Folding Simulation using Temperature Parallel Simulated Annealing. - Makoto Hirosawa; Richard Feldmann; David Rawn; Masato Ishikawa; Masaki Hoshida; George Michaels (FGCS, 1992)

Protein Sequence Analysis by Parallel Inference Machine. - Masato Ishikawa; Masaki Hoshida; Makoto Hirosawa; Tomoyuki Toya; Kentaro Onizuka; Katsumi Nitta (FGCS, 1992)

MASCOT: multiple alignment system for protein sequences based on three- way dynamic programming. - Makoto Hirosawa; Masaki Hoshida; Masato Ishikawa; Tomoyuki Toya (Comput. Appl. Biosci., 1993)

Comprehensive study on iterative algorithms of multiple sequence alignment. - Makoto Hirosawa; Yasushi Totoki; Masaki Hoshida; Masato Ishikawa (Comput. Appl. Biosci., 1995)

Gene Recognition in Cyanobacterium Genomic Sequence Data Using the Hidden Markov Model. - Tetsushi Yada; Makoto Hirosawa (ISMB, 1996)

CyanoBase, a www database containing the complete nucleotide sequence of the genome of Synechocystis sp. strain PCC6803. - Yasukazu Nakamura; Takakazu Kaneko; Makoto Hirosawa; Nobuyuki Miyajima; Satoshi Tabata (Nucleic Acids Res., 1998)

HUGE: a database for human large proteins identified in the Kazusa cDNA sequencing project. - Reiko Kikuno; Takahiro Nagase; Mikita Suyama; Mina Waki; Makoto Hirosawa; Osamu Ohara (Nucleic Acids Res., 2000)