Rouard Mathieu, Guignon Valentin, Aluome Christelle, Laporte Marie-Angélique, Droc Gaëtan, Walde Christian, Zmasek Christian M, Périn Christophe, Conte Matthieu G
Bioversity International - CfL programme Parc Scientifique Agropolis II, 34397 Montpellier, France.
Nucleic Acids Res. 2011 Jan;39(Database issue):D1095-102. doi: 10.1093/nar/gkq811. Epub 2010 Sep 22.
GreenPhylDB is a database designed for comparative and functional genomics based on complete genomes. Version 2 now contains sixteen full genomes of members of the plantae kingdom, ranging from algae to angiosperms, automatically clustered into gene families. Gene families are manually annotated and then analyzed phylogenetically in order to elucidate orthologous and paralogous relationships. The database offers various lists of gene families including plant, phylum and species specific gene families. For each gene cluster or gene family, easy access to gene composition, protein domains, publications, external links and orthologous gene predictions is provided. Web interfaces have been further developed to improve the navigation through information related to gene families. New analysis tools are also available, such as a gene family ontology browser that facilitates exploration. GreenPhylDB is a component of the South Green Bioinformatics Platform (http://southgreen.cirad.fr/) and is accessible at http://greenphyl.cirad.fr. It enables comparative genomics in a broad taxonomy context to enhance the understanding of evolutionary processes and thus tends to speed up gene discovery.
GreenPhylDB是一个基于完整基因组设计的用于比较和功能基因组学的数据库。版本2现在包含了植物界成员的16个完整基因组，范围从藻类到被子植物，这些基因组自动聚类成基因家族。基因家族经过人工注释，然后进行系统发育分析，以阐明直系同源和旁系同源关系。该数据库提供了各种基因家族列表，包括植物、门和物种特异性基因家族。对于每个基因簇或基因家族，都提供了对基因组成、蛋白质结构域、出版物、外部链接和直系同源基因预测的便捷访问。网络界面已经进一步开发，以改善对与基因家族相关信息的浏览。还提供了新的分析工具，如有助于探索的基因家族本体浏览器。GreenPhylDB是南方绿色生物信息学平台（http://southgreen.cirad.fr/）的一个组件，可在http://greenphyl.cirad.fr上访问。它能够在广泛的分类背景下进行比较基因组学研究，以增强对进化过程的理解，从而有助于加速基因发现。
