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Advances in Computational Biology

Volume 680 of the series Advances in Experimental Medicine and Biology pp 125-135

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Biological Databases at DNA Data Bank of Japan in the Era of Next-Generation Sequencing Technologies

  • Yuichi Kodama
  • , Eli Kaminuma
  • , Satoshi Saruhashi
  • , Kazuho Ikeo
  • , Hideaki Sugawara
  • , Yoshio TatenoAffiliated withCenter for Information Biology and DNA Data Bank of Japan, National Institute of Genetics Email author 
  • , Yasukazu Nakamura

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Abstract

The Center for Information Biology and DNA Data Bank of Japan (CIB-DDBJ) has operated biological databases since 1987 in collaboration with NCBI and EBI. As one of the three major public databases, CIB-DDBJ has run four primary databases DDBJ, CIBEX, DDBJ Trace Archive (DTA), and DDBJ Read Archive (DRA) to collect, archive, and provide various kinds of biological data. As the massively parallel new sequencing platforms are increasingly in use, huge amounts of the raw data have been produced. To archive these raw data, we at CIB-DDBJ began operating a new repository, the DDBJ Read Archive (DRA). To accommodate efficiently the processed data as well, we have developed a new pipeline, the DDBJ Read Annotation Pipeline that deals with both data submission and analysis. For data produced by the next generation platforms, the three archives DRA, DDBJ, and CIBEX, which are interconnected by the pipeline, collect the raw, processed sequence, and quantitative data, respectively. The public biological databases at CIB-DDBJ, EBI, and NCBI will together construct world-wide archives for biological data by data sharing to accelerate research in life sciences in the era of next generation sequencing technologies.

Keywords

Biological database CIBEX DDBJ DDBJ omics archive DDBJ read annotation pipeline DDBJ read archive DDBJ trace archive Next-generation sequencing platform