An evolutionary algorithm taking account of mutual interactions among substances for inference of genetic networks. - Isao Ono; Yoshiaki Seike; Ryohei Morishita; Norihiko Ono; Masahiko Nakatsui; Masahiro Okamoto (IEEE Congress on Evolutionary Computation, 2004)

A General Procedure for Accurate Parameter Estimation in Dynamic Systems Using New Estimation Errors. - Masahiko Nakatsui; Alexandre Sedoglavic; François Lemaire; François Boulier; Asli Ürgüplü; Katsuhisa Horimoto (ANB, 2010)

Improvement of estimation accuracy in parameter optimization by symbolic computation. - Masahiko Nakatsui; Katsuhisa Horimoto (CACSD, 2010)

Parameter optimization by using differential elimination: a general approach for introducing constraints into objective functions. - Masahiko Nakatsui; Katsuhisa Horimoto; Masahiro Okamoto; Yasuhito Tokumoto; Jun Miyake (BMC Syst. Biol., 2010)

Chemogenomic approach to comprehensive predictions of ligand-target interactions: A comparative study. - J. B. Brown; Satoshi Niijima; Akira Shiraishi; Masahiko Nakatsui; Yasushi Okuno (BIBM Workshops, 2012)

An approach for dynamical network reconstruction of simple network motifs. - Masahiko Nakatsui; Michihiro Araki; Akihiko Kondo (BMC Syst. Biol., 2013)

Chemical Genomics Approach for GPCR-Ligand Interaction Prediction and Extraction of Ligand Binding Determinants. - Akira Shiraishi; Satoshi Niijima; J. B. Brown; Masahiko Nakatsui; Yasushi Okuno (J. Chem. Inf. Model., 2013)

M-path: a compass for navigating potential metabolic pathways. - Michihiro Araki; Robert Sidney Cox III; Hiroki Makiguchi; Teppei Ogawa; Takeshi Taniguchi; Kohei Miyaoku; Masahiko Nakatsui; Kiyotaka Y. Hara; Akihiko Kondo (Bioinform., 2015)

The Effect of Conformational Flexibility on Binding Free Energy Estimation between Kinases and Their Inhibitors. - Mitsugu Araki; Narutoshi Kamiya; Miwa Sato; Masahiko Nakatsui; Takatsugu Hirokawa; Yasushi Okuno (J. Chem. Inf. Model., 2016)

Construction of Knowledge-Base for Clinical Interpretation of Genomic Variants. - Mayumi Kamada; Toshiaki Katayama; Shuichi Kawashima; Ryosuke Kojima; Masahiko Nakatsui; Yasushi Okuno (SWAT4LS, 2017)

Med2RDF: Semantic Biomedical Knowledge-base and APIs for the Clinical Genome Medicine. - Mayumi Kamada; Toshiaki Katayama; Shuichi Kawashima; Ryosuke Kojima; Masahiko Nakatsui; Yasushi Okuno (SWAT4HCLS, 2019)

Editorial: Systems bioinformatics for medicine. - Yoshiyuki Asai; Masahiko Nakatsui; Hiroshi Matsuno (Biosyst., 2024)