Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs

Y. Okazaki; M. Furuno; T. Kasukawa; J. Adachi; H. Bono; S. Kondo; I. Nikaido; N. Osato; R. Saito; H. Suzuki; I. Yamanaka; H. Kiyosawa; K. Yagi; Y. Tomaru; Y. Hasegawa; A. Nogami; C. Schönbach; T. Gojobori; R. Baldarelli; D. P. Hill; C. Bult; D. A. Hume; J. Quackenbush; L. M. Schriml; A. Kanapin; H. Matsuda; S. Batalov; K. W. Beisel; J. A. Blake; D. Bradt; V. Brusic; C. Chothia; L. E. Corbani; S. Cousins; E. Dalla; T. A. Dragani; C. F. Fletcher; A. Forrest; K. S. Frazer; T. Gaasterland; M. Gariboldi; C. Gissi; A. Godzik; J. Gough; S. Grimmond; S. Gustincich; N. Hirokawa; I. J. Jackson; E. D. Jarvis; A. Kanai; H. Kawaji; Y. Kawasawa; R. M. Kedzierski; B. L. King; A. Konagaya; I. V. Kurochkin; Y. Lee; B. Lenhard; P. A. Lyons; D. R. Maglott; L. Maltais; L. Marchionni; L. McKenzie; H. Miki; T. Nagashima; K. Numata; T. Okido; W. J. Pavan; G. Pertea; G. Pesole; N. Petrovsky; R. Pillai; J. U. Pontius; D. Qi; S. Ramachandran; T. Ravasi; J. C. Reed; D. J. Reed; J. Reid; B. Z. Ring; M. Ringwald; A. Sandelin; C. Schneider; C. A.M. Semple; M. Setou; K. Shimada; R. Sultana; Y. Takenaka; M. S. Taylor; R. D. Teasdale; M. Tomita; R. Verardo; L. Wagner; C. Wahlestedt; Y. Wang; Y. Watanabe; C. Wells; L. G. Wilming; A. Wynshaw-Boris; M. Yanagisawa; I. Yang; L. Yang; Z. Yuan; M. Zavolan; Y. Zhu; A. Zimmer; P. Carninci; N. Hayatsu; T. Hirozane-Kishikawa; H. Konno; M. Nakamura; N. Sakazume; K. Sato; T. Shiraki; K. Waki; J. Kawai; K. Aizawa; T. Arakawa; S. Fukuda; A. Hara; W. Hashizume; K. Imotani; Y. Ishii; M. Itoh; I. Kagawa; A. Miyazaki; K. Sakai; D. Sasaki; K. Shibata; A. Shinagawa; A. Yasunishi; M. Yoshino; R. Waterston; E. S. Lander; J. Rogers; E. Birney; Y. Hayashizaki

doi:10.1038/nature01266

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Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs

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Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs

Y. Okazaki, M. Furuno, T. Kasukawa, J. Adachi, H. Bono, S. Kondo, I. Nikaido, N. Osato, R. Saito, H. Suzuki, …

Nature, Vol.420(6915), pp.563-573

420

12/05/2002

DOI: https://doi.org/10.1038/nature01266

PMID: 12466851

Abstract

General

Only a small proportion of the mouse genome is transcribed into mature messenger RNA transcripts. There is an international collaborative effort to identify all full-length mRNA transcripts from the mouse, and to ensure that each is represented in a physical collection of clones. Here we report the manual annotation of 60,770 full-length mouse complementary DNA sequences. These are clustered into 33,409 'transcriptional units', contributing 90.1% of a newly established mouse transcriptome database. Of these transcriptional units, 4,258 are new protein-coding and 11,665 are new non-coding messages, indicating that non-coding RNA is a major component of the transcriptome. 41% of all transcriptional units showed evidence of alternative splicing. In protein-coding transcripts, 79% of splice variations altered the protein product. Whole-transcriptome analyses resulted in the identification of 2,431 sense-antisense pairs. 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.

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Title: Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs
Creators: Y. Okazaki (Author) - RIKEN;Discovery and Research Institute
M. Furuno (Author) - RIKEN
T. Kasukawa (Author) - RIKEN;Nippon Telegraph & Telephone
J. Adachi (Author) - RIKEN
H. Bono (Author) - RIKEN
S. Kondo (Author) - RIKEN
I. Nikaido (Author) - RIKEN;Yokohama City University
N. Osato (Author) - RIKEN
R. Saito (Author) - RIKEN;Keio University
H. Suzuki (Author) - RIKEN
I. Yamanaka (Author) - RIKEN
H. Kiyosawa (Author) - RIKEN;Yokohama City University
K. Yagi (Author) - RIKEN
Y. Tomaru (Author) - RIKEN;University of Tsukuba
Y. Hasegawa (Author) - RIKEN;Yokohama City University
A. Nogami (Author) - RIKEN;Yokohama City University
C. Schönbach (Author) - RIKEN
T. Gojobori (Author) - Research Organization of Information and Systems, National Institute of Genetics Mishima
R. Baldarelli (Author) - Jackson Laboratory
D. P. Hill (Author) - Jackson Laboratory
C. Bult (Author) - Jackson Laboratory
D. A. Hume (Author) - University of Queensland
J. Quackenbush (Author) - J. Craig Venter Institute
L. M. Schriml (Author) - National Institutes of Health, Bethesda
A. Kanapin (Author) - European Molecular Biology Laboratory
H. Matsuda (Author) - Osaka University
S. Batalov (Author) - Novartis
K. W. Beisel (Author) - Department of Biomedical Sciences
J. A. Blake (Author) - Jackson Laboratory
D. Bradt (Author) - Jackson Laboratory
V. Brusic (Author) - Laboratories for Information Technology
C. Chothia (Author) - Medical Research Council
L. E. Corbani (Author) - Jackson Laboratory
S. Cousins (Author) - Jackson Laboratory
E. Dalla (Author) - LNCIB
T. A. Dragani (Author) - IRCCS Fondazione Istituto Nazionale per lo studio e la cura dei tumori - Milano
C. F. Fletcher (Author) - Novartis;Scripps Research Institute
A. Forrest (Author) - University of Queensland
K. S. Frazer (Author) - Jackson Laboratory;University of Oregon
T. Gaasterland (Author) - Rockefeller University
M. Gariboldi (Author) - IRCCS Fondazione Istituto Nazionale per lo studio e la cura dei tumori - Milano
C. Gissi (Author) - University of Milan
A. Godzik (Author) - Sanford Burnham Prebys Medical Discovery Institute
J. Gough (Author) - Medical Research Council
S. Grimmond (Author) - University of Queensland
S. Gustincich (Author) - Harvard University
N. Hirokawa (Author) - The University of Tokyo
I. J. Jackson (Author) - University of Edinburgh
E. D. Jarvis (Author) - Duke University
A. Kanai (Author) - Keio University
H. Kawaji (Author) - Nippon Telegraph & Telephone;Osaka University
Y. Kawasawa (Author) - University of Texas Southwestern Medical Center
R. M. Kedzierski (Author) - University of Texas Southwestern Medical Center
B. L. King (Author) - Jackson Laboratory
A. Konagaya (Author) - RIKEN
I. V. Kurochkin (Author) - RIKEN
Y. Lee (Author) - J. Craig Venter Institute
B. Lenhard (Author) - Karolinska Institutet
P. A. Lyons (Author) - Cambridge University Hospitals NHS Foundation Trust
D. R. Maglott (Author) - National Institutes of Health, Bethesda
L. Maltais (Author) - Jackson Laboratory
L. Marchionni (Author) - LNCIB
L. McKenzie (Author) - Jackson Laboratory
H. Miki (Author) - The University of Tokyo
T. Nagashima (Author) - RIKEN
K. Numata (Author) - Keio University
T. Okido (Author) - Research Organization of Information and Systems, National Institute of Genetics Mishima
W. J. Pavan (Author) - National Institutes of Health
G. Pertea (Author) - J. Craig Venter Institute
G. Pesole (Author) - University of Milan
N. Petrovsky (Author) - Canberra Hospital
R. Pillai (Author) - Laboratories for Information Technology
J. U. Pontius (Author) - National Institutes of Health, Bethesda
D. Qi (Author) - Jackson Laboratory
S. Ramachandran (Author) - Jackson Laboratory
T. Ravasi (Author) - University of Queensland
J. C. Reed (Author) - Sanford Burnham Prebys Medical Discovery Institute
D. J. Reed (Author) - Jackson Laboratory
J. Reid (Author) - LNCIB
B. Z. Ring (Author) - Applied Genomics, Inc.
M. Ringwald (Author) - Jackson Laboratory
A. Sandelin (Author) - Karolinska Institutet
C. Schneider (Author) - LNCIB
C. A.M. Semple (Author) - University of Edinburgh
M. Setou (Author) - The University of Tokyo
K. Shimada (Author) - Hirakata Ryoikuen;Hyogo Medical University
R. Sultana (Author) - J. Craig Venter Institute
Y. Takenaka (Author) - Osaka University
M. S. Taylor (Author) - University of Edinburgh
R. D. Teasdale (Author) - University of Queensland
M. Tomita (Author) - Keio University
R. Verardo (Author) - LNCIB
L. Wagner (Author) - National Institutes of Health, Bethesda
C. Wahlestedt (Author) - Karolinska Institutet
Y. Wang (Author) - J. Craig Venter Institute
Y. Watanabe (Author) - Hirakata Ryoikuen;Hyogo Medical University
C. Wells (Author) - University of Queensland
L. G. Wilming (Author) - Wellcome Sanger Institute
A. Wynshaw-Boris (Author) - University of California at San Diego
M. Yanagisawa (Author) - University of Texas Southwestern Medical Center
I. Yang (Author) - J. Craig Venter Institute
L. Yang (Author) - Jackson Laboratory
Z. Yuan (Author) - University of Queensland
M. Zavolan (Author) - Rockefeller University
Y. Zhu (Author) - Jackson Laboratory
A. Zimmer (Author) - University of Bonn
P. Carninci (Author) - Discovery and Research Institute
N. Hayatsu (Author) - RIKEN
T. Hirozane-Kishikawa (Author) - RIKEN
H. Konno (Author) - RIKEN
M. Nakamura (Author) - RIKEN
N. Sakazume (Author) - RIKEN
K. Sato (Author) - University of Tsukuba
T. Shiraki (Author) - RIKEN
K. Waki (Author) - RIKEN
J. Kawai (Author) - RIKEN;Discovery and Research Institute
K. Aizawa (Author) - RIKEN
T. Arakawa (Author) - RIKEN
S. Fukuda (Author) - RIKEN
A. Hara (Author) - RIKEN
W. Hashizume (Author) - RIKEN
K. Imotani (Author) - RIKEN
Y. Ishii (Author) - RIKEN
M. Itoh (Author) - Discovery and Research Institute
I. Kagawa (Author) - RIKEN
A. Miyazaki (Author) - RIKEN
K. Sakai (Author) - RIKEN
D. Sasaki (Author) - RIKEN
K. Shibata (Author) - Discovery and Research Institute
A. Shinagawa (Author) - RIKEN
A. Yasunishi (Author) - RIKEN
M. Yoshino (Author) - RIKEN
R. Waterston (Author) - Washington University St. Louis
E. S. Lander (Author) - Whitehead Institute for Biomedical Research
J. Rogers (Author) - Wellcome Sanger Institute
E. Birney (Author) - European Molecular Biology Laboratory
Y. Hayashizaki (Author) - RIKEN;Discovery and Research Institute;Yokohama City University;University of Tsukuba
Additional links: Anon
Publication Details: Nature, Vol.420(6915), pp.563-573
Series: 420
Number of pages: 11
Identifiers: 991005930403602656
Academic Unit: Biomedical Sciences
Language: English
Resource Type: Journal article