What's New

DDBJ Release Info    Conference on information biology    News Archive
New web site of NIG SuperComputer system is available on OCT 1, 2012 2012.10.01
Date: October 1, 2012
From: NIG supercomputer administrator group

Dear NIG supercomputer users,
NIG supercomputer was renewed on March 1 2012. As a result of this renewal, we decided to open the new web site, http://sc.ddbj.nig.ac.jp, to improve the usability of NIG supercomputer.
sc.ddbj.nig.ac.jp in English is still under construction, but please be patient. We are going to improve the contents of the site shortly.
New DDBJ Nucleotide Sequence Submission System will be available on Oct. 3, 2012 2012.09.28
A new DDBJ Nucleotide Sequence Submission System will be released on October 3, 2012.
This system has much more effective interface to input annotation than SAKURA. We also revise the error check function. The new submission system is equipped with "jParser", which is also used in Mass Submission System (MSS).

Submission through "SAKURA" will be terminated on October 31, 2012 at 17:00(JST). Please check the following notes.
Notes about SAKURA
  • Data of saved entries and templates, whose submission is in progress, are not transferred into the new submission system.
  • Please complete your submission prior to the termination of SAKURA.
DDBJ Rel. 90.0, DAD (DDBJ amino acid database) Rel. 60.0 Completed 2012.09.28
DDBJ Rel. 90.0
DAD (DDBJ amino acid database) Rel. 60.0
  • Date: Sep. 28, 2012
  • 24,480,625 entries    7,093,168,589 aa (total number of residues)
  • DAD Release Note
Additional new lines on COMMENT for Japan Paten Office (JPO) data 2012.09.28
COMMENT part was added new lines of PA, PT and PS in all nucleotide and amino acid sequence data of Japan Paten Office (JPO).


[Additional lines]
PA: Applicant name
PT: Invention title
PS: Sequence number indicated by applicant

DDBJ constructed FF of all JPO entries to reflect new COMMENT and released them in DDBJ release 90 and JPO cumulated amino acid data files.

[Example]
COMMENT    OS   human
           PN   JP 2010599999-A/100
           PD   29-SEP-2010
           PF   20-NOV-2006 JP 2008583186
           PR   15-MAR-2003 US 60/525115
           PA   DNA Data Bank of Japan
           PI   hanako mishima,taro iden
           PT   "Genetic Markers Expressed In Tumors"
           PS   N55
           CC   genetic maker for genetic diagnosis
           FH   Key Location/Qualifiers
           FT   misc_feature    1..88
           FT   /note="genetic maker"

[DDBJ FTP site]
Please get JPO data from following site.

JPO Nucleotide sequence data:
ftp://ftp.ddbj.nig.ac.jp/ddbj_database/ddbj/

JPO Amino acid sequence data:
ftp://ftp.ddbj.nig.ac.jp/ddbj_database/patent/
The Report for the 25th International Collaborators Meeting 2012.09.28
International Nucleotide Sequence Database Collaboration (INSDC), consisted of DDBJ, EBI and NCBI, hold the international collaborators meeting every year.
In 2012, the meeting was held at NCBI in USA, 11-13 June, to discuss practical matters to maintain and update nucleotide sequence data archives; DDBJ, EMBL-Bank, GenBank, Sequence Read Archive (SRA) and Trace Archive.
The outcomes of the meeting are summarized here.
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