标题:DOOR 2.0: presenting operons and their functions through dynamic and integrated views
作者:Mao, Xizeng; Ma, Qin; Zhou, Chuan; Chen, Xin; Zhang, Hanyuan; Yang, Jincai; Mao, Fenglou; Lai, Wei; Xu, Ying
作者机构:[Mao, Xizeng; Ma, Qin; Zhou, Chuan; Chen, Xin; Zhang, Hanyuan; Mao, Fenglou; Lai, Wei; Xu, Ying] Univ Georgia, Dept Biochem & Mol Biol, Computat Syst 更多
通讯作者:Xu, Y
通讯作者地址:[Xu, Y]Univ Georgia, Dept Biochem & Mol Biol, Computat Syst Biol Lab, Athens, GA 30602 USA.
来源:NUCLEIC ACIDS RESEARCH
出版年:2014
卷:42
期:D1
页码:D654-D659
DOI:10.1093/nar/gkt1048
摘要:We have recently developed a new version of the DOOR operon database, DOOR 2.0, which is available online at http://csbl.bmb.uga.edu/DOOR/ and will be updated on a regular basis. DOOR 2.0 contains genome-scale operons for 2072 prokaryotes with complete genomes, three times the number of genomes covered in the previous version published in 2009. DOOR 2.0 has a number of new features, compared with its previous version, including (i) more than 250 000 transcription units, experimentally validated or computationally predicted based on RNA-seq data, providing a dynamic functional view of the underlying operons; (ii) an integrated operon-centric data resource that provides not only operons for each covered genome but also their functional and regulatory information such as their cis-regulatory binding sites for transcription initiation and termination, gene expression levels estimated based on RNA-seq data and conservation information across multiple genomes; (iii) a high-performance web service for online operon prediction on user-provided genomic sequences; (iv) an intuitive genome browser to support visualization of user-selected data; and (v) a keyword-based Google-like search engine for finding the needed information intuitively and rapidly in this database.
收录类别:SCOPUS;SCIE
WOS核心被引频次:67
Scopus被引频次:67
资源类型:期刊论文
原文链接:https://www.scopus.com/inward/record.uri?eid=2-s2.0-84891765377&doi=10.1093%2fnar%2fgkt1048&partnerID=40&md5=7e22837ca893f4b23348b421641764eb
TOP