Software tool for gene mapping: gRanch. - Yasuhiko Wada; K. Inoue; K. Ohga; Hiroshi Yasue (Comput. Appl. Biosci., 1997)

Transposon Insertion Finder (TIF): a novel program for detection of de novo transpositions of transposable elements. - Mariko Nakagome; Elena Solovieva; Akira Takahashi; Hiroshi Yasue; Hirohiko Hirochika; Akio Miyao (BMC Bioinform., 2014)

Polymorphic edge detection (PED): two efficient methods of polymorphism detection from next-generation sequencing data. - Akio Miyao; Jianyu Song Kiyomiya; Keiko Iida; Koji Doi; Hiroshi Yasue (BMC Bioinform., 2019)