The PEDANT genome database
The PEDANT genome database
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DOI：
10.1093/nar/gkg005
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发表时间：
2003-01-01
影响因子：
14.9
通讯作者：
Mewes, HW
中科院分区：
文献类型：
--
作者：
Frishman, D;Mokrejs, M;Mewes, HW
PEDANT基因组数据库（http://pedant.gsf.de）通过一个全面的基于web的用户界面，通过各种已建立的生物信息学工具提供详尽的基因组序列自动分析。到目前为止，已经处理了177个完全测序和未完成的基因组，包括最近发表的大型真核生物基因组（小鼠，人类）。在这篇文章中，我们描述了PEDANT数据库的当前状态和2002年添加到PEDANT服务器的新分析特性。这些包括：(i)集成BioRS（TM）数据检索系统，允许快速文本查询；（ii）预先计算每个完整基因组中的序列簇；（iii）一套全面的基因组比较工具，包括基因组比较表和基于基因组上下文的蛋白质功能预测；（iv）基于实验数据的蛋白质蛋白质相互作用（PPI）网络的计算和可视化。对650,000个组织良好的基因组蛋白的功能和结构预测的可用性使PEDANT成为功能和结构基因组学的有用资源。
The PEDANT genome database (http://pedant.gsf.de) provides exhaustive automatic analysis of genomic sequences by a large variety of established bioinformatics tools through a comprehensive Web-based user interface. One hundred and seventy seven completely sequenced and unfinished genomes have been processed so far, including large eukaryotic genomes (mouse, human) published recently. In this contribution, we describe the current status of the PEDANT database and novel analytical features added to the PEDANT server in 2002. Those include: (i) integration with the BioRS(TM) data retrieval system which allows fast text queries, (ii) pre-computed sequence clusters in each complete genome, (iii) a comprehensive set of tools for genome comparison, including genome comparison tables and protein function prediction based on genomic context, and (iv) computation and visualization of protein protein interaction (PPI) networks based on experimental data. The availability of functional and structural predictions for 650 000 genomic proteins in well organized form makes PEDANT a useful resource for both functional and structural genomics.