AS-ALPS: a database for analyzing the effects of alternative splicing on protein structure, interaction and network in human and mouse. - Masafumi Shionyu; Akihiro Yamaguchi; Kazuki Shinoda; Ken-ichi Takahashi; Mitiko Go (Nucleic Acids Res., 2009)

AS-EAST: a functional annotation tool for putative proteins encoded by alternatively spliced transcripts. - Masafumi Shionyu; Ken-ichi Takahashi; Mitiko Go (Bioinform., 2012)

DINE: A Novel Score Function for Modeling Multidomain Protein Structures with Domain Linker and Interface Restraints. - Satoru Hirako; Masafumi Shionyu (Inf. Media Technol., 2012)