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ORCIDTetsuro Toyoda
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2010 – 2019
- 2014
[j20]The Fantom Consortium, RIKEN PMII, RIKEN CLST (DGT), Alistair R. R. Forrest, Hideya Kawaji, Michael Rehli, J. Kenneth Baillie, Michiel J. L. de Hoon, Vanja Haberle, Timo Lassmann, Ivan V. Kulakovskiy, Marina Lizio, Masayoshi Itoh, Robin Andersson, Christopher J. Mungall, Terrence F. Meehan, Sebastian Schmeier, Nicolas Bertin, Mette Jørgensen, Emmanuel Dimont, Erik Arner, Christian Schmidl, Ulf Schaefer, Yulia A. Medvedeva
, Charles Plessy, Morana Vitezic, Jessica Severin, Colin A. M. Semple, Yuri Ishizu, Robert S. Young, Margherita Francescatto, Intikhab Alam, Davide Albanese, Gabriel M. Altschuler, Takahiro Arakawa, John A. C. Archer, Peter Arner, Magda Babina, Sarah Rennie, Piotr J. Balwierz, Anthony G. Beckhouse, Swati Pradhan-Bhatt, Judith A. Blake, Antje Blumenthal, Beatrice Bodega, Alessandro Bonetti, James Briggs, Frank Brombacher, A. Maxwell Burroughs, Andrea Califano, Carlo V. Cannistraci, Daniel Carbajo, Yun Chen, Marco Chierici, Yari Ciani, Hans Clevers, Emiliano Dalla, Carrie A. Davis, Michael Detmar, Alexander D. Diehl, Taeko Dohi, Finn Drabløs, Albert S. B. Edge, Matthias Edinger, Karl Ekwall, Mitsuhiro Endoh, Hideki Enomoto, Michela Fagiolini, Lynsey Fairbairn, Hai Fang, Mary C. Farach-Carson, Geoffrey J. Faulkner, Alexander V. Favorov, Malcolm E. Fisher, Martin C. Frith, Rie Fujita, Shiro Fukuda, Cesare Furlanello, Masaaki Furuno, Jun-ichi Furusawa, Teunis B. Geijtenbeek, Andrew P. Gibson, Thomas R. Gingeras, Daniel Goldowitz, Julian Gough, Sven Guhl, Reto Guler, Stefano Gustincich, Thomas J. Ha, Masahide Hamaguchi, Mitsuko Hara, Matthias Harbers, Jayson Harshbarger, Akira Hasegawa, Yuki Hasegawa, Takehiro Hashimoto, Meenhard Herlyn, Kelly J. Hitchens, Shannan J. Ho Sui, Oliver M. Hofmann, Ilka Hoof, Fumi Hori, Lukasz Huminiecki, Kei Iida, Tomokatsu Ikawa, Boris R. Jankovic, Hui Jia, Anagha Joshi, Giuseppe Jurman, Bogumil Kaczkowski, Chieko Kai, Kaoru Kaida, Ai Kaiho, Kazuhiro Kajiyama, Mutsumi Kanamori-Katayama, Artem S. Kasianov, Takeya Kasukawa, Shintaro Katayama, Sachi Kato, Shuji Kawaguchi, Hiroshi Kawamoto, Yuki I. Kawamura, Tsugumi Kawashima, Judith S. Kempfle, Tony J. Kenna, Juha Kere, Levon M. Khachigian, Toshio Kitamura, S. Peter Klinken, Alan J. Knox, Miki Kojima, Soichi Kojima, Naoto Kondo, Haruhiko Koseki, Shigeo Koyasu, Sarah Krampitz, Atsutaka Kubosaki, Andrew T. Kwon, Jeroen F. J. Laros, Weonju Lee, Andreas Lennartsson, Kang Li, Berit Lilje, Leonard Lipovich, Alan Mackay-Sim, Ri-ichiroh Manabe, Jessica Cara Mar, Benoit Marchand, Anthony Mathelier, Niklas Mejhert, Alison M. Meynert, Yosuke Mizuno, David A. de Lima Morais, Hiromasa Morikawa, Mitsuru Morimoto, Kazuyo Moro, Efthymios Motakis, Hozumi Motohashi, Christine Mummery, Mitsuyoshi Murata, Sayaka Nagao-Sato, Yutaka Nakachi, Fumio Nakahara, Toshiyuki Nakamura, Yukio Nakamura, Kenichi Nakazato, Erik van Nimwegen, Noriko Ninomiya, Hiromi Nishiyori, Shohei Noma, Tadasuke Nozaki, Soichi Ogishima, Naganari Ohkura, Hiroko Ohmiya, Hiroshi Ohno, Mitsuhiro Ohshima, Mariko Okada-Hatakeyama, Yasushi Okazaki, Valerio Orlando, Dmitry A. Ovchinnikov, Arnab Pain, Robert Passier, Margaret Patrikakis, Helena Persson, Silvano Piazza, James G. D. Prendergast, Owen J. L. Rackham, Jordan A. Ramilowski, Mamoon Rashid, Timothy Ravasi, Patrizia Rizzu, Marco Roncador, Sugata Roy, Morten B. Rye, Eri Saijyo, Antti Sajantila, Akiko Saka, Shimon Sakaguchi, Mizuho Sakai, Hiroki Sato, Hironori Sato, Suzana Savvi, Alka Saxena, Claudio Schneider, Erik A. Schultes, Gundula G. Schulze-Tanzil, Anita Schwegmann, Thierry Sengstag, Guojun Sheng, Hisashi Shimoji, Yishai Shimoni, Jay W. Shin, Christophe Simon, Daisuke Sugiyama, Takaaki Sugiyama, Masanori Suzuki, Naoko Suzuki, Rolf K. Swoboda, Peter A. C. 't Hoen, Michihira Tagami, Naoko Takahashi, Jun Takai, Hiroshi Tanaka, Hideki Tatsukawa, Zuotian Tatum, Mark Thompson, Hiroo Toyoda, Tetsuro Toyoda, Eivind Valen, Marc van de Wetering, Linda M. van den Berg, Roberto Verardo, Dipti Vijayan, Ilya E. Vorontsov, Wyeth W. Wasserman, Shoko Watanabe, Christine A. Wells, Louise N. Winteringham, Ernst Wolvetang, Emily J. Wood, Yoko Yamaguchi, Masayuki Yamamoto, Misako Yoneda, Yohei Yonekura, Shigehiro Yoshida, Susan E. Zabierowski, Peter G. Zhang, Xiaobei Zhao, Silvia Zucchelli, Kim M. Summers, Harukazu Suzuki, Carsten O. Daub, Jun Kawai, Peter Heutink, Winston Hide, Tom C. Freeman, Boris Lenhard, Vladimir B. Bajic, Martin S. Taylor, Vsevolod J. Makeev, Albin Sandelin, David A. Hume, Piero Carninci, Yoshihide Hayashizaki:
A promoter-level mammalian expression atlas. Nat. 507(7493): 462-470 (2014)- 2013
- [j19]Yuko Makita, Norio Kobayashi, Yuko Yoshida, Koji Doi, Yoshiki Mochizuki, Koro Nishikata, Akihiro Matsushima, Satoshi Takahashi, Manabu Ishii, Terue Takatsuki, Rinki Bhatia, Zolzaya Khadbaatar, Hajime Watabe, Hiroshi Masuya, Tetsuro Toyoda:
PosMed: ranking genes and bioresources based on Semantic Web Association Study. Nucleic Acids Res. 41(Webserver-Issue): 109-114 (2013) - [j18]Robert Sidney Cox III, Koro Nishikata, Sayoko Shimoyama, Yuko Yoshida, Minami Matsui, Yuko Makita, Tetsuro Toyoda:
PromoterCAD: data-driven design of plant regulatory DNA. Nucleic Acids Res. 41(Webserver-Issue): 569-574 (2013) - [c11]Sayoko Shimoyama, Robert Sidney Cox III, David Gifford, Tetsuro Toyoda:
Organizing Scientific Competitions on the Semantic Web. DEXA (1) 2013: 311-318 - [c10]Norio Kobayashi, Yuko Makita, Manabu Ishii, Akihiro Matsushima, Yoshiki Mochizuki, Koji Doi, Koro Nishikata, David Gifford, Terue Takatsuki, Hiroshi Masuya, Tetsuro Toyoda:
PosMed: A Biomedical Entity Prioritisation Tool Based on Statistical Inference over Literature and the Semantic Web. SWAT4LS 2013 - 2012
- [j17]Shuji Kawaguchi, Kei Iida, Erimi Harada, Kousuke Hanada, Akihiro Matsui, Masanori Okamoto, Kazuo Shinozaki, Motoaki Seki, Tetsuro Toyoda:
Positional correlation analysis improves reconstruction of full-length transcripts and alternative isoforms from noisy array signals or short reads. Bioinform. 28(7): 929-937 (2012) - [c9]Hiroshi Masuya, Terue Takatsuki, Yuko Makita, Yuko Yoshida, Yoshiki Mochizuki, Norio Kobayashi, Atsushi Yoshiki, Yukio Nakamura, Tetsuro Toyoda, Yuichi Obata:
Development of Linked Open Data for Bioresources. JIST 2012: 350-355 - 2011
- [j16]Hiroshi Masuya, Yuko Makita, Norio Kobayashi, Koro Nishikata, Yuko Yoshida, Yoshiki Mochizuki, Koji Doi, Terue Takatsuki, Kazunori Waki, Nobuhiko Tanaka, Manabu Ishii, Akihiro Matsushima, Satoshi Takahashi, Atsushi Hijikata, Kouji Kozaki, Teiichi Furuichi, Hideya Kawaji, Shigeharu Wakana, Yukio Nakamura, Atsushi Yoshiki, Takehide Murata, Kaoru Fukami-Kobayashi, S. Sujatha Mohan, Osamu Ohara, Yoshihide Hayashizaki, Riichiro Mizoguchi, Yuichi Obata, Tetsuro Toyoda:
The RIKEN integrated database of mammals. Nucleic Acids Res. 39(Database-Issue): 861-870 (2011) - [j15]Norio Kobayashi, Manabu Ishii, Satoshi Takahashi, Yoshiki Mochizuki, Akihiro Matsushima, Tetsuro Toyoda:
Semantic-JSON: a lightweight web service interface for Semantic Web contents integrating multiple life science databases. Nucleic Acids Res. 39(Web-Server-Issue): 533-540 (2011) - [c8]Hiroshi Masuya, Georgios V. Gkoutos, Nobuhiko Tanaka, Kazunori Waki, Yoshihiro Okuda, Tatsuya Kushida, Norio Kobayashi, Koji Doi, Kouji Kozaki, Robert Hoehndorf, Shigeharu Wakana, Tetsuro Toyoda, Riichiro Mizoguchi:
An Advanced Strategy for Integration of Biological Measurement Data. ICBO 2011 - [c7]Robert Sidney Cox III, Tetsuro Toyoda:
Genome design with the semantic web. SWAT4LS 2011: 4-5 - [c6]David Gifford, Tetsuro Toyoda:
LinkData.org supports Japan's LOD challenge. SWAT4LS 2011: 32-33 - [c5]Norio Kobayashi, Tetsuro Toyoda:
BioSPARQL: ontology-based smart building of SPARQL queries for biological linked open data. SWAT4LS 2011: 47-49 - [c4]Koro Nishikata, Tetsuro Toyoda:
BioLOD.org: ontology-based integration of biological linked open data. SWAT4LS 2011: 92-93 - 2010
- [j14]Kousuke Hanada, Kenji Akiyama, Tetsuya Sakurai, Tetsuro Toyoda, Kazuo Shinozaki, Shin-Han Shiu:
sORF finder: a program package to identify small open reading frames with high coding potential. Bioinform. 26(3): 399-400 (2010)
2000 – 2009
- 2009
- [j13]Akihiro Matsushima, Norio Kobayashi, Yoshiki Mochizuki, Manabu Ishii, Shuji Kawaguchi, Takaho A. Endo, Ryo Umetsu, Yuko Makita, Tetsuro Toyoda:
OmicBrowse: a Flash-based high-performance graphics interface for genomic resources. Nucleic Acids Res. 37(Web-Server-Issue): 57-62 (2009) - [j12]Yuko Yoshida, Yuko Makita, Naohiko Heida, Satomi Asano, Akihiro Matsushima, Manabu Ishii, Yoshiki Mochizuki, Hiroshi Masuya, Shigeharu Wakana, Norio Kobayashi, Tetsuro Toyoda:
PosMed (Positional Medline): prioritizing genes with an artificial neural network comprising medical documents to accelerate positional cloning. Nucleic Acids Res. 37(Web-Server-Issue): 147-152 (2009) - 2008
- [j11]Norio Kobayashi, Tetsuro Toyoda:
Statistical search on the Semantic Web. Bioinform. 24(7): 1002-1010 (2008) - [j10]Eli Kaminuma, Hiroshi Masuya, Ikuo Miura, Hiromi Motegi, Kenzi R. Takahasi, Miki Nakazawa, Minami Matsui, Yoichi Gondo, Tetsuo Noda, Toshihiko Shiroishi, Shigeharu Wakana, Tetsuro Toyoda:
Objective Evaluation Measures of Genetic Marker Selection in Large-Scale SNP genotyping. J. Bioinform. Comput. Biol. 6(5): 905-917 (2008) - [c3]Norio Kobayashi, Yuko Makita, Eli Kaminuma, Shuji Kawaguchi, Yuko Yoshida, Yoshiki Mochizuki, Akihiro Matsushima, Manabu Ishii, Ryo Umetsu, Satomi Asano, Naohiko Heida, Tetsuya Sakurai, Takashi Kuromori, Kazuo Shinozaki, Tetsuro Toyoda:
A Secure Data Repository Integrating Huge Volumes of Digital Contents as a Semantic Web. SWAT4LS 2008 - [c2]Norio Kobayashi, Tetsuro Toyoda:
Penta and Hexa Statements are Suitable for Representing Omics Knowledge on the Semantic Web. SWAT4LS 2008 - 2007
- [j9]Tetsuro Toyoda, Yoshiki Mochizuki, Keith Player, Naohiko Heida, Norio Kobayashi, Yoshiyuki Sakaki:
OmicBrowse: a browser of multidimensional omics annotations. Bioinform. 23(4): 524-526 (2007) - [j8]Hiroshi Masuya, Sumi Yoshikawa, Naohiko Heida, Tetsuro Toyoda, Shigeharu Wakana, Toshihiko Shiroishi:
Phenosite: a Web Database Integrating the mouse phenotyping Platform and the Experimental Procedures in mice. J. Bioinform. Comput. Biol. 5(6): 1173-1191 (2007) - 2006
- [j7]Eli Kaminuma, Naohiko Heida, Takeshi Yoshizumi, Miki Nakazawa, Minami Matsui, Tetsuro Toyoda:
Erratum: "In Silico Phenotypic Screening Method of Mutants Based on Statistical Modeling of Genetically Mixed Samples". J. Bioinform. Comput. Biol. 4(1): 169 (2006) - 2005
- [j6]Eli Kaminuma, Naohiko Heida, Yuko Tsumoto, Miki Nakazawa, Nobuharu Goto, Akihiko Konagaya, Minami Matsui, Tetsuro Toyoda:
Three-dimensional Definition of Leaf Morphological Traits of arabidopsis in Silico Phenotypic Analysis. J. Bioinform. Comput. Biol. 3(2): 401-414 (2005) - [j5]Eli Kaminuma, Naohiko Heida, Takeshi Yoshizumi, Miki Nakazawa, Minami Matsui, Tetsuro Toyoda:
in Silico Phenotypic Screening Method of Mutants Based on Statistical Modeling of Genetically Mixed Samples. J. Bioinform. Comput. Biol. 3(6): 1281-1294 (2005) - [j4]Tetsuya Sakurai, Masakazu Satou, Kenji Akiyama, Kei Iida, Motoaki Seki, Takashi Kuromori, Takuya Ito, Akihiko Konagaya, Tetsuro Toyoda, Kazuo Shinozaki:
RARGE: a large-scale database of RIKEN Arabidopsis resources ranging from transcriptome to phenome. Nucleic Acids Res. 33(Database-Issue): 647-650 (2005) - 2004
- [j3]Tetsuro Toyoda, Akiyoshi Wada:
Omic space: coordinate-based integration and analysis of genomic phenomic interactions. Bioinform. 20(11): 1759-1765 (2004) - [c1]Naohiko Heida, Yoshikazu Hasegawa, Yoshiki Mochizuki, Katsura Hirosawa, Akihiko Konagaya, Tetsuro Toyoda:
TraitMap: an XML-based genetic-map database combining multigenic loci and biomolecular networks. ISMB/ECCB (Supplement of Bioinformatics) 2004: 152-160 - 2003
- [j2]Tetsuro Toyoda, Akihiko Konagaya:
KnowledgeEditor: a new tool for interactive modeling and analyzing biological pathways based on microarray data. Bioinform. 19(3): 433-434 (2003) - [j1]Tetsuro Toyoda, Yoshiki Mochizuki, Akihiko Konagaya:
GSCope: a clipped fisheye viewer effective for highly complicated biomolecular network graphs. Bioinform. 19(3): 437-438 (2003)
Coauthor Index
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