The PathLinker app: Connect the dots in protein interaction networks.
The PathLinker app: Connect the dots in protein interaction networks.
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DOI：
10.12688/f1000research.9909.1
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发表时间：
2017
期刊：
影响因子：
--
通讯作者：
Murali TM
中科院分区：
文献类型：
--
作者：
Gil DP;Law JN;Murali TM
PathLinker是一种图论算法，用于重建感兴趣的信号通路中的交互作用。它有效地计算了背景蛋白质相互作用网络中从受体到途径中转录因子(TF)的多条短路径。我们最初开发PathLinker是为了补充手动管理信号通路，这是一项缓慢而费力的工作。该方法通常可用于将任何源集连接到交互网络中的任何目标集。这里展示的应用程序让Cytoscape用户可以使用PathLinker功能。我们提供了一个例子，在这个例子中，我们使用PathLinker来计算和分析连接被药物洛伐他汀干扰的蛋白质的相互作用网络。
PathLinker is a graph-theoretic algorithm for reconstructing the interactions in a signaling pathway of interest. It efficiently computes multiple short paths within a background protein interaction network from the receptors to transcription factors (TFs) in a pathway. We originally developed PathLinker to complement manual curation of signaling pathways, which is slow and painstaking. The method can be used in general to connect any set of sources to any set of targets in an interaction network. The app presented here makes the PathLinker functionality available to Cytoscape users. We present an example where we used PathLinker to compute and analyze the network of interactions connecting proteins that are perturbed by the drug lovastatin.