Yasukazu Nakamura

31 papers Journal 31
YearRankTypeTitle / Venue / Authors
2025 J jnl
DFAST_QC: quality assessment and taxonomic identification tool for prokaryotic Genomes.
BMC Bioinform.
Mohamed Elmanzalawi, Takatomo Fujisawa, Hiroshi Mori, Yasukazu Nakamura, Yasuhiro Tanizawa
2023 J jnl
A practical assembly guideline for genomes with various levels of heterozygosity.
Briefings Bioinform.
Takako Mochizuki, Mika Sakamoto, Yasuhiro Tanizawa, Takuro Nakayama, Goro Tanifuji, Ryoma Kamikawa, Yasukazu Nakamura
2023 J jnl
DNA Data Bank of Japan (DDBJ) update report 2022.
Nucleic Acids Res.
Yasuhiro Tanizawa, Takatomo Fujisawa, Yuichi Kodama, Takehide Kosuge, Jun Mashima, Tomoya Tanjo, Yasukazu Nakamura
2018 J jnl
DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication.
Bioinform.
Yasuhiro Tanizawa, Takatomo Fujisawa, Yasukazu Nakamura
2018 J jnl
DNA Data Bank of Japan: 30th anniversary.
Nucleic Acids Res.
Yuichi Kodama, Jun Mashima, Takehide Kosuge, Eli Kaminuma, Osamu Ogasawara, Kousaku Okubo, Yasukazu Nakamura, Toshihisa Takagi
2017 J jnl
CyanoBase: a large-scale update on its 20th anniversary.
Nucleic Acids Res.
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, Yasukazu Nakamura
2017 J jnl
DNA Data Bank of Japan.
Nucleic Acids Res.
Jun Mashima, Yuichi Kodama, Takatomo Fujisawa, Toshiaki Katayama, Yoshihiro Okuda, Eli Kaminuma, Osamu Ogasawara, Kousaku Okubo, Yasukazu Nakamura, Toshihisa Takagi
2016 J jnl
DNA data bank of Japan (DDBJ) progress report.
Nucleic Acids Res.
Jun Mashima, Yuichi Kodama, Takehide Kosuge, Takatomo Fujisawa, Toshiaki Katayama, Hideki Nagasaki, Yoshihiro Okuda, Eli Kaminuma, Osamu Ogasawara, Kousaku Okubo, Yasukazu Nakamura, Toshihisa Takagi
2015 J jnl
The DDBJ Japanese Genotype-phenotype Archive for genetic and phenotypic human data.
Nucleic Acids Res.
Yuichi Kodama, Jun Mashima, Takehide Kosuge, Toshiaki Katayama, Takatomo Fujisawa, Eli Kaminuma, Osamu Ogasawara, Kousaku Okubo, Toshihisa Takagi, Yasukazu Nakamura
2014 J jnl
CyanoBase and RhizoBase: databases of manually curated annotations for cyanobacterial and rhizobial genomes.
Nucleic Acids Res.
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, Yasukazu Nakamura
2014 J jnl
DDBJ progress report: a new submission system for leading to a correct annotation.
Nucleic Acids Res.
Takehide Kosuge, Jun Mashima, Yuichi Kodama, Takatomo Fujisawa, Eli Kaminuma, Osamu Ogasawara, Kousaku Okubo, Toshihisa Takagi, Yasukazu Nakamura
2013 J jnl
DDBJ new system and service refactoring.
Nucleic Acids Res.
Osamu Ogasawara, Jun Mashima, Yuichi Kodama, Eli Kaminuma, Yasukazu Nakamura, Kousaku Okubo, Toshihisa Takagi
2013 J jnl
H2DB: a heritability database across multiple species by annotating trait-associated genomic loci.
Nucleic Acids Res.
Eli Kaminuma, Takatomo Fujisawa, Yasuhiro Tanizawa, Naoko Sakamoto, Nori Kurata, Tokurou Shimizu, Yasukazu Nakamura
2013 J jnl
The International Nucleotide Sequence Database Collaboration.
Nucleic Acids Res.
Yasukazu Nakamura, Guy Cochrane, Ilene Karsch-Mizrachi
2012 J jnl
The DNA Data Bank of Japan launches a new resource, the DDBJ Omics Archive of functional genomics experiments.
Nucleic Acids Res.
Yuichi Kodama, Jun Mashima, Eli Kaminuma, Takashi Gojobori, Osamu Ogasawara, Toshihisa Takagi, Kousaku Okubo, Yasukazu Nakamura
2012 J jnl
The International Nucleotide Sequence Database Collaboration.
Nucleic Acids Res.
Ilene Karsch-Mizrachi, Yasukazu Nakamura, Guy Cochrane
2011 J jnl
DDBJ progress report.
Nucleic Acids Res.
Eli Kaminuma, Takehide Kosuge, Yuichi Kodama, Hideo Aono, Jun Mashima, Takashi Gojobori, Hideaki Sugawara, Osamu Ogasawara, Toshihisa Takagi, Kousaku Okubo, Yasukazu Nakamura
2011 J jnl
The 2nd DBCLS BioHackathon: interoperable bioinformatics Web services for integrated applications.
J. Biomed. Semant.
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, Kazuharu Arakawa, Bruno Aranda, Raoul Jean Pierre Bonnal, José María Fernández, Takatomo Fujisawa, Paul M. K. Gordon, Naohisa Goto, Syed Haider, Todd W. Harris, Takashi Hatakeyama, Isaac Ho, Masumi Itoh, Arek Kasprzyk, Nobuhiro Kido, Young-Joo Kim, Akira R. Kinjo, Fumikazu Konishi, Yulia Kovarskaya, Gregory Von Kuster, Alberto Labarga, Vachiranee Limviphuvadh, E. Luke McCarthy, Yasukazu Nakamura, Yunsun Nam, Kozo Nishida, Kunihiro Nishimura, Tatsuya Nishizawa, Soichi Ogishima, Tom Oinn, Shinobu Okamoto, Shujiro Okuda, Keiichiro Ono, Kazuki Oshita, Keun-Joon Park, Nicholas H. Putnam, Martin Senger, Jessica Severin, Yasumasa Shigemoto, Hideaki Sugawara, James Taylor, Oswaldo Trelles, Chisato Yamasaki, Riu Yamashita, Noriyuki Satoh, Toshihisa Takagi
2011 J jnl
The International Nucleotide Sequence Database Collaboration.
Nucleic Acids Res.
Guy Cochrane, Ilene Karsch-Mizrachi, Yasukazu Nakamura
2010 J jnl
CyanoBase: the cyanobacteria genome database update 2010.
Nucleic Acids Res.
Mitsuteru Nakao, Shinobu Okamoto, Mitsuyo Kohara, Tsunakazu Fujishiro, Takatomo Fujisawa, Shusei Sato, Satoshi Tabata, Takakazu Kaneko, Yasukazu Nakamura
2010 J jnl
DDBJ launches a new archive database with analytical tools for next-generation sequence data.
Nucleic Acids Res.
Eli Kaminuma, Jun Mashima, Yuichi Kodama, Takashi Gojobori, Osamu Ogasawara, Kousaku Okubo, Toshihisa Takagi, Yasukazu Nakamura
2010 J jnl
The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows.
J. Biomed. Semant.
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, Raoul Jean Pierre Bonnal, Richard M. Bruskiewich, Jan Christian Bryne, José María Fernández, Akira Funahashi, Paul M. K. Gordon, Naohisa Goto, Andreas Groscurth, Alex Gutteridge, Richard C. G. Holland, Yoshinobu Kano, Edward A. Kawas, Arnaud Kerhornou, Eri Kibukawa, Akira R. Kinjo, Michael Kuhn, Hilmar Lapp, Heikki Lehväslaiho, Hiroyuki Nakamura, Yasukazu Nakamura, Tatsuya Nishizawa, Chikashi Nobata, Tamotsu Noguchi, Thomas M. Oinn, Shinobu Okamoto, Stuart Owen, Evangelos Pafilis, Matthew R. Pocock, Pjotr Prins, René Ranzinger, Florian Reisinger, Lukasz Salwínski, Mark J. Schreiber, Martin Senger, Yasumasa Shigemoto, Daron M. Standley, Hideaki Sugawara, Toshiyuki Tashiro, Oswaldo Trelles, Rutger A. Vos, Mark D. Wilkinson, William S. York, Christian M. Zmasek, Kiyoshi Asai, Toshihisa Takagi
2000 J jnl
Codon usage tabulated from international DNA sequence databases: status for the year 2000.
Nucleic Acids Res.
Yasukazu Nakamura, Takashi Gojobori, Toshimichi Ikemura
2000 J jnl
CyanoBase, the genome database for Synechocystis sp. strain PCC6803: status for the year 2000.
Nucleic Acids Res.
Yasukazu Nakamura, Takakazu Kaneko, Satoshi Tabata
1999 J jnl
Codon usage tabulated from the international DNA sequence databases; its status 1999.
Nucleic Acids Res.
Yasukazu Nakamura, Takashi Gojobori, Toshimichi Ikemura
1999 J jnl
Extension of CyanoBase. CyanoMutants: repository of mutant information on Synechocystis sp. strain PCC6803.
Nucleic Acids Res.
Yasukazu Nakamura, Takakazu Kaneko, Nobuyuki Miyajima, Satoshi Tabata
1998 J jnl
Codon usage tabulated from the international DNA sequence databases.
Nucleic Acids Res.
Yasukazu Nakamura, Takashi Gojobori, Toshimichi Ikemura
1998 J jnl
CyanoBase, a www database containing the complete nucleotide sequence of the genome of Synechocystis sp. strain PCC6803.
Nucleic Acids Res.
Yasukazu Nakamura, Takakazu Kaneko, Makoto Hirosawa, Nobuyuki Miyajima, Satoshi Tabata
1997 J jnl
Codon usage tabulated from the international DNA sequence databases.
Nucleic Acids Res.
Yasukazu Nakamura, Takashi Gojobori, Toshimichi Ikemura
1996 J jnl
Condon usage tabulated from the international DNA sequence databases.
Nucleic Acids Res.
Yasukazu Nakamura, Ken-nosuke Wada, Yoshiko Wada, Hirofumi Doi, Shigehiko Kanaya, Takashi Gojobori, Toshimichi Ikemura
1996 J jnl
Detection of genes in Escherichia coli sequences determined by genome projects and prediction of protein production levels, based on multivariate diversity in codon usage.
Comput. Appl. Biosci.
Shigehiko Kanaya, Yoshihiro Kudo, Yasukazu Nakamura, Toshimichi Ikemura