Improvement of Protein-Protein Interaction Prediction by Integrating Template-Based and Template-Free Protein Docking. - Masahito Ohue; Yuri Matsuzaki; Takehiro Shimoda; Takashi Ishida 002; Yutaka Akiyama (BCB, 2013)

MEGADOCK-GPU: Acceleration of Protein-Protein Docking Calculation on GPUs. - Takehiro Shimoda; Takashi Ishida 002; Shuji Suzuki; Masahito Ohue; Yutaka Akiyama (BCB, 2013)

The MEGADOCK project: Ultra-high-speed protein-protein interaction prediction tools on supercomputing environments. - Takehiro Shimoda; Masahito Ohue; Yuri Matsuzaki; Takayuki Fujiwara; Nobuyuki Uchikoga; Takashi Ishida 002; Yutaka Akiyama (BCB, 2013)

MEGADOCK 3.0: a high-performance protein-protein interaction prediction software using hybrid parallel computing for petascale supercomputing environments. - Yuri Matsuzaki; Nobuyuki Uchikoga; Masahito Ohue; Takehiro Shimoda; Toshiyuki Sato; Takashi Ishida 002; Yutaka Akiyama (Source Code Biol. Medicine, 2013)

MEGADOCK 4.0: an ultra-high-performance protein-protein docking software for heterogeneous supercomputers. - Masahito Ohue; Takehiro Shimoda; Shuji Suzuki; Yuri Matsuzaki; Takashi Ishida 002; Yutaka Akiyama (Bioinform., 2014)

Protein-protein docking on hardware accelerators: comparison of GPU and MIC architectures. - Takehiro Shimoda; Shuji Suzuki; Masahito Ohue; Takashi Ishida 002; Yutaka Akiyama (BMC Syst. Biol., 2015)