Paper Info
Title
Ddbj Launches A New Archive Database With Analytical Tools For Next-Generation Sequence Data
Abstract
The DNA Data Bank of Japan (DDBJ) (http://www.ddbj.nig.ac.jp) has collected and released 1 701 110 entries/1 116 138 614 bases between July 2008 and June 2009. A few highlighted data releases from DDBJ were the complete genome sequence of an endosymbiont within protist cells in the termite gut and Cap Analysis Gene Expression tags for human and mouse deposited from the Functional Annotation of the Mammalian cDNA consortium. In this period, we started a novel user announcement service using Really Simple Syndication (RSS) to deliver a list of data released from DDBJ on a daily basis. Comprehensive visualization of a DDBJ release data was attempted by using a word cloud program. Moreover, a new archive for sequencing data from next-generation sequencers, the 'DDBJ Read Archive' (DRA), was launched. Concurrently, for read data registered in DRA, a semi-automatic annotation tool called the 'DDBJ Read Annotation Pipeline' was released as a preliminary step. The pipeline consists of two parts: basic analysis for reference genome mapping and de novo assembly and high-level analysis of structural and functional annotations. These new services will aid users' research and provide easier access to DDBJ databases.
Year
DOI
Venue
2010
10.1093/nar/gkp847
NUCLEIC ACIDS RESEARCH
Keywords
Field
DocType
internet,computational biology,next generation sequencing,genome mapping,algorithms,really simple syndication,gene expression
Data bank,Metadata,Annotation,Biology,Tag cloud,Data sequences,RSS,Reference genome,Database,Sequence assembly
Journal
Volume
Issue
ISSN
38
Database issue
0305-1048
Citations 
PageRank 
References 
18
5.50
4
Authors
8
Name
Order
Citations
PageRank
Eli Kaminuma19918.33
Jun Mashima28916.21
Yuichi Kodama318522.55
Takashi Gojobori4439241.79
Osamu Ogasawara512423.46
Kousaku Okubo618252.06
Toshihisa Takagi7858102.84
Yasukazu Nakamura833857.89