Detection of genes in Escherichia coli sequences determined by genome projects and prediction of protein production levels, based on multivariate diversity in codon usage. - Shigehiko Kanaya; Yoshihiro Kudo; Yasukazu Nakamura; Toshimichi Ikemura (Comput. Appl. Biosci., 1996)

Condon usage tabulated from the international DNA sequence databases. - Yasukazu Nakamura; Ken-nosuke Wada; Yoshiko Wada; Hirofumi Doi; Shigehiko Kanaya; Takashi Gojobori; Toshimichi Ikemura (Nucleic Acids Res., 1996)

Codon usage tabulated from the international DNA sequence databases. - Yasukazu Nakamura; Takashi Gojobori; Toshimichi Ikemura (Nucleic Acids Res., 1997)

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)

Codon usage tabulated from the international DNA sequence databases; its status 1999. - Yasukazu Nakamura; Takashi Gojobori; Toshimichi Ikemura (Nucleic Acids Res., 1999)

Extension of CyanoBase. CyanoMutants: repository of mutant information on Synechocystis sp. strain PCC6803. - Yasukazu Nakamura; Takakazu Kaneko; Nobuyuki Miyajima; Satoshi Tabata (Nucleic Acids Res., 1999)

Codon usage tabulated from international DNA sequence databases: status for the year 2000. - Yasukazu Nakamura; Takashi Gojobori; Toshimichi Ikemura (Nucleic Acids Res., 2000)

CyanoBase, the genome database for Synechocystis sp. strain PCC6803: status for the year 2000. - Yasukazu Nakamura; Takakazu Kaneko; Satoshi Tabata (Nucleic Acids Res., 2000)

The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. - Toshiaki Katayama; Kazuharu Arakawa; Mitsuteru Nakao; Keiichiro Ono; Kiyoko F. Aoki-Kinoshita; Yasunori Yamamoto; Atsuko Yamaguchi; Shuichi Kawashima; Hong-Woo Chun; Jan Aerts; Bruno Aranda; Lord H. Barboza; et al. (J. Biomed. Semant., 2010)

DDBJ launches a new archive database with analytical tools for next-generation sequence data. - Eli Kaminuma; Jun Mashima; Yuichi Kodama; Takashi Gojobori; Osamu Ogasawara; Kousaku Okubo; Toshihisa Takagi; Yasukazu Nakamura (Nucleic Acids Res., 2010)

CyanoBase: the cyanobacteria genome database update 2010. - Mitsuteru Nakao; Shinobu Okamoto; Mitsuyo Kohara; Tsunakazu Fujishiro; Takatomo Fujisawa; Shusei Sato; Satoshi Tabata; Takakazu Kaneko; Yasukazu Nakamura (Nucleic Acids Res., 2010)

The 2nd DBCLS BioHackathon: interoperable bioinformatics Web services for integrated applications. - Toshiaki Katayama; Mark D. Wilkinson; Rutger A. Vos; Takeshi Kawashima; Shuichi Kawashima; Mitsuteru Nakao; Yasunori Yamamoto; Hong-Woo Chun; Atsuko Yamaguchi; Shin Kawano; Jan Aerts; Kiyoko F. Aoki-Kinoshita; et al. (J. Biomed. Semant., 2011)

The International Nucleotide Sequence Database Collaboration. - Guy Cochrane; Ilene Karsch-Mizrachi; Yasukazu Nakamura (Nucleic Acids Res., 2011)

DDBJ progress report. - Eli Kaminuma; Takehide Kosuge; Yuichi Kodama; Hideo Aono; Jun Mashima; Takashi Gojobori; Hideaki Sugawara; Osamu Ogasawara; Toshihisa Takagi; Kousaku Okubo; Yasukazu Nakamura (Nucleic Acids Res., 2011)

The DNA Data Bank of Japan launches a new resource, the DDBJ Omics Archive of functional genomics experiments. - Yuichi Kodama; Jun Mashima; Eli Kaminuma; Takashi Gojobori; Osamu Ogasawara; Toshihisa Takagi; Kousaku Okubo; Yasukazu Nakamura (Nucleic Acids Res., 2012)

H2DB: a heritability database across multiple species by annotating trait-associated genomic loci. - Eli Kaminuma; Takatomo Fujisawa; Yasuhiro Tanizawa; Naoko Sakamoto; Nori Kurata; Tokurou Shimizu; Yasukazu Nakamura (Nucleic Acids Res., 2013)

DDBJ new system and service refactoring. - Osamu Ogasawara; Jun Mashima; Yuichi Kodama; Eli Kaminuma; Yasukazu Nakamura; Kousaku Okubo; Toshihisa Takagi (Nucleic Acids Res., 2013)

CyanoBase and RhizoBase: databases of manually curated annotations for cyanobacterial and rhizobial genomes. - Takatomo Fujisawa; Shinobu Okamoto; Toshiaki Katayama; Mitsuteru Nakao; Hidehisa Yoshimura; Hiromi Kajiya-Kanegae; Sumiko Yamamoto; Chiyoko Yano; Yuka Yanaka; Hiroko Maita; Takakazu Kaneko; Satoshi Tabata; et al. (Nucleic Acids Res., 2014)

DDBJ progress report: a new submission system for leading to a correct annotation. - Takehide Kosuge; Jun Mashima; Yuichi Kodama; Takatomo Fujisawa; Eli Kaminuma; Osamu Ogasawara; Kousaku Okubo; Toshihisa Takagi; Yasukazu Nakamura (Nucleic Acids Res., 2014)

The DDBJ Japanese Genotype-phenotype Archive for genetic and phenotypic human data. - Yuichi Kodama; Jun Mashima; Takehide Kosuge; Toshiaki Katayama; Takatomo Fujisawa; Eli Kaminuma; Osamu Ogasawara; Kousaku Okubo; Toshihisa Takagi; Yasukazu Nakamura (Nucleic Acids Res., 2015)

DNA data bank of Japan (DDBJ) progress report. - Jun Mashima; Yuichi Kodama; Takehide Kosuge; Takatomo Fujisawa; Toshiaki Katayama; Hideki Nagasaki; Yoshihiro Okuda; Eli Kaminuma; Osamu Ogasawara; Kousaku Okubo; Yasukazu Nakamura; Toshihisa Takagi (Nucleic Acids Res., 2016)

CyanoBase: a large-scale update on its 20th anniversary. - Takatomo Fujisawa; Rei Narikawa; Shin-ichi Maeda; Satoru Watanabe; Yu Kanesaki; Koichi Kobayashi; Jiro Nomata; Mitsumasa Hanaoka; Mai Watanabe; Shigeki Ehira; Eiji Suzuki; Koichiro Awai; et al. (Nucleic Acids Res., 2017)

DNA Data Bank of Japan. - Jun Mashima; Yuichi Kodama; Takatomo Fujisawa; Toshiaki Katayama; Yoshihiro Okuda; Eli Kaminuma; Osamu Ogasawara; Kousaku Okubo; Yasukazu Nakamura; Toshihisa Takagi (Nucleic Acids Res., 2017)

DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication. - Yasuhiro Tanizawa; Takatomo Fujisawa; Yasukazu Nakamura (Bioinform., 2018)

DNA Data Bank of Japan: 30th anniversary. - Yuichi Kodama; Jun Mashima; Takehide Kosuge; Eli Kaminuma; Osamu Ogasawara; Kousaku Okubo; Yasukazu Nakamura; Toshihisa Takagi (Nucleic Acids Res., 2018)

DNA Data Bank of Japan (DDBJ) update report 2022. - Yasuhiro Tanizawa; Takatomo Fujisawa; Yuichi Kodama; Takehide Kosuge; Jun Mashima; Tomoya Tanjo; Yasukazu Nakamura (Nucleic Acids Res., 2023)

A practical assembly guideline for genomes with various levels of heterozygosity. - Takako Mochizuki; Mika Sakamoto; Yasuhiro Tanizawa; Takuro Nakayama; Goro Tanifuji; Ryoma Kamikawa; Yasukazu Nakamura (Briefings Bioinform., 2023)

DFAST_QC: quality assessment and taxonomic identification tool for prokaryotic Genomes. - Mohamed Elmanzalawi; Takatomo Fujisawa; Hiroshi Mori; Yasukazu Nakamura; Yasuhiro Tanizawa (BMC Bioinform., 2025)