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CyanoBase and RhizoBase: databases of manually curated annotations for cyanobacterial and rhizobial genomes.
Published in:
Nucleic Acids Research, 2014, v. 42, n. D1, p. D666, doi. 10.1093/nar/gkt1145
By:
- Fujisawa, Takatomo;
- Okamoto, Shinobu;
- Katayama, Toshiaki;
- Nakao, Mitsuteru;
- Yoshimura, Hidehisa;
- Kajiya-Kanegae, Hiromi;
- Yamamoto, Sumiko;
- Yano, Chiyoko;
- Yanaka, Yuka;
- Maita, Hiroko;
- Kaneko, Takakazu;
- Tabata, Satoshi;
- Nakamura, Yasukazu
Publication type:
Article
CyanoBase: the cyanobacteria genome database update 2010.
Published in:
Nucleic Acids Research, 2010, v. 38, p. D379, doi. 10.1093/nar/gkp915
By:
- Mitsuteru Nakao;
- Shinobu Okamoto;
- Mitsuyo Kohara;
- Tsunakazu Fujishiro;
- Takatomo Fujisawa;
- Shusei Sato;
- Satoshi Tabata;
- Takakazu Kaneko;
- Yasukazu Nakamura
Publication type:
Article
Characterization of Genes Encoding Multi-domain Proteins in the Genome of the Filamentous Nitrogen-fixing Cyanobacterium Anabaena sp. Strain PCC 7120.
Published in:
DNA Research, 2001, v. 8, n. 6, p. 271, doi. 10.1093/dnares/8.6.271
By:
- Ohmori, Masayuki;
- Ikeuchi, Masahiko;
- Sato, Naoki;
- Wolk, Peter;
- Kaneko, Takakazu;
- Ogawa, Teruo;
- Kanehisa, Minoru;
- Goto, Susumu;
- Kawashima, Shuichi;
- Okamoto, Shinobu;
- Yoshimura, Hidehisa;
- Katoh, Hiroshi;
- Fujisawa, Takatomo;
- Ehira, Shigeki;
- Kamei, Ayako;
- Yoshihara, Shizue;
- Narikawa, Rei;
- Tabata, Satoshi
Publication type:
Article
Experimental Analysis of Recently Transposed Insertion Sequences in the Cyanobacterium Synechocystis sp. PCC 6803.
Published in:
DNA Research, 1999, v. 6, n. 5, p. 265, doi. 10.1093/dnares/6.5.265
By:
- Okamoto, Shinobu;
- Ikeuchi, Masahiko;
- Ohmori, Masayuki
Publication type:
Article
TogoID: an exploratory ID converter to bridge biological datasets.
Published in:
Bioinformatics, 2022, v. 38, n. 17, p. 4194, doi. 10.1093/bioinformatics/btac491
By:
- Ikeda, Shuya;
- Ono, Hiromasa;
- Ohta, Tazro;
- Chiba, Hirokazu;
- Naito, Yuki;
- Moriya, Yuki;
- Kawashima, Shuichi;
- Yamamoto, Yasunori;
- Okamoto, Shinobu;
- Goto, Susumu;
- Katayama, Toshiaki
Publication type:
Article
Implementation of linked data in the life sciences at BioHackathon 2011.
Published in:
Journal of Biomedical Semantics, 2015, v. 6, n. 1, p. 1, doi. 10.1186/2041-1480-6-3
By:
- Aoki-Kinoshita, Kiyoko F.;
- Kinjo, Akira R.;
- Mizuki Morita;
- Yoshinobu Igarashi;
- Yi-an Chen;
- Yasumasa Shigemoto;
- Takatomo Fujisawa;
- Yukie Akune;
- Takeo Katoda;
- Anna Kokubu;
- Takaaki Mori;
- Mitsuteru Nakao;
- Shuichi Kawashima;
- Shinobu Okamoto;
- Toshiaki Katayama;
- Soichi Ogishima
Publication type:
Article
Implementation of linked data in the life sciences at BioHackathon 2011.
Published in:
Journal of Biomedical Semantics, 2015, v. 6, n. 1, p. 38, doi. 10.1186/2041-1480-6-3
By:
- Aoki-Kinoshita, Kiyoko F.;
- Kinjo, Akira R.;
- Mizuki Morita;
- Yoshinobu Igarashi;
- Yi-an Chen;
- Yasumasa Shigemoto;
- Takatomo Fujisawa;
- Yukie Akune;
- Takeo Katoda;
- Anna Kokubu;
- Takaaki Mori;
- Mitsuteru Nakao;
- Shuichi Kawashima;
- Shinobu Okamoto;
- Toshiaki Katayama;
- Soichi Ogishima
Publication type:
Article
BioHackathon series in 2011 and 2012: penetration of ontology and linked data in life science domains.
Published in:
Journal of Biomedical Semantics, 2014, v. 5, n. 1, p. 1, doi. 10.1186/2041-1480-5-5
By:
- Toshiaki Katayama;
- Wilkinson, Mark D.;
- Kiyoko F. Aoki-Kinoshita;
- Shuichi Kawashima;
- Yasunori Yamamoto;
- Atsuko Yamaguchi;
- Shinobu Okamoto;
- Shin Kawano;
- Jin-Dong Kim;
- Yue Wang;
- Hongyan Wu;
- Yoshinobu Kano;
- Hiromasa Ono;
- Hidemasa Bono;
- Kocbek, Simon;
- Aerts, Jan;
- Yukie Akune;
- Antezana, Erick;
- Kazuharu Arakawa;
- Aranda, Bruno
Publication type:
Article
The 3rd DBCLS BioHackathon: improving life science data integration with Semantic Web technologies.
Published in:
Journal of Biomedical Semantics, 2013, v. 4, n. 1, p. 1, doi. 10.1186/2041-1480-4-6
By:
- Katayama, Toshiaki;
- Wilkinson, Mark D.;
- Micklem, Gos;
- Kawashima, Shuichi;
- Yamaguchi, Atsuko;
- Nakao, Mitsuteru;
- Yamamoto, Yasunori;
- Okamoto, Shinobu;
- Oouchida, Kenta;
- Hong-Woo Chun;
- Aerts, Jan;
- Afzal, Hammad;
- Antezana, Erick;
- Arakawa, Kazuharu;
- Aranda, Bruno;
- Belleau, Francois;
- Bolleman, Jerven;
- Bonnal, Raoul J. P.;
- Chapman, Brad;
- Cock, Peter J. A.
Publication type:
Article
Prediction of nitrogen metabolism-related genes in Anabaena by kernel-based network analysis.
Published in:
Proteomics, 2007, v. 7, n. 6, p. 900, doi. 10.1002/pmic.200600862
By:
- Okamoto, Shinobu;
- Yamanishi, Yoshihiro;
- Ehira, Shigeki;
- Kawashima, Shuichi;
- Tonomura, Koichiro;
- Kanehisa, Minoru
Publication type:
Article
TogoGenome/TogoStanza: modularized Semantic Web genome database.
Published in:
Database: The Journal of Biological Databases & Curation, 2019, v. 2019, p. N.PAG, doi. 10.1093/database/bay132
By:
- Katayama, Toshiaki;
- Kawashima, Shuichi;
- Okamoto, Shinobu;
- Moriya, Yuki;
- Chiba, Hirokazu;
- Naito, Yuki;
- Fujisawa, Takatomo;
- Mori, Hiroshi;
- Takagi, Toshihisa
Publication type:
Article
Loss of Cytochrome cM Stimulates Cyanobacterial Heterotrophic Growth in the Dark.
Published in:
Plant & Cell Physiology, 2015, v. 56, n. 2, p. 334, doi. 10.1093/pcp/pcu165
By:
- Hiraide, Yuto;
- Oshima, Kenshiro;
- Fujisawa, Takatomo;
- Uesaka, Kazuma;
- Hirose, Yuu;
- Tsujimoto, Ryoma;
- Yamamoto, Haruki;
- Okamoto, Shinobu;
- Nakamura, Yasukazu;
- Terauchi, Kazuki;
- Omata, Tatsuo;
- Ihara, Kunio;
- Hattori, Masahira;
- Fujita, Yuichi
Publication type:
Article
The Cyanobacterial PilT Protein Responsible for Cell Motility and Transformation Hydrolyzes ATP.
Published in:
Plant & Cell Physiology, 2002, v. 43, n. 10, p. 1127, doi. 10.1093/pcp/pcf128
By:
- Okamoto, Shinobu;
- Ohmori, Masayuki
Publication type:
Article
A cAMP Receptor Protein, SYCRP1, is Responsible for the Cell Motility of Synechocystis sp. PCC 6803.
Published in:
Plant & Cell Physiology, 2002, v. 43, n. 4, p. 460, doi. 10.1093/pcp/pcf050
By:
- Yoshimura, Hidehisa;
- Yoshihara, Shizue;
- Okamoto, Shinobu;
- Ohmori, Masayuki;
- Ikeuchi, Masahiko
Publication type:
Article
Mutational Analysis of Genes Involved in Pilus Structure, Motility and Transformation Competency in the Unicellular Motile CyanobacteriumSynechocystis sp. PCC 6803.
Published in:
Plant & Cell Physiology, 2001, v. 42, n. 1, p. 63, doi. 10.1093/pcp/pce007
By:
- Yoshihara, Shizue;
- Geng, Xiao Xing;
- Okamoto, Shinobu;
- Yura, Kei;
- Murata, Takashi;
- Go, Mitiko;
- Ohmori, Masayuki;
- Ikeuchi, Masahiko
Publication type:
Article
PIERO ontology for analysis of biochemical transformations: Effective implementation of reaction information in the IUBMB enzyme list.
Published in:
Journal of Bioinformatics & Computational Biology, 2014, v. 12, n. 6, p. -1, doi. 10.1142/S0219720014420013
By:
- Kotera, Masaaki;
- Nishimura, Yosuke;
- Nakagawa, Zen-Ichi;
- Muto, Ai;
- Moriya, Yuki;
- Okamoto, Shinobu;
- Kawashima, Shuichi;
- Katayama, Toshiaki;
- Tokimatsu, Toshiaki;
- Kanehisa, Minoru;
- Goto, Susumu
Publication type:
Article
Genomic Structure of an Economically Important Cyanobacterium, Arthrospira (Spirulina) platensis NIES-39.
Published in:
DNA Research, 2010, v. 17, n. 2, p. 85, doi. 10.1093/dnares/dsq004
By:
- Fujisawa, Takatomo;
- Narikawa, Rei;
- Okamoto, Shinobu;
- Ehira, Shigeki;
- Yoshimura, Hidehisa;
- Suzuki, Iwane;
- Masuda, Tatsuru;
- Mochimaru, Mari;
- Takaichi, Shinichi;
- Awai, Koichiro;
- Sekine, Mitsuo;
- Horikawa, Hiroshi;
- Yashiro, Isao;
- Omata, Seiha;
- Takarada, Hiromi;
- Katano, Yoko;
- Kosugi, Hiroki;
- Tanikawa, Satoshi;
- Ohmori, Kazuko;
- Sato, Naoki
Publication type:
Article
Complete Genomic Structure of the Bloom-forming Toxic Cyanobacterium Microcystis aeruginosa NIES-843.
Published in:
DNA Research, 2007, v. 14, n. 6, p. 247, doi. 10.1093/dnares/dsm026
By:
- Kaneko, Takakazu;
- Nakajima, Nobuyoshi;
- Okamoto, Shinobu;
- Suzuki, Iwane;
- Tanabe, Yuuhiko;
- Tamaoki, Masanori;
- Nakamura, Yasukazu;
- Kasai, Fumie;
- Watanabe, Akiko;
- Kawashima, Kumiko;
- Kishida, Yoshie;
- Ono, Akiko;
- Shimizu, Yoshimi;
- Takahashi, Chika;
- Minami, Chiharu;
- Fujishiro, Tsunakazu;
- Kohara, Mitsuyo;
- Katoh, Midori;
- Nakazaki, Naomi;
- Nakayama, Shinobu
Publication type:
Article
Group 3 sigma factor gene, sigJ, a key regulator of desiccation tolerance, regulates the synthesis of extracellular polysaccharide in cyanobacterium Anabaena sp. strain PCC 7120.
Published in:
DNA Research, 2007, v. 14, n. 1, p. 13, doi. 10.1093/dnares/dsm003
By:
- Yoshimura, Hidehisa;
- Okamoto, Shinobu;
- Tsumuraya, Yoichi;
- Ohmori, Masayuki
Publication type:
Article
Molecular Evolution of PAS Domain-Containing Proteins of Filamentous Cyanobacteria Through Domain Shuffling and Domain Duplication.
Published in:
DNA Research, 2004, v. 11, n. 2, p. 69, doi. 10.1093/dnares/11.2.69
By:
- Narikawa, Rei;
- Okamoto, Shinobu;
- Ikeuchi, Masahiko;
- Ohmori, Masayuki
Publication type:
Article
A Phytochrome-like Protein AphC Triggers the cAMP Signaling Induced by Far-red Light in the Cyanobacterium Anabaena sp. Strain PCC7120.
Published in:
Photochemistry & Photobiology, 2004, v. 80, n. 3, p. 429, doi. 10.1111/j.1751-1097.2004.tb00109.x
By:
- Okamoto, Shinobu;
- Kasahara, Masahiro;
- Kamlya, Asako;
- Nakahira, Yuka;
- Ohmori, Masayuki
Publication type:
Article
Regulation of cAMP-mediated Photosignaling by a Phytochrome in the Cyanobacterium Anabaena cylindrica.
Published in:
Photochemistry & Photobiology, 2002, v. 75, n. 6, p. 675, doi. 10.1562/0031-8655(2002)0750675ROCMPB2.0.CO2
By:
- Ohmori, Masayuki;
- Terauchi, Kazuki;
- Okamoto, Shinobu;
- Watanabe, Masakatu
Publication type:
Article

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