TreeOfTrees Method to Evaluate the Congruence Between Gene Trees
TreeOfTrees Method to Evaluate the Congruence Between Gene Trees
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DOI：
10.1007/s00357-011-9093-9
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发表时间：
2011-10-01
影响因子：
2
通讯作者：
Guenoche, Alain
中科院分区：
文献类型：
--
作者：
Darlu, Pierre;Guenoche, Alain
提出了一种新的方法，TreeOfTrees，比较X树结构从几组对齐的基因序列相同的类群。其目的是检测具有不同进化历史的基因或基因组。树的集合之间的比较是基于几个树的度量，导致一个独特的树标记的基因树。其边缘的鲁棒性值估计的自举和共识程序，允许检测具有不同进化的基因的子集。在不同的进化条件下进行仿真，以测试该方法的效率和应用程序上的真实的数据进行说明。测试荫度和各种共识算法进行了讨论。有相应的软件包。
A new method, TreeOfTrees, is proposed to compare X-tree structures obtained from several sets of aligned gene sequences of the same taxa. Its aim is to detect genes or sets of genes having different evolutionary histories. The comparison between sets of trees is based on several tree metrics, leading to a unique tree labelled by the gene trees. The robustness values of its edges are estimated by bootstrapping and consensus procedures that allow detecting subsets of genes having differently evolved. Simulations are performed under various evolutionary conditions to test the efficiency of the method and an application on real data is described. Tests of arboricity and various consensus algorithms are also discussed. A corresponding software package is available.