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DDBJ Activities: Contribution to the Research in Information Biology

Jun Mashima¹, Takehide Kosuge², Toshihisa Okido², Yuichi Kodama², Kazuho Ikeo², Hideaki Sugawara², Yoshio Tateno² & Takashi Gojobori²

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1. Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Japan
2. Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Japan

PPT (1.5 MB) PDF (945.4 KB)

Document Type:

Poster

Date:

Received 01 May 2009 07:33 UTC; Posted 06 May 2009

Subjects:

Genetics & Genomics, Bioinformatics

Tags:

• Trace ARSA
• DDBJ
• WABI
• CIBEX
• SRA
• biocuration
• databases
• curation

Abstract:

DDBJ (DNA Data Bank of Japan; http://www.ddbj.nig.ac.jp/ its database activities in 1986. From the beginning, DDBJ has been one of INSDC (International Nucleotide Sequence Database Collaboration; http://www.insdc.org/) that is a tripartite collaboration with EMBL-Bank/EBI and GenBank/NCBI.The total base number of the primary nucleotide sequence data collected and distributed by INSDC exceeded 100 Gbases in August 2005. Since then it took only three years for the total base number to be doubled (200 Gbases). Now, the collaboration is being expanded to Traces (DNA sequence chromatograms) and Short Reads (raw reads data from 454, Solexa, SOLiD etc). DDBJ is also collecting and releasing gene expression data at CIBEX (Center for Information Biology gene EXpression database; http://cibex.nig.ac.jp/). Furthermore, DDBJ contributed to international annotation jamborees such as FANTOM (mouse), H-Inv (human), RAP (rice) and E. coli K12. DDBJ provides many services to the research in information biology or bioinformatics. They include Web-API for Biology (WABI) http://www.xml.nig.ac.jp/ and All-round Retrieval of Sequence and Annotation (ARSA) http://arsa.ddbj.nig.ac.jp/. These activities are presented with the perspective of DDBJ in the coming years.

Collection:

3rd International Biocuration Conference

Presented at:

3rd International Biocuration Conference, 17 April 2009

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License:

This document is licensed to the public under the Creative Commons Attribution 3.0 License

How to cite this document:

Mashima, Jun, Kosuge, Takehide, Okido, Toshihisa, Kodama, Yuichi, Ikeo, Kazuho, Sugawara, Hideaki, Tateno, Yoshio, and Gojobori, Takashi. DDBJ Activities: Contribution to the Research in Information Biology. Available from Nature Precedings <http://dx.doi.org/10.1038/npre.2009.3211.1> (2009)

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