YEASTRACT: providing a programmatic access to curated transcriptional regulatory associations in Saccharomyces cerevisiae through a web services interface.
YEASTRACT: providing a programmatic access to curated transcriptional regulatory associations in Saccharomyces cerevisiae through a web services interface.
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DOI：
10.1093/nar/gkq964
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发表时间：
2011-01
影响因子：
14.9
通讯作者：
Freitas AT
中科院分区：
文献类型：
--
作者：
Abdulrehman D;Monteiro PT;Teixeira MC;Mira NP;Lourenço AB;dos Santos SC;Cabrito TR;Francisco AP;Madeira SC;Aires RS;Oliveira AL;Sá-Correia I;Freitas AT
酵母转录调控和共识跟踪(YEASTRACT)信息系统(http://www.yeastract.com))是为了支持对酿酒酵母转录调控关联的分析而开发的。该数据库最近一次更新于2010年6月，包含转录因子和目标基因之间的48个DNA200调控关联，包括110个特征性转录因子的298个特定 结合位点。重新查阅了数据库中存储的所有监管关联，并添加了关于支持这些关联的实验证据的详细信息，并将其归类为直接或间接证据。应YEASTRACT用户的要求而收集的这一新数据的加入，允许用户基于是否存在关于TF在其目标基因的启动子区域中的直接作用的实验证据来限制其对数据子集的查询。这一版本的另一个新功能是通过机器可读的Web服务界面获得所有数据。用户不再局限于通过现有网络界面提供的一组可用的查询，而是可以使用网络服务界面通过他们自己的附加功能实现来查询、检索和利用YEASTRACT数据。YEASTRACT信息系统还配备了若干计算工具，便于在回答一些重要的生物学问题时使用经过整理的数据。自2006年首次发布以来，YEASTRACT已被来自世界各地的数百名研究人员广泛使用。我们预计，通过提供新的数据和服务，该系统将继续为酵母生物学家和系统生物学研究人员提供帮助。
The YEAst Search for Transcriptional Regulators And Consensus Tracking (YEASTRACT) information system (http://www.yeastract.com) was developed to support the analysis of transcription regulatory associations in Saccharomyces cerevisiae. Last updated in June 2010, this database contains over 48 200 regulatory associations between transcription factors (TFs) and target genes, including 298 specific DNA-binding sites for 110 characterized TFs. All regulatory associations stored in the database were revisited and detailed information on the experimental evidences that sustain those associations was added and classified as direct or indirect evidences. The inclusion of this new data, gathered in response to the requests of YEASTRACT users, allows the user to restrict its queries to subsets of the data based on the existence or not of experimental evidences for the direct action of the TFs in the promoter region of their target genes. Another new feature of this release is the availability of all data through a machine readable web-service interface. Users are no longer restricted to the set of available queries made available through the existing web interface, and can use the web service interface to query, retrieve and exploit the YEASTRACT data using their own implementation of additional functionalities. The YEASTRACT information system is further complemented with several computational tools that facilitate the use of the curated data when answering a number of important biological questions. Since its first release in 2006, YEASTRACT has been extensively used by hundreds of researchers from all over the world. We expect that by making the new data and services available, the system will continue to be instrumental for yeast biologists and systems biology researchers.
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