Zhang He, Jin Jinpu, Tang Liang, Zhao Yi, Gu Xiaocheng, Gao Ge, Luo Jingchu
Center for Bioinformatics, National Laboratory of Protein Engineering and Plant Genetic Engineering and College of Life Sciences, Peking University, Beijing 100871, PR China.
Nucleic Acids Res. 2011 Jan;39(Database issue):D1114-7. doi: 10.1093/nar/gkq1141. Epub 2010 Nov 18.
We updated the plant transcription factor (TF) database to version 2.0 (PlantTFDB 2.0, http://planttfdb.cbi.pku.edu.cn) which contains 53,319 putative TFs predicted from 49 species. We made detailed annotation including general information, domain feature, gene ontology, expression pattern and ortholog groups, as well as cross references to various databases and literature citations for these TFs classified into 58 newly defined families with computational approach and manual inspection. Multiple sequence alignments and phylogenetic trees for each family can be shown as Weblogo pictures or downloaded as text files. We have redesigned the user interface in the new version. Users can search TFs with much more flexibility through the improved advanced search page, and the search results can be exported into various formats for further analysis. In addition, we now provide web service for advanced users to access PlantTFDB 2.0 more efficiently.
我们将植物转录因子（TF）数据库更新到了2.0版本（PlantTFDB 2.0，http://planttfdb.cbi.pku.edu.cn），该数据库包含从49个物种中预测出的53319个假定转录因子。我们进行了详细注释，包括基本信息、结构域特征、基因本体、表达模式和直系同源组，以及为这些转录因子分类到58个新定义家族的各种数据库交叉引用和文献引用，采用了计算方法和人工检查。每个家族的多序列比对和系统发育树可以显示为Weblogo图片或作为文本文件下载。我们在新版本中重新设计了用户界面。用户可以通过改进的高级搜索页面更灵活地搜索转录因子，搜索结果可以导出为各种格式以便进一步分析。此外，我们现在为高级用户提供网络服务，以便更高效地访问PlantTFDB 2.0。
