The diversification of proto-cells driven by membrane permselectivity. - Masaomi Hatakeyama; Takashi Hashimoto (Artif. Life Robotics, 2008)

Minimum Nomic: a tool for studying rule dynamics. - Masaomi Hatakeyama; Takashi Hashimoto (Artif. Life Robotics, 2009)

SUSHI: an exquisite recipe for fully documented, reproducible and reusable NGS data analysis. - Masaomi Hatakeyama; Lennart Opitz; Giancarlo Russo; Weihong Qi; Ralph Schlapbach; Hubert Rehrauer (BMC Bioinform., 2016)

Homeolog expression quantification methods for allopolyploids. - Tony C. Y. Kuo; Masaomi Hatakeyama; Toshiaki Tameshige; Kentaro K. Shimizu; Jun Sese (Briefings Bioinform., 2020)