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The Structure of Level-2 Semi-directed Binary Phylogenetic Networks
Cumhuriyet Science Journal, 2023 Phylogenetic trees describe evolution but due to hybridization events, recombination events or lateral gene transfer, it can be represented as a phylogenetic network.
Nihan Özbaltan
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NetRAX: accurate and fast maximum likelihood phylogenetic network inference
bioRxiv, 2021 Phylogenetic networks are used to represent non-treelike evolutionary scenarios. Current, actively developed approaches for phylogenetic network inference jointly account for non-treelike evolution and incomplete lineage sorting (ILS).
S. Lutteropp +4 more
semanticscholar +1 more source
Embedding phylogenetic trees in networks of low treewidth [PDF]
Discrete Mathematics & Theoretical Computer Science, 2023 Given a rooted, binary phylogenetic network and a rooted, binary phylogenetic tree, can the tree be embedded into the network? This problem, called \textsc{Tree Containment}, arises when validating networks constructed by phylogenetic inference methods ...
Leo van Iersel +2 more
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Genetic Variability of PRRSV Vaccine Strains Used in the National Eradication Programme, Hungary
Vaccines, 2021 Porcine reproductive and respiratory syndrome (PRRS) is a globally spread, highly infectious viral disease. Live, attenuated vaccines against PRRS virus (PRRSV) decrease virus excretion and evoke protective immunity reducing the economic damage caused by
Ádám Bálint +10 more
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Defining Phylogenetic Network Distances Using Cherry Operations
IEEE/ACM Transactions on Computational Biology & Bioinformatics, 2022 In phylogenetic networks, picking a cherry consists of removing a leaf that shares a parent with another leaf, or removing a reticulate edge whose endpoints are parents of leaves.
Kaari Landry +3 more
semanticscholar +1 more source
Visualizing incompatibilities in phylogenetic trees using consensus outlines
Frontiers in Bioinformatics, 2023 Phylogenetic analysis frequently leads to the creation of many phylogenetic trees, either from using multiple genes or methods, or through bootstrapping or Bayesian analysis.
Daniel H. Huson +3 more
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Planar Rooted Phylogenetic Networks
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2023 A rooted phylogenetic network is a directed acyclic graph with a single root, whose sinks correspond to a set of species. As such networks are useful for representing the evolution of species that have undergone reticulate evolution, there has been great interest in developing the theory behind and algorithms for constructing them.
Vincent Moulton, Taoyang Wu
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Uprooted Phylogenetic Networks [PDF]
Bulletin of Mathematical Biology, 2017 The need for structures capable of accommodating complex evolutionary signals such as those found in, for example, wheat has fueled research into phylogenetic networks. Such structures generalize the standard model of a phylogenetic tree by also allowing for cycles and have been introduced in rooted and unrooted form.
Gambette, Philippe +2 more
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Distinguishing Phylogenetic Networks [PDF]
SIAM Journal on Applied Algebra and Geometry, 2018 Phylogenetic networks are becoming increasingly popular in phylogenetics since they have the ability to describe a wider range of evolutionary events than their tree counterparts. In this paper, we study Markov models on phylogenetic networks and their associated geometry.
Gross, Elizabeth, Long, Colby
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Counting Phylogenetic Networks [PDF]
Annals of Combinatorics, 2015 zbMATH Open Web Interface contents unavailable due to conflicting licenses.
McDiarmid, C., Semple, C., Welsh, D.
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