An approach to systematic detection of protein structural motifs. - Yo Matsuo; Minoru Kanehisa (Comput. Appl. Biosci., 1993)

Prediction of protein secondary structure using the 3D-1D compatibility algorithm. - Masahiro Ito; Yo Matsuo; Ken Nishikawa (Comput. Appl. Biosci., 1997)

MMDB: Entrez's 3D structure database. - Aron Marchler-Bauer; Kenneth J. Addess; Colombe Chappey; Lewis Y. Geer; Thomas Madej; Yo Matsuo; Yanli Wang; Stephen H. Bryant (Nucleic Acids Res., 1999)

AltPS: A Structural Alignment Tool for Protein Surfaces Using Similarity of Local Atomic Environments. - Ryoichi Minai; Yo Matsuo (Inf. Media Technol., 2010)