchi, Kentaro Onizuka, Makoto Ando: Parallelization of Space Plasma Particle Simulation. ISHPC 1997: 281-292

Kentaro Onizuka, Tamotsu Noguchi, Minoru Saito, Yutaka Akiyama: Parallel PDB Data Retriever "PDB Diving Booster". ISHPC 1997: 389-396

Tamotsu Noguchi, Kentaro Onizuka, Yutaka Akiyama, Minoru Saito: PDB-REPRDB: A Database of Representative Protein Chains in PDB (Protein Data Bank). ISMB 1997: 214-217