Sequence search on a supercomputer. - Osamu Gotoh; Y. Tagashira (Nucleic Acids Res., 1986)

Pattern matching of biological sequences with limited storage. - Osamu Gotoh (Comput. Appl. Biosci., 1987)

Optimal alignment between groups of sequences and its application to multiple sequence alignment. - Osamu Gotoh (Comput. Appl. Biosci., 1993)

Further improvement in methods of group-to-group sequence alignment with generalized profile operations. - Osamu Gotoh (Comput. Appl. Biosci., 1994)

A weighting system and algorithm for aligning many phylogenetically related sequences. - Osamu Gotoh (Comput. Appl. Biosci., 1995)

Homology-based gene structure prediction: simplified matching algorithm using a translated codon (tron) and improved accuracy by allowing for long gaps. - Osamu Gotoh (Bioinform., 2000)

Automated classification of alternative splicing and transcriptional initiation and construction of visual database of classified patterns. - Hideki Nagasaki; Masanori Arita; Tatsuya Nishizawa; Makiko Suwa; Osamu Gotoh (Bioinform., 2006)

Improvement in accuracy of multiple sequence alignment using novel group-to-group sequence alignment algorithm with piecewise linear gap cost. - Shinsuke Yamada; Osamu Gotoh; Hayato Yamana (BMC Bioinform., 2006)

A Novel Method for Reducing Computational Complexity of Whole Genome Sequence Alignment. - Ryuichiro Nakato; Osamu Gotoh (APBC, 2008)

Direct mapping and alignment of protein sequences onto genomic sequence. - Osamu Gotoh (Bioinform., 2008)

Improvement in Speed and Accuracy of Multiple Sequence Alignment Program PRIME. - Shinsuke Yamada; Osamu Gotoh; Hayato Yamana (Inf. Media Technol., 2009)

Cgaln: fast and space-efficient whole-genome alignment. - Ryuichiro Nakato; Osamu Gotoh (BMC Bioinform., 2010)

Large-scale motif discovery using DNA Gray code and equiprobable oligomers. - Natsuhiro Ichinose; Tetsushi Yada; Osamu Gotoh (Bioinform., 2012)

Assessment and refinement of eukaryotic gene structure prediction with gene-structure-aware multiple protein sequence alignment. - Osamu Gotoh; Mariko Morita; David R. Nelson (BMC Bioinform., 2014)

Modeling one thousand intron length distributions with fitild. - Osamu Gotoh (Bioinform., 2018)