Topological Metrizations of Trees, and New Quartet Methods of Tree Inference

Rhodes John A.

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Topological Metrizations of Trees, and New Quartet Methods of Tree Inference

机译：树木的拓扑指定，以及树引起的新四重奏方法

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Topological phylogenetic trees can be assigned edge weights in several natural ways, highlighting different aspects of the tree. Here, the rooted triple and quartet metrizations are introduced, and applied to formulate novel methods of inferring large trees from rooted triple and quartet data. These methods lead to new statistically consistent procedures for inference of a species tree from gene trees under the multispecies coalescent model.

机译：拓扑系统发育树可以以几种自然方式分配边缘重量，突出显示树的不同方面。这里，引入了根的三倍和四重奏指定，并应用于从根的三倍和四重奏数据中推出推断大树的新方法。这些方法导致新的统计上一致的程序，用于从多数聚合模型下从基因树引起物种树。

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《IEEE/ACM transactions on computational biology and bioinformatics》 |2020年第6期|2107-2118|共12页
作者
Rhodes John A.;
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作者单位

Univ Alaska Dept Math & Stat Fairbanks AK 99775 USA;

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正文语种 eng
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关键词
Vegetation; Measurement; Phylogeny; Software; Topology; Computational modeling; Software algorithms; Phylogeny; genomics; evolution;

机译：植被;测量;系统发育;软件;拓扑;计算建模;软件算法;系统发生;基因组学;进化;

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专利

1. A new quartet approach for reconstructing phylogenetic trees: quartet joining method [J] . Ma B, Xin L, Zhang KZ Journal of combinatorial optimization . 2008,第3期

机译：四重奏系统树重建的新方法：四重奏联接方法
2. A new quartet approach for reconstructing phylogenetic trees: quartet joining method [J] . Bin Ma, Lei Xin, Kaizhong Zhang Journal of Combinatorial Optimization . 2008,第3期

机译：重建系统发育树的四重奏新方法：四重奏联接方法
3. Quartet-based inference of cell differentiation trees from ChIP-Seq histone modification data [J] . Nazifa Ahmed Moumi, Badhan Das, Zarin Tasnim Promi, PLoS One . 2019,第9期

机译：从芯片-SEQ组蛋白修改数据中的基于四重奏的细胞分化树推断
4. A New Quartet Approach for Reconstructing Phylogenetic Trees: Quartet Joining Method [C] . Lei Xin, Bin Ma, Kaizhong Zhang Annual International Conference on Computing and Combinatorics(COCOON 2007); 20070716-19; Banff(CA) . 2007

机译：重建系统发育树的新四方方法：四方连接方法
5. Impact of rates of gene duplication and domain shuffling on species tree inference with gene tree parsimony. [D] . Shi, Tao. 2013

机译：基因复制率和域改组率对基因树简约性对树种推断的影响。
6. ASTRAL-Pro: Quartet-Based Species-Tree Inference despite Paralogy [O] . Chao Zhang, Celine Scornavacca, Erin K Molloy, 2020

机译：Astral-Pro：基于四重奏的物种树推论尽管瘫痪
7. Local quartet splits of a binary tree infer all quartet splits via one dyadic inference rule [O] . Erdős Péter, Steel M. A., Székely L. A., 1997

机译：二叉树的本地四重分割通过一个二元推理规则来推断所有四重分割
8. Statistical Sensitive Data Protection and Inference Prevention with Decision Tree Methods [R] . Chang, L. 2003

机译：决策树方法的统计敏感数据保护和推理预防

Topological Metrizations of Trees, and New Quartet Methods of Tree Inference

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