Results 21 to 30 of about 149,860 (254)
Construction of a phylogenetic tree of photosynthetic prokaryotes based on average similarities of whole genome sequences. [PDF]
PLoS ONE, 2013 Phylogenetic trees have been constructed for a wide range of organisms using gene sequence information, especially through the identification of orthologous genes that have been vertically inherited.
Soichirou Satoh +2 more
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Computing phylogenetic trees using topologically related minimum spanning trees
Journal of Graph Algorithms and Applications, 2017 Choi et al.(Choi et al. JMLR, 2011) introduced a minimum spanning tree (MST)-based method called CLGrouping, for constructing tree-structured probabilistic graphical models, a statistical framework that is commonly used for inferring phylogenetic trees ...
Prabhav Kalaghatgi, Thomas Lengauer
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A metric on phylogenetic tree shapes [PDF]
Systematic Biology, 2016 Abstract The shapes of evolutionary trees are influenced by the nature of the evolutionary process, but comparisons of trees from different processes are hindered by the challenge of completely describing tree shape. We present a full characterization of the shapes of rooted branching trees in a form that lends itself to natural tree ...
Colijn, C, Plazzotta, G
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Algorithms for Molecular Biology, 2023 Objective In mathematical phylogenetics, a labeled rooted binary tree topology can possess any of a number of labeled histories, each of which represents a possible temporal ordering of its coalescences.
Shaili Mathur, Noah A. Rosenberg
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DendroSSR: SSRs and sequence alignment as tools for building phylogeny trees
Brazilian Journal of Biology, 2023 This study introduces a new method to construct phylogenetic trees by combining both of the Simple Sequence Repeats (SSRs) and sequence alignments.
M. Alhawatema
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Identifying phylogenetic trees
Discrete Mathematics, 2005 zbMATH Open Web Interface contents unavailable due to conflicting licenses.
Magnus Bordewich +2 more
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A navigation system for tree space
Journal of Graph Algorithms and Applications, 2016 The reconstruction of evolutionary trees from data sets on overlapping sets of species is a central problem in phylogenetics. Provided that the tree reconstructed for each subset of species is rooted and that these trees fit together consistently, the ...
Sarah Mark, Jeanette McLeod, Mike Steel
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Operads and phylogenetic trees
Theory and Applications of Categories, 2017 We construct an operad $\mathrm{Phyl}$ whose operations are the edge-labelled trees used in phylogenetics. This operad is the coproduct of $\mathrm{Com}$, the operad for commutative semigroups, and $[0,\infty)$, the operad with unary operations corresponding to nonnegative real numbers, where composition is addition.
Baez, JC, Otter, N
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Information geometry for phylogenetic trees [PDF]
Journal of Mathematical Biology, 2021 AbstractWe propose a new space of phylogenetic trees which we callwald space. The motivation is to develop a space suitable for statistical analysis of phylogenies, but with a geometry based on more biologically principled assumptions than existing spaces: in wald space, trees are close if they induce similar distributions on genetic sequence data.
Garba, M. K. +7 more
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PhyloFinder: An intelligent search engine for phylogenetic tree databases
BMC Evolutionary Biology, 2008 Background Bioinformatic tools are needed to store and access the rapidly growing phylogenetic data. These tools should enable users to identify existing phylogenetic trees containing a specified taxon or set of taxa and to compare a specified ...
Bansal Mukul S +3 more
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