DREAM-1A: Special-Purpose Computer for Computational Fluid Dynamics. - Yousuke Ohno; Junichiro Makino; Izumi Hachisu; Toshikazu Ebisuzaki; Daiichiro Sugimoto (HICSS (1), 1994)

MDGRAPE-3: A Petaflops Special-Purpose Computer System for Molecular Dynamics Simulations. - Makoto Taiji; Tetsu Narumi; Yousuke Ohno; Akihiko Konagaya (PARCO, 2003)

Protein Explorer: A Petaflops Special-Purpose Computer System for Molecular Dynamics Simulations. - Makoto Taiji; Tetsu Narumi; Yousuke Ohno; Noriyuki Futatsugi; Atsushi Suenaga; Naoki Takada; Akihiko Konagaya (SC, 2003)

Gordon Bell finalists II - A 55 TFLOPS simulation of amyloid-forming peptides from yeast prion Sup35 with the special-purpose computer system MDGRAPE-3. - Tetsu Narumi; Yousuke Ohno; Noriaki Okimoto; Takahiro Koishi; Atsushi Suenaga; Noriyuki Futatsugi; Ryoko Yanai; Ryutaro Himeno; Shigenori Fujikawa; Makoto Taiji; Mitsuru Ikei (SC, 2006)

A Role Casting Method Based on Emotions in a Story Generation System. - Ruck Thawonmas; Masanao Kamozaki; Yousuke Ohno (ICEC, 2007)

A 281 Tflops calculation for X-ray protein structure analysis with special-purpose computers MDGRAPE-3. - Yousuke Ohno; Eiji Nishibori; Tetsu Narumi; Takahiro Koishi; Tahir H. Tahirov; Hideo Ago; Masashi Miyano; Ryutaro Himeno; Toshikazu Ebisuzaki; Makoto Sakata; Makoto Taiji (SC, 2007)

A novel multiple-walk parallel algorithm for the Barnes-Hut treecode on GPUs - towards cost effective, high performance N-body simulation. - Tsuyoshi Hamada; Keigo Nitadori; Khaled Benkrid; Yousuke Ohno; Gentaro Morimoto; Tomonari Masada; Yuichiro Shibata; Kiyoshi Oguri; Makoto Taiji (Comput. Sci. Res. Dev., 2009)

High-Performance Drug Discovery: Computational Screening by Combining Docking and Molecular Dynamics Simulations. - Noriaki Okimoto; Noriyuki Futatsugi; Hideyoshi Fuji; Atsushi Suenaga; Gentaro Morimoto; Ryoko Yanai; Yousuke Ohno; Tetsu Narumi; Makoto Taiji (PLoS Comput. Biol., 2009)

A state recognition method based on screen images toward advanced integrated operation management support. - Kenichi Nishikawa; Takeshi Masuda; Yousuke Ohno; Yukio Akiyama (Integrated Network Management, 2011)

Petascale molecular dynamics simulation using the fast multipole method on K computer. - Yousuke Ohno; Rio Yokota; Hiroshi Koyama; Gentaro Morimoto; Aki Hasegawa; Gen Masumoto; Noriaki Okimoto; Yoshinori Hirano; Huda Ibeid; Tetsu Narumi; Makoto Taiji (Comput. Phys. Commun., 2014)

Hardware acceleration of tensor-structured multilevel ewald summation method on MDGRAPE-4A, a special-purpose computer system for molecular dynamics simulations. - Gentaro Morimoto; Yohei M. Koyama; Hao Zhang; Teruhisa S. Komatsu; Yousuke Ohno; Keigo Nishida; Itta Ohmura; Hiroshi Koyama; Makoto Taiji (SC, 2021)