Literature DB >> 12464492

Statistics for phylogenetic trees.

Susan Holmes1.   

Abstract

This paper poses the problem of estimating and validating phylogenetic trees in statistical terms. The problem is hard enough to warrant several tacks: we reason by analogy to rounding real numbers, and dealing with ranking data. These are both cases where, as in phylogeny the parameters of interest are not real numbers. Then we pose the problem in geometrical terms, using distances and measures on a natural space of trees. We do not solve the problems of inference on tree space, but suggest some coherent ways of tackling them.

Mesh:

Year:  2003        PMID: 12464492     DOI: 10.1016/s0040-5809(02)00005-9

Source DB:  PubMed          Journal:  Theor Popul Biol        ISSN: 0040-5809            Impact factor:   1.570


  7 in total

Review 1.  Statistical measures of uncertainty for branches in phylogenetic trees inferred from molecular sequences by using model-based methods.

Authors:  Borys Wróbel
Journal:  J Appl Genet       Date:  2008       Impact factor: 3.240

2.  Assembling a Reference Phylogenomic Tree of Bacteria and Archaea by Summarizing Many Gene Phylogenies.

Authors:  Qiyun Zhu; Siavash Mirarab
Journal:  Methods Mol Biol       Date:  2022

3.  treespace: Statistical exploration of landscapes of phylogenetic trees.

Authors:  Thibaut Jombart; Michelle Kendall; Jacob Almagro-Garcia; Caroline Colijn
Journal:  Mol Ecol Resour       Date:  2017-05-15       Impact factor: 7.090

4.  Distance metrics for ranked evolutionary trees.

Authors:  Jaehee Kim; Noah A Rosenberg; Julia A Palacios
Journal:  Proc Natl Acad Sci U S A       Date:  2020-11-02       Impact factor: 11.205

5.  Towards the plastome evolution and phylogeny of Cycas L. (Cycadaceae): molecular-morphology discordance and gene tree space analysis.

Authors:  Jian Liu; Anders J Lindstrom; Xun Gong
Journal:  BMC Plant Biol       Date:  2022-03-15       Impact factor: 4.215

6.  Universal artifacts affect the branching of phylogenetic trees, not universal scaling laws.

Authors:  Cristian R Altaba
Journal:  PLoS One       Date:  2009-02-26       Impact factor: 3.240

7.  Classification of genomic signals using dynamic time warping.

Authors:  Helena Skutkova; Martin Vitek; Petr Babula; Rene Kizek; Ivo Provaznik
Journal:  BMC Bioinformatics       Date:  2013-08-12       Impact factor: 3.169

  7 in total

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