GENIUS II: a high-throughput database system for linking ORFs in complete genomes to known protein three-dimensional structures. - Yukimitsu Yabuki; Yuri Mukai; Mark B. Swindells; Makiko Suwa (Bioinform., 2004)

GRIFFIN: a system for predicting GPCR-G-protein coupling selectivity using a support vector machine and a hidden Markov model. - Yukimitsu Yabuki; Takahiko Muramatsu; Takatsugu Hirokawa; Hidehito Mukai; Makiko Suwa (Nucleic Acids Res., 2005)

TMB Finding Pipeline: Novel Approach for Detecting β-Barrel Membrane Proteins in Genomic Sequences. - M. Michael Gromiha; Yukimitsu Yabuki; Makiko Suwa (J. Chem. Inf. Model., 2007)

TMBETA-GENOME: database for annotated ß-barrel membrane proteins in genomic sequences. - M. Michael Gromiha; Yukimitsu Yabuki; Srinesh Kundu; Sivasundaram Suharnan; Makiko Suwa (Nucleic Acids Res., 2007)

Functional discrimination of membrane proteins using machine learning techniques. - M. Michael Gromiha; Yukimitsu Yabuki (BMC Bioinform., 2008)

TMFunction: database for functional residues in membrane proteins. - M. Michael Gromiha; Yukimitsu Yabuki; M. Xavier Suresh; A. Mary Thangakani; Makiko Suwa; Kazuhiko Fukui (Nucleic Acids Res., 2009)

ToGo-WF: prediction of RNA tertiary structures and RNA-RNA/protein interactions using the KNIME workflow. - Satoshi Yamasaki; Takayuki Amemiya; Yukimitsu Yabuki; Katsuhisa Horimoto; Kazuhiko Fukui (J. Comput. Aided Mol. Des., 2019)