The DNA Data Bank of Japan launches a new resource, the DDBJ Omics Archive of functional genomics experiments

Yuichi Kodama; Jun Mashima; Eli Kaminuma; Takashi Gojobori; Osamu Ogasawara; Toshihisa Takagi; Kousaku Okubo; Yasukazu Nakamura

doi:10.1093/nar/gkr994

The DNA Data Bank of Japan launches a new resource, the DDBJ Omics Archive of functional genomics experiments

Yuichi Kodama, Jun Mashima, Eli Kaminuma, Takashi Gojobori, Osamu Ogasawara, Toshihisa Takagi, Kousaku Okubo, Yasukazu Nakamura^*

^*Corresponding author for this work

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

39 Scopus citations

Abstract

The DNA Data Bank of Japan (DDBJ; http://www .ddbj.nig.ac.jp) maintains and provides archival, retrieval and analytical resources for biological information. The central DDBJ resource consists of public, open-access nucleotide sequence databases including raw sequence reads, assembly information and functional annotation. Database content is exchanged with EBI and NCBI within the framework of the International Nucleotide Sequence Database Collaboration (INSDC). In 2011, DDBJ launched two new resources: the 'DDBJ Omics Archive' (DOR; http://trace.ddbj.nig.ac.jp/dor) and BioProject (http://trace.ddbj.nig.ac.jp/bioproject). DOR is an archival database of functional genomics data generated by microarray and highly parallel new generation sequencers. Data are exchanged between the ArrayExpress at EBI and DOR in the common MAGE-TAB format. BioProject provides an organizational framework to access metadata about research projects and the data from the projects that are deposited into different databases. In this article, we describe major changes and improvements introduced to the DDBJ services, and the launch of two new resources: DOR and BioProject.

Original language	English (US)
Pages (from-to)	D38-D42
Journal	NUCLEIC ACIDS RESEARCH
Volume	40
Issue number	D1
DOIs	https://doi.org/10.1093/nar/gkr994
State	Published - Jan 2012
Externally published	Yes

Bibliographical note

Funding Information:
Ministry of Education, Culture, Sports, Science and Technology of Japan (MEXT) (management expense grant for National University Cooperation, to DDBJ); MEXT Grant-in-Aid for Scientific Research on Innovative Areas ‘Genome Science’ (to DDBJ Sequence Read Archive and DDBJ Pipeline, partial). Funding for open access charge: The DDBJ management expenses grant (from MEXT).

ASJC Scopus subject areas

Genetics

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10.1093/nar/gkr994

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title = "The DNA Data Bank of Japan launches a new resource, the DDBJ Omics Archive of functional genomics experiments",

abstract = "The DNA Data Bank of Japan (DDBJ; http://www .ddbj.nig.ac.jp) maintains and provides archival, retrieval and analytical resources for biological information. The central DDBJ resource consists of public, open-access nucleotide sequence databases including raw sequence reads, assembly information and functional annotation. Database content is exchanged with EBI and NCBI within the framework of the International Nucleotide Sequence Database Collaboration (INSDC). In 2011, DDBJ launched two new resources: the 'DDBJ Omics Archive' (DOR; http://trace.ddbj.nig.ac.jp/dor) and BioProject (http://trace.ddbj.nig.ac.jp/bioproject). DOR is an archival database of functional genomics data generated by microarray and highly parallel new generation sequencers. Data are exchanged between the ArrayExpress at EBI and DOR in the common MAGE-TAB format. BioProject provides an organizational framework to access metadata about research projects and the data from the projects that are deposited into different databases. In this article, we describe major changes and improvements introduced to the DDBJ services, and the launch of two new resources: DOR and BioProject.",

author = "Yuichi Kodama and Jun Mashima and Eli Kaminuma and Takashi Gojobori and Osamu Ogasawara and Toshihisa Takagi and Kousaku Okubo and Yasukazu Nakamura",

note = "Funding Information: Ministry of Education, Culture, Sports, Science and Technology of Japan (MEXT) (management expense grant for National University Cooperation, to DDBJ); MEXT Grant-in-Aid for Scientific Research on Innovative Areas {\textquoteleft}Genome Science{\textquoteright} (to DDBJ Sequence Read Archive and DDBJ Pipeline, partial). Funding for open access charge: The DDBJ management expenses grant (from MEXT).",

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AU - Okubo, Kousaku

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The DNA Data Bank of Japan launches a new resource, the DDBJ Omics Archive of functional genomics experiments

Abstract

Bibliographical note

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