A
Akira Shinagawa
Researcher at University of Tokyo
Publications - 22
Citations - 4220
Akira Shinagawa is an academic researcher from University of Tokyo. The author has contributed to research in topics: Gene & Arsenobetaine. The author has an hindex of 14, co-authored 22 publications receiving 4088 citations.
Papers
More filters
Journal ArticleDOI
Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs
Yasushi Okazaki,Masaaki Furuno,Takeya Kasukawa,Jun Adachi,Hidemasa Bono,S. Kondo,Itoshi Nikaido,Naoki Osato,Rintaro Saito,Harukazu Suzuki,Itaru Yamanaka,H. Kiyosawa,Ken Yagi,Yasuhiro Tomaru,Yuki Hasegawa,A. Nogami,Christian Schönbach,Takashi Gojobori,Richard M. Baldarelli,David P. Hill,Carol J. Bult,David A. Hume,John Quackenbush,Lynn M. Schriml,Alexander Kanapin,Hideo Matsuda,Serge Batalov,Kirk W. Beisel,Judith A. Blake,Dirck W. Bradt,Vladimir Brusic,Cyrus Chothia,Lori E. Corbani,S. Cousins,Emiliano Dalla,Tommaso A. Dragani,Colin F. Fletcher,Colin F. Fletcher,Alistair R. R. Forrest,K. S. Frazer,Terry Gaasterland,Manuela Gariboldi,Carmela Gissi,Adam Godzik,Julian Gough,Sean M. Grimmond,Stefano Gustincich,Nobutaka Hirokawa,Ian J. Jackson,Erich D. Jarvis,Akio Kanai,Hideya Kawaji,Hideya Kawaji,Yuka Imamura Kawasawa,Rafal M. Kedzierski,Benjamin L. King,Akihiko Konagaya,Igor V. Kurochkin,Yong-Hwan Lee,Boris Lenhard,Paul A. Lyons,Donna Maglott,Lois J. Maltais,Luigi Marchionni,Louise M. McKenzie,Harukata Miki,Takeshi Nagashima,Koji Numata,Toshihisa Okido,William J. Pavan,Geo Pertea,Graziano Pesole,Nikolai Petrovsky,Ramesh S. Pillai,Joan Pontius,D. Qi,Sridhar Ramachandran,Timothy Ravasi,Jonathan C. Reed,Deborah J Reed,Jeffrey G. Reid,Brian Z. Ring,M. Ringwald,Albin Sandelin,Claudio Schneider,Colin A. Semple,Mitsutoshi Setou,K. Shimada,Razvan Sultana,Yoichi Takenaka,Martin S. Taylor,Rohan D. Teasdale,Masaru Tomita,Roberto Verardo,Lukas Wagner,Claes Wahlestedt,Y. Wang,Yoshiki Watanabe,Christine A. Wells,Laurens G. Wilming,Anthony Wynshaw-Boris,Masashi Yanagisawa,Ivana V. Yang,L. Yang,Zheng Yuan,Mihaela Zavolan,Yunhui Zhu,Anne M. Zimmer,Piero Carninci,N. Hayatsu,Tomoko Hirozane-Kishikawa,Hideaki Konno,M. Nakamura,Naoko Sakazume,K. Sato,Toshiyuki Shiraki,Kazunori Waki,Jun Kawai,Katsunori Aizawa,Takahiro Arakawa,S. Fukuda,A. Hara,W. Hashizume,K. Imotani,Y. Ishii,Masayoshi Itoh,Ikuko Kagawa,A. Miyazaki,K. Sakai,D. Sasaki,K. Shibata,Akira Shinagawa,Ayako Yasunishi,Masayasu Yoshino,Robert H. Waterston,Eric S. Lander,Jane Rogers,Ewan Birney,Yoshihide Hayashizaki +138 more
TL;DR: The present work, completely supported by physical clones, provides the most comprehensive survey of a mammalian transcriptome so far, and is a valuable resource for functional genomics.
Journal ArticleDOI
Collection, Mapping, and Annotation of Over 28,000 cDNA Clones from japonica Rice
Shoshi Kikuchi,Kouji Satoh,Toshifumi Nagata,Nobuyuki Kawagashira,Koji Doi,Naoki Kishimoto,Junshi Yazaki,Masahiro Ishikawa,Hitomi Yamada,Hisako Ooka,Isamu Hotta,Keiichi Kojima,Takahiro Namiki,Eisuke Ohneda,Wataru Yahagi,Kohji Suzuki,Chao Jie Li,Kenji Ohtsuki,Toru Shishiki,Yasuhiro Otomo,Kazuo Murakami,Yoshiharu Iida,Sumio Sugano,Tatsuto Fujimura,Yutaka Suzuki,Yuki Tsunoda,Takashi Kurosaki,Takeko Kodama,Hiromi Masuda,Michie Kobayashi,Quihong Xie,Min Lu,Ryuya Narikawa,Akio Sugiyama,Kouichi Mizuno,Satoko Yokomizo,Junko Niikura,Rieko Ikeda,Junya Ishibiki,Midori Kawamata,Akemi Yoshimura,Junichirou Miura,Takahiro Kusumegi,Mitsuru Oka,Risa Ryu,Mariko Ueda,Kenichi Matsubara,Jun Kawai,Piero Carninci,Jun Adachi,Katsunori Aizawa,Takahiro Arakawa,Shiro Fukuda,Ayako Hara,Wataru Hashidume,Norihito Hayatsu,Koichi Imotani,Yoshiki Ishii,Masayoshi Itoh,Ikuko Kagawa,Shinji Kondo,Hedeaki Konno,Ai Miyazaki,Naoki Osato,Yoshimi Ota,Rintaro Saito,Daisuke Sasaki,Kenjiro Sato,Kazuhiro Shibata,Akira Shinagawa,Toshiyuki Shiraki,Masayasu Yoshino,Yoshihide Hayashizaki +72 more
TL;DR: Mapping of the cDNA clones to genomic DNA revealed that there are 19,000 to 20,500 transcription units in the rice genome, and protein informatics analysis against the InterPro database revealed the existence of proteins presented in rice but not in Arabidopsis.
Journal ArticleDOI
Functional annotation of a full-length mouse cDNA collection
Jun Kawai,Akira Shinagawa,K. Shibata,Masayasu Yoshino,Masayoshi Itoh,Y. Ishii,Takahiro Arakawa,A. Hara,Yoshifumi Fukunishi,Hideaki Konno,Jun Adachi,S. Fukuda,Katsunori Aizawa,Masaki Izawa,Kenichiro Nishi,H. Kiyosawa,S. Kondo,Itaru Yamanaka,Takashi Saito,Yasushi Okazaki,Takashi Gojobori,Hidemasa Bono,Takeya Kasukawa,Rintaro Saito,Koji Kadota,Hideo Matsuda,Michael Ashburner,Serge Batalov,Thomas L. Casavant,W. Fleischmann,Terry Gaasterland,Carmela Gissi,Benjamin L. King,Hiromi Kochiwa,P. Kuehl,Simon L. Lewis,Y. Matsuo,Itoshi Nikaido,Graziano Pesole,John Quackenbush,Lynn M. Schriml,F. Staubli,R. Suzuki,Masaru Tomita,Lukas Wagner,Takanori Washio,K. Sakai,Toshihisa Okido,Masaaki Furuno,H. Aono,Richard M. Baldarelli,Gregory S. Barsh,Judith A. Blake,Dario Boffelli,N. Bojunga,Piero Carninci,M. F. De Bonaldo,Michael J. Brownstein,Carol J. Bult,Christopher D.M. Fletcher,Masaki Fujita,Manuela Gariboldi,Stefano Gustincich,David E. Hill,Marion A. Hofmann,David A. Hume,Mamoru Kamiya,Norman H. Lee,Paul A. Lyons,Luigi Marchionni,Jun Mashima,J. Mazzarelli,Peter Mombaerts,P. Nordone,Brian Z. Ring,M. Ringwald,Ivan Rodriguez,Naoaki Sakamoto,H. Sasaki,K. Sato,Christian Schönbach,Tsukasa Seya,Y. Shibata,Kai-Florian Storch,Harukazu Suzuki,Kazuhito Toyo-oka,Kuan Hong Wang,Charles J. Weitz,Charles A. Whittaker,L. Wilming,Anthony Wynshaw-Boris,K. Yoshida,Y. Hasegawa,Hideya Kawaji,Hideya Kawaji,S. Kohtsuki,Yoshihide Hayashizaki +96 more
TL;DR: The first RIKEN clone collection is described, which is one of the largest described for any organism and analysis of these cDNAs extends known gene families and identifies new ones.
Journal ArticleDOI
Functional annotation of a full-length Arabidopsis cDNA collection.
Motoaki Seki,Mari Narusaka,Asako Kamiya,Junko Ishida,Masakazu Satou,Tetsuya Sakurai,Maiko Nakajima,Akiko Enju,Kenji Akiyama,Youko Oono,Masami Muramatsu,Yoshihide Hayashizaki,Jun Kawai,Piero Carninci,Masayoshi Itoh,Yoshiyuki Ishii,Takahiro Arakawa,Kazuhiro Shibata,Akira Shinagawa,Kazuo Shinozaki +19 more
TL;DR: The sequence database of the RAFL c DNAs is useful for promoter analysis and correct annotation of predicted transcription units and gene products, and the full-length cDNAs are useful resources for analyses of the expression profiles, functions, and structures of plant proteins.
Journal ArticleDOI
Correlation between sequence conservation of the 5' untranslated region and codon usage bias in Mus musculus genes.
Hiroaki Sakai,Takanori Washio,Rintaro Saito,Akira Shinagawa,Masayoshi Itoh,Kazuhiro Shibata,Piero Carninci,Hideaki Konno,Jun Kawai,Yoshihide Hayashizaki,Masaru Tomita +10 more
TL;DR: The findings suggest that the extent of conservation in the flanking sequence of the initiator ATG codon including Kozak's consensus sequence was an important factor in modulation of the translation efficiency as well as synonymous codon usage bias particularly in highly expressed genes.