Ddbj

DNA Data Bank of Japan (DDBJ)

1. DNA Data Bank of Japan (DDBJ) M. Ali Khuhawar M. Phil Bioinformatics M/Bio-info/2k15/05 INSTITUTE OF MATHAMATHICS & COMPUTER SCIENCES UNIVERSITY OF SINDH JAMSHORO, SINDH

2. DNA Data Bank of Japan (DDBJ) Introduction History Role of DDBJ Nucleotide Sequence Submission DDBJ Service Data Submission Search / Analysis Super Computer FTP.DDJB.NIG.AC.JP M. Ali Khuhawar (M/Bio-info/2k15/05) M.Phil Bioinformatics

3. INTRODUCTION A database is a collection of information that is organized so that it can easily be accessed, managed, and updated. In one view, databases can be classified according to types of content: bibliographic, full-text, numeric, and images. [ 1 ] Biological databases are libraries of life sciences information, collected from scientific experiments, published literature, high-throughput experiment technology, and computational analysis. They contain information from research areas including genomics, proteomics, metabolomics, microarray gene expression, and phylogenetics. Information contained in biological databases includes gene function, structure, localization (both cellular and chromosomal), clinical effects of mutations as well as similarities of biological sequences and structures. [ 2 ] DDBJ Center collects nucleotide sequence data as a member of INSDC (International Nucleotide Sequence Database Collaboration) and provides freely available nucleotide sequence data and supercomputer system, to support research activities in life science. [ 3 ] [ DDBJ Website Figure ] M. Ali Khuhawar (M/Bio-info/2k15/05) M.Phil Bioinformatics

4. M. Ali Khuhawar (M/Bio-info/2k15/05) M.Phil Bioinformatics

5. History The DNA Data Bank of Japan (DDBJ) is located at the National Institute of Genetics (NIG) in the Shizuoka prefecture of Japan. It is also a member of the International Nucleotide Sequence Database Collaboration ( INSDC ). It exchanges its data with European Molecular Biology Laboratory at the European Bioinformatics Institute and with GenBank at the National Center for Biotechnology Information on a daily basis. Thus these three databanks contain the same data at any given time. DDBJ began data bank activities in 1986 at NIG and remains the only nucleotide sequence data bank in Asia. Although DDBJ mainly receives its data from Japanese researchers, it can accept data from contributors from any other country. DDBJ is primarily funded by the Japanese Ministry of Education, Culture, Sports, Science and Technology (MEXT) . DDBJ has an international advisory committee which consists of nine members, 3 members each from Europe, US, and Japan. This committee advises DDBJ about its maintenance, management and future plans once a year. Apart from this DDBJ also has an international collaborative committee which advises on various technical issues related to international collaboration and consists of working-level participants. M. Ali Khuhawar (M/Bio-info/2k15/05) M.Phil Bioinformatics

6. Role of DDBJ DDBJ Center is officially certified to collect nucleotide sequences from researchers and to issue the internationally recognized accession number to data submitters. The accession number issued for each sequence data is unique on the database and internationally recognized to guarantee the submitter the property of the submitted and published data. Since DDBJ Center exchanges the released data with ENA/EBI and NCBI on a daily basis, the three data centers share virtually the same data at any given time. The virtually unified database is called INSD ; International Nucleotide Sequence Database. DDBJ collects sequence data mainly from Japanese researchers, but of course accepts data and issue the accession numbers to researchers in any other countries. 99% of INSD data from Japanese researchers are submitted through DDBJ. Diagrammatic representation of data exchange M. Ali Khuhawar (M/Bio-info/2k15/05) M.Phil Bioinformatics

7. Diagrammatic representation of data exchange between DDBJ/NCBI/EMBL on daily basis. INSDC M. Ali Khuhawar (M/Bio-info/2k15/05) M.Phil Bioinformatics

8. Nucleotide Sequence Submission It is now the usual practice for authors to acquire accession numbers to their sequences when they submit articles to journals. DDBJ is here for the author and the journal. DDBJ is also ready to assign accession numbers to sequences even if any publication is neither accompanied nor expected. The data archived in the International Nucleotide Sequence Databases by DDBJ will be diffused to the public by DDBJ, EMBL-Bank/EBI and GenBank /NCBI, and other data distributors. Snapshot of nucleotide sequence of 16S rRNA , partial sequence M. Ali Khuhawar (M/Bio-info/2k15/05) M.Phil Bioinformatics

9. Accession No. Organism Author & Reference Nucleotide Sequence M. Ali Khuhawar (M/Bio-info/2k15/05) M.Phil Bioinformatics

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18. Type Accession No. here M. Ali Khuhawar (M/Bio-info/2k15/05) M.Phil Bioinformatics

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30. References http://searchsqlserver.techtarget.com/definition/database https://en.wikipedia.org/wiki/Biological_database http://www.ddbj.nig.ac.jp/intro-e.html M. Ali Khuhawar (M/Bio-info/2k15/05) M.Phil Bioinformatics

31. M. Ali Khuhawar (M/Bio-info/2k15/05) M.Phil Bioinformatics THANKS