Transcription Regulatory Regions Database (TRRD): its status in 2002
Transcription Regulatory Regions Database (TRRD): its status in 2002
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DOI：
10.1093/nar/30.1.312
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发表时间：
2002-01-01
影响因子：
14.9
通讯作者：
Romashchenko, AG
中科院分区：
文献类型：
--
作者：
Kolchanov, NA;Ignatieva, EV;Romashchenko, AG
转录调控区域数据库(TRRD)是一个包含对基因转录调控的完整描述的信息资源。数据库的条目对应于一个基因，并包含有关转录调节区的定位和功能以及基因表达模式的数据。TRRD只包含通过对科学出版物进行注释而输入数据库的实验数据。TRRD Release 6.0包含了通过注释3898篇科学论文获得的1167个基因、5537个转录因子结合位点、1714个调控区、14个位点控制区和5335个表达模式的信息。这些信息排列在七个数据库中：TRRDGENES(一般基因描述)、TRRDLCR(基因位点控制区)、TRRDUNTS(调节区：启动子、增强子、沉默因子等)、TRRDSITES(转录因子结合位点)、TRRDFACTORS(转录因子)、TRRDEXP(表达模式)和TRRDBIB(实验出版物)。序列检索系统(SRS)是实现TRRD导航和检索以及与外部信息资源和软件资源整合的基本工具。可视化工具TRRD查看器以基因调控区域图的形式提供信息表示。还包括允许使用BLAST根据核苷酸序列的同源性搜索核苷酸序列的选项。可在http://www.bionet.nsc.ru/trrd/.上查阅研究报告。
Transcription Regulatory Regions Database (TRRD) is an informational resource containing an integrated description of the gene transcription regulation. An entry of the database corresponds to a gene and contains the data on localization and functions of the transcription regulatory regions as well as gene expression patterns. TRRD contains only experimental data that are inputted into the database through annotating scientific publication. TRRD release 6.0 comprises the information on 1167 genes, 5537 transcription factor binding sites, 1714 regulatory regions, 14 locus control regions and 5335 expression patterns obtained through annotating 3898 scientific papers. This information is arranged in seven databases: TRRDGENES (general gene description), TRRDLCR (locus control regions); TRRDUNITS (regulatory regions: promoters, enhancers, silencers, etc.), TRRDSITES (transcription factor binding sites), TRRDFACTORS (transcription factors), TRRDEXP (expression patterns) and TRRDBIB (experimental publications). Sequence Retrieval System (SRS) is used as a basic tool for navigating and searching TRRD and integrating it with external informational and software resources. The visualization tool, TRRD Viewer, provides the information representation in a form of maps of gene regulatory regions. The option allowing nucleotide sequences to be searched for according to their homology using BLAST is also included. TRRD is available at http://www.bionet.nsc.ru/trrd/.