A domain interaction map based on phylogenetic profiling
A domain interaction map based on phylogenetic profiling
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DOI：
10.1016/j.jmb.2004.10.019
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发表时间：
2004-12-10
影响因子：
5.6
通讯作者：
Frishman, D
中科院分区：
文献类型：
--
作者：
Pagel, P;Wong, P;Frishman, D
系统发育分析是预测蛋白质之间的功能关系和物理相互作用的一种行之有效的方法。我们提出了一种基于保守结构域而不是蛋白质的系统发育分析来发现这种关系的新方法，避免了计算上昂贵的基因组之间的所有与所有序列比较。由此产生的区域相互作用图（DIMA）可以直接探索或映射到感兴趣的基因组。我们证明，DIMA的性能可与经典的系统发育分析相媲美，并且其预测通常产生无法通过整个蛋白质链分析检测到的信息。我们提供了一个用我们的方法预测的新的领域关联列表。(C) 2004 Elsevier Ltd.版权所有。
Phylogenetic profiling is a well established method for predicting functional relations and physical interactions between proteins. We present a new method for finding such relations based on phylogenetic profiling of conserved domains rather than proteins, avoiding computationally expensive all versus all sequence comparisons among genomes. The resulting domain interaction map (DIMA) can be explored directly or mapped to a genome of interest. We demonstrate that the performance of DIMA is comparable to that of classical phylogenetic profiling and its predictions often yield information that cannot be detected by profiling of entire protein chains. We provide a list of novel domain associations predicted by our method. (C) 2004 Elsevier Ltd. All rights reserved.