MathDAMP: a package for differential analysis of metabolite profiles. - Richard Baran; Hayataro Kochi; Natsumi Saito; Makoto Suematsu; Tomoyoshi Soga; Takaaki Nishioka; Martin Robert; Masaru Tomita (BMC Bioinform., 2006)

HybGFS: a hybrid method for genome-fingerprint scanning. - Kosaku Shinoda; Nozomu Yachie; Takeshi Masuda; Naoyuki Sugiyama; Masahiro Sugimoto; Tomoyoshi Soga; Masaru Tomita (BMC Bioinform., 2006)

Visualization of three-way comparisons of omics data. - Richard Baran; Martin Robert; Makoto Suematsu; Tomoyoshi Soga; Masaru Tomita (BMC Bioinform., 2007)

Time-resolved metabolomics reveals metabolic modulation in rice foliage. - Shigeru Sato; Masanori Arita; Tomoyoshi Soga; Takaaki Nishioka; Masaru Tomita (BMC Syst. Biol., 2008)

MMMDB: Mouse Multiple Tissue Metabolome Database. - Masahiro Sugimoto; Satsuki Ikeda; Kanako Niigata; Masaru Tomita; Hideyo Sato; Tomoyoshi Soga (Nucleic Acids Res., 2012)

The dynamics of cellular energetics during continuous yeast culture. - Cornelia Amariei; Rainer Machné; Kalesh Sasidharan; Willi Gottstein; Masaru Tomita; Tomoyoshi Soga; David Lloyd; Douglas B. Murray (EMBC, 2013)