The rice annotation project database (RAP-DB): 2008 update

被引：269

作者：

Tanaka, Tsuyoshi ^{[1
]}

Antonio, Baltazar A. ^{[1
]}

Kikuchi, Shoshi ^{[1
]}

Matsumoto, Takashi ^{[1
]}

Nagamura, Yoshiaki ^{[1
]}

Numa, Hisataka ^{[1
]}

Sakai, Hiroaki ^{[1
]}

Wu, Jianzhong ^{[1
]}

Itoh, Takeshi ^{[1
,2
]}

Sasaki, Takuji ^{[1
]}

Aono, Ryo ^{[3
]}

Fujii, Yasuyuki ^{[3
,4
]}

Habara, Takuya ^{[3
]}

Harada, Erimi ^{[3
]}

Kanno, Masako ^{[3
]}

Kawahara, Yoshihiro ^{[3
,5
]}

Kawashima, Hiroaki ^{[3
]}

Kubooka, Hiromi ^{[3
]}

Matsuya, Akihiro ^{[3
]}

Nakaoka, Hajime ^{[3
]}

Saichi, Naomi ^{[3
]}

Sanbonmatsu, Ryoko ^{[3
]}

Sato, Yoshiharu ^{[3
]}

Shinso, Yuji ^{[3
]}

Suzuki, Mami ^{[3
]}

Takeda, Jun-Ichi ^{[3
]}

Tanino, Motohiko ^{[3
]}

Todokoro, Fusano ^{[3
]}

Yamaguchi, Kaori ^{[3
]}

Yamamoto, Naoyuki ^{[3
]}

Yamasaki, Chisato ^{[3
]}

Imanishi, Tadashi ^{[2
]}

Okido, Toshihisa ^{[6
]}

Tada, Masahito ^{[6
]}

Ikeo, Kazuho ^{[6
]}

Tateno, Yoshio ^{[6
]}

Gojobori, Takashi ^{[6
]}

Lin, Yao-Cheng ^{[7
]}

Wei, Fu-Jin ^{[7
]}

Hsing, Yue-Ie

Zhao, Qiang ^{[8
]}

Han, Bin ^{[8
]}

Kramer, Melissa R. ^{[9
]}

McCombie, Richard W. ^{[9
]}

Lonsdale, David ^{[10
]}

O'Donovan, Claire C. ^{[10
]}

Whitfield, Eleanor J. ^{[10
]}

Apweiler, Rolf ^{[10
]}

Koyanagi, Kanako O. ^{[11
]}

Khurana, Jitendra P. ^{[12
]}

机构：

[1] Natl Inst Agrobiol Sci, Tsukuba 3058602, Japan

[2] Natl Inst Adv Ind Sci & Technol, Biol Informat Res Ctr, Nagoya, Aichi, Japan

[3] Japan Biol Informat Consortium, Tokyo 1350064, Japan

[4] Okayama Univ, Grad Sch Med Dent & Pharmaceut Sci, Innovat Ctr Okayama Nanobiotargeted Therapy, Okayama 7008558, Japan

[5] Tokyo Metropolitan Univ, Dept Biol Sci, Tokyo 1920397, Japan

[6] Natl Inst Genet, Res Org Informat & Syst, DNA Data Bank Japan, Shizuoka 4118540, Japan

[7] Acad Sinica, Inst Bot, Taipei 11529, Taiwan

[8] Chinese Acad Sci, Shanghai Inst Biol Sci, Shanghai 200233, Peoples R China

[9] Cold Spring Harbor Lab, Cold Spring Harbor, NY 11723 USA

[10] European Bioinformat Inst, Cambridge CB10 1SD, England

[11] Hokkaido Univ, Grad Sch Informat Sci & Technol, Hokkaido 0600814, Japan

[12] Univ Delhi, Dept Plant Mol Biol, New Delhi 110021, India

[13] Indian Agr Res Inst, Natl Res Ctr Plant Biotechnol, New Delhi 110012, India

[14] GSF Natl Res Ctr Environm & Hlth, MIPS, Inst Bioinformat, D-85764 Neuherberg, Germany

[15] Inst Soc Technoinnovat Agr Forestry & Fisheries, Tsukuba 3050854, Japan

[16] Int Rice Res Inst, Crop Res Informat Lab, Manila, Philippines

[17] McGill Univ, Dept Biol, Montreal, PQ H3A 1B1, Canada

[18] Mitsubishi Space Software Co Ltd, Tsukuba Div, Tsukuba 3050032, Japan

[19] Murdoch Univ, Ctr Comparat Genom, Murdoch, WA 6150, Australia

[20] Nagoya Univ, Grad Sch Bioagr Sci, Nagoya, Aichi 4648601, Japan

[21] NIH, Natl Ctr Biotechnol Informat, Bethesda, MD 20894 USA

[22] Pohang Univ Sci & Technol, Pohang 790784, South Korea

[23] RIKEN Tsukuba Inst, RIKEN BioResource Ctr, Tsukuba 3050074, Japan

[24] Rutgers State Univ, Waksman Inst Microbiol, Piscataway, NJ 08854 USA

[25] Stanford Univ, Med Ctr, Stanford, CA 94305 USA

[26] Swiss Inst Bioinformat, Swiss Port Grp, CH-1206 Geneva, Switzerland

[27] Univ Arizona, Arizona Genom Inst, Tucson, AZ 85721 USA

[28] Univ Delaware, Newark, DE 19711 USA

[29] Univ Perpignan, CNRS, UMR, IRD, F-66860 Perpignan, France

来源：

NUCLEIC ACIDS RESEARCH | 2008年 / 36卷

基金：

英国惠康基金;

关键词：

D O I：

10.1093/nar/gkm978

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

The Rice Annotation Project Database (RAP-DB) was created to provide the genome sequence assembly of the International Rice Genome Sequencing Project (IRGSP), manually curated annotation of the sequence, and other genomics information that could be useful for comprehensive understanding of the rice biology. Since the last publication of the RAP-DB, the IRGSP genome has been revised and reassembled. In addition, a large number of rice-expressed sequence tags have been released, and functional genomics resources have been produced worldwide. Thus, we have thoroughly updated our genome annotation by manual curation of all the functional descriptions of rice genes. The latest version of the RAP-DB contains a variety of annotation data as follows: clone positions, structures and functions of 31 439 genes validated by cDNAs, RNA genes detected by massively parallel signature sequencing (MPSS) technology and sequence similarity, flanking sequences of mutant lines, transposable elements, etc. Other annotation data such as Gnomon can be displayed along with those of RAP for comparison. We have also developed a new keyword search system to allow the user to access useful information.TheRAP-DB is available at: http://rapdb.dna.affrc.go.jp/ and http://rapdb.lab.nig.ac.jp/.

引用

页码：D1028 / D1033

页数：6

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