Steffens Nils Ole, Galuschka Claudia, Schindler Martin, Bülow Lorenz, Hehl Reinhard
Institut für Genetik, Technische Universität Braunschweig, Spielmannstrasse 7, D-38106 Braunschweig, Germany.
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W397-402. doi: 10.1093/nar/gki395.
The AthaMap database generates a map of cis-regulatory elements for the Arabidopsis thaliana genome. AthaMap contains more than 7.4 x 10(6) putative binding sites for 36 transcription factors (TFs) from 16 different TF families. A newly implemented functionality allows the display of subsets of higher conserved transcription factor binding sites (TFBSs). Furthermore, a web tool was developed that permits a user-defined search for co-localizing cis-regulatory elements. The user can specify individually the level of conservation for each TFBS and a spacer range between them. This web tool was employed for the identification of co-localizing sites of known interacting TFs and TFs containing two DNA-binding domains. More than 1.8 x 10(5) combinatorial elements were annotated in the AthaMap database. These elements can also be used to identify more complex co-localizing elements consisting of up to four TFBSs. The AthaMap database and the connected web tools are a valuable resource for the analysis and the prediction of gene expression regulation at http://www.athamap.de.
AthaMap数据库生成了拟南芥基因组顺式调控元件图谱。AthaMap包含来自16个不同转录因子（TF）家族的36个转录因子的超过7.4×10⁶个假定结合位点。新实现的功能允许显示更高保守性的转录因子结合位点（TFBS）子集。此外，还开发了一个网络工具，允许用户自定义搜索共定位的顺式调控元件。用户可以分别指定每个TFBS的保守水平以及它们之间的间隔范围。该网络工具用于识别已知相互作用的TF和含有两个DNA结合域的TF的共定位位点。AthaMap数据库中注释了超过1.8×10⁵个组合元件。这些元件还可用于识别由多达四个TFBS组成的更复杂的共定位元件。AthaMap数据库和相关网络工具是用于分析和预测基因表达调控的宝贵资源，网址为http://www.athamap.de。
