Gene-Wide Identification of Episodic Selection
Gene-Wide Identification of Episodic Selection
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DOI：
10.1093/molbev/msv035
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发表时间：
2015-05-01
影响因子：
10.7
通讯作者：
Pond, Sergei L. Kosakovsky
中科院分区：
文献类型：
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作者：
Murrell, Ben;Weaver, Steven;Pond, Sergei L. Kosakovsky
我们提出了一种新的方法来识别片段正选择的全基因证据，其中非同义替换率暂时大于同义替换率。BUSTED可以用于整个系统发育(不需要关于哪些分支处于正向选择下的先验假设)，也可以用于预先指定的前景谱系子集(如果有合适的先验假设可用)。选择被建模为在分支和站点上随机变化，我们提出了一种计算上不昂贵的证据度量来识别在任何前景分支上经历情节正选择的站点。在模拟数据和经验数据上，我们将BUSTED模型与现有模型进行了比较。上提供了一个实现，其中包含一个允许交互指定前台分支的小部件。
We present BUSTED, a new approach to identifying gene-wide evidence of episodic positive selection, where the non-synonymous substitution rate is transiently greater than the synonymous rate. BUSTED can be used either on an entire phylogeny (without requiring an a priori hypothesis regarding which branches are under positive selection) or on a pre-specified subset of foreground lineages (if a suitable a priori hypothesis is available). Selection is modeled as varying stochastically over branches and sites, and we propose a computationally inexpensive evidence metric for identifying sites subject to episodic positive selection on any foreground branches. We compare BUSTED with existing models on simulated and empirical data. An implementation is available on , with a widget allowing the interactive specification of foreground branches.