The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information.

Hajime Ohyanagi; Tsuyoshi Tanaka; Hiroaki Sakai; Yasumasa Shigemoto; Kaori Yamaguchi; Takuya Habara; Yasuyuki Fujii; Baltazar A. Antonio; Yoshiaki Nagamura; Tadashi Imanishi; Kazuho Ikeo; Takeshi Itoh; Takashi Gojobori; Takuji Sasaki

doi:10.1093/nar/gkj094

The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information.

Hajime Ohyanagi^*, Tsuyoshi Tanaka, Hiroaki Sakai, Yasumasa Shigemoto, Kaori Yamaguchi, Takuya Habara, Yasuyuki Fujii, Baltazar A. Antonio, Yoshiaki Nagamura, Tadashi Imanishi, Kazuho Ikeo, Takeshi Itoh, Takashi Gojobori, Takuji Sasaki

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

204 Scopus citations

Abstract

With the completion of the rice genome sequencing, a standardized annotation is necessary so that the information from the genome sequence can be fully utilized in understanding the biology of rice and other cereal crops. An annotation jamboree was held in Japan with the aim of annotating and manually curating all the genes in the rice genome. Here we present the Rice Annotation Project Database (RAP-DB), which has been developed to provide access to the annotation data. The RAP-DB has two different types of annotation viewers, BLAST and BLAT search, and other useful features. By connecting the annotations to other rice genomics data, such as full-length cDNAs and Tos17 mutant lines, the RAP-DB serves as a hub for rice genomics. All of the resources can be accessed through http://rapdb.lab.nig.ac.jp/.

Original language	English (US)
Pages (from-to)	D741-744
Journal	NUCLEIC ACIDS RESEARCH
Volume	34
Issue number	Database issue
DOIs	https://doi.org/10.1093/nar/gkj094
State	Published - Jan 1 2006
Externally published	Yes

ASJC Scopus subject areas

Genetics

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Ohyanagi, H., Tanaka, T., Sakai, H., Shigemoto, Y., Yamaguchi, K., Habara, T., Fujii, Y., Antonio, B. A., Nagamura, Y., Imanishi, T., Ikeo, K., Itoh, T., Gojobori, T., & Sasaki, T. (2006). The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information. NUCLEIC ACIDS RESEARCH, 34(Database issue), D741-744. https://doi.org/10.1093/nar/gkj094

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title = "The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information.",

abstract = "With the completion of the rice genome sequencing, a standardized annotation is necessary so that the information from the genome sequence can be fully utilized in understanding the biology of rice and other cereal crops. An annotation jamboree was held in Japan with the aim of annotating and manually curating all the genes in the rice genome. Here we present the Rice Annotation Project Database (RAP-DB), which has been developed to provide access to the annotation data. The RAP-DB has two different types of annotation viewers, BLAST and BLAT search, and other useful features. By connecting the annotations to other rice genomics data, such as full-length cDNAs and Tos17 mutant lines, the RAP-DB serves as a hub for rice genomics. All of the resources can be accessed through http://rapdb.lab.nig.ac.jp/.",

author = "Hajime Ohyanagi and Tsuyoshi Tanaka and Hiroaki Sakai and Yasumasa Shigemoto and Kaori Yamaguchi and Takuya Habara and Yasuyuki Fujii and Antonio, {Baltazar A.} and Yoshiaki Nagamura and Tadashi Imanishi and Kazuho Ikeo and Takeshi Itoh and Takashi Gojobori and Takuji Sasaki",

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Ohyanagi, H, Tanaka, T, Sakai, H, Shigemoto, Y, Yamaguchi, K, Habara, T, Fujii, Y, Antonio, BA, Nagamura, Y, Imanishi, T, Ikeo, K, Itoh, T, Gojobori, T & Sasaki, T 2006, 'The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information.', NUCLEIC ACIDS RESEARCH, vol. 34, no. Database issue, pp. D741-744. https://doi.org/10.1093/nar/gkj094

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AU - Tanaka, Tsuyoshi

AU - Sakai, Hiroaki

AU - Shigemoto, Yasumasa

AU - Yamaguchi, Kaori

AU - Habara, Takuya

AU - Fujii, Yasuyuki

AU - Antonio, Baltazar A.

AU - Nagamura, Yoshiaki

AU - Imanishi, Tadashi

AU - Ikeo, Kazuho

AU - Itoh, Takeshi

AU - Gojobori, Takashi

AU - Sasaki, Takuji

PY - 2006/1/1

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The Rice Annotation Project Database (RAP-DB): hub for Oryza sativa ssp. japonica genome information.

Abstract

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