Bioinformatics and Systems Engineering Division, RIKEN, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045, Japan.
Nucleic Acids Res. 2013 Jul;41(Web Server issue):W569-74. doi: 10.1093/nar/gkt518. Epub 2013 Jun 12.
Synthetic promoters can control the timing, location and amount of gene expression for any organism. PromoterCAD is a web application for designing synthetic promoters with altered transcriptional regulation. We use a data-first approach, using published high-throughput expression and motif data from for Arabidopsis thaliana to guide DNA design. We demonstrate data mining tools for finding motifs related to circadian oscillations and tissue-specific expression patterns. PromoterCAD is built on the LinkData open platform for data publication and rapid web application development, allowing new data to be easily added, and the source code modified to add new functionality. PromoterCAD URL: http://promotercad.org. LinkData URL: http://linkdata.org.
合成启动子可以控制任何生物体的基因表达的时间、位置和数量。PromoterCAD 是一个用于设计具有改变转录调控的合成启动子的网络应用程序。我们使用了一种数据优先的方法，利用已发表的来自拟南芥的高通量表达和基序数据来指导 DNA 设计。我们展示了用于寻找与昼夜节律振荡和组织特异性表达模式相关的基序的数据挖掘工具。PromoterCAD 构建在 LinkData 开放平台上，用于数据发布和快速网络应用程序开发，允许轻松添加新数据，并修改源代码以添加新功能。PromoterCAD 网址：http://promotercad.org。LinkData 网址：http://linkdata.org。
