SCOOP: a simple method for identification of novel protein superfamily relationships
SCOOP: a simple method for identification of novel protein superfamily relationships
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DOI：
10.1093/bioinformatics/btm034
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发表时间：
2007-04-01
期刊：
影响因子：
5.8
通讯作者：
Finn, Robert D.
中科院分区：
文献类型：
--
作者：
Bateman, Alex;Finn, Robert D.
动机：序列数据库的配置文件搜索是检测序列关系的敏感方法。最近引入的复杂概况概况比较算法进一步提高了搜索敏感性。回报：在本文中，提出了一种比配置合格比较更简单的方法，其性能与最先进的工具（例如Compass）相当，HHSearch和Prc。这种方法称为勺子（对输出程序的简单比较），并显示出可以在PFAM数据库中找到已知的家庭关系，并检测家庭之间的遥远关系。提出了一些新颖的发现，包括发现在DICER蛋白中发现的未知函数域（DUF283）与双链RNA结合域有关。
Motivation: Profile searches of sequence databases are a sensitive way to detect sequence relationships. Sophisticated profile-profile comparison algorithms that have been recently introduced increase search sensitivity even further.Results: In this article, a simpler approach than profile-profile comparison is presented that has a comparable performance to state-of-the-art tools such as COMPASS, HHsearch and PRC. This approach is called SCOOP (Simple Comparison Of Outputs Program), and is shown to find known relationships between families in the Pfam database as well as detect novel distant relationships between families. Several novel discoveries are presented including the discovery that a domain of unknown function (DUF283) found in Dicer proteins is related to double-stranded RNA-binding domains.