A complete theoretical framework for inferring horizontal gene transfers using partial order sets

We present a method for detecting horizontal gene transfer (HGT) using partial orders (posets). The method requires a poset for each species/gene pair, where we have a set of species S, and a set of genes G. Given the posets, the method constructs a phylogenetic tree that is compatible with the set...

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Detalles Bibliográficos
Autores principales: Belal, Nahla A., Heath, Lenwood S.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2023
Materias:
Research Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10038315/
https://www.ncbi.nlm.nih.gov/pubmed/36961781
http://dx.doi.org/10.1371/journal.pone.0281824
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author Belal, Nahla A.
Heath, Lenwood S.
author_facet Belal, Nahla A.
Heath, Lenwood S.
author_sort Belal, Nahla A.
collection PubMed
description We present a method for detecting horizontal gene transfer (HGT) using partial orders (posets). The method requires a poset for each species/gene pair, where we have a set of species S, and a set of genes G. Given the posets, the method constructs a phylogenetic tree that is compatible with the set of posets; this is done for each gene. Also, the set of posets can be derived from the tree. The trees constructed for each gene are then compared and tested for contradicting information, where a contradiction suggests HGT.
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spelling pubmed-100383152023-03-25 A complete theoretical framework for inferring horizontal gene transfers using partial order sets Belal, Nahla A. Heath, Lenwood S. PLoS One Research Article We present a method for detecting horizontal gene transfer (HGT) using partial orders (posets). The method requires a poset for each species/gene pair, where we have a set of species S, and a set of genes G. Given the posets, the method constructs a phylogenetic tree that is compatible with the set of posets; this is done for each gene. Also, the set of posets can be derived from the tree. The trees constructed for each gene are then compared and tested for contradicting information, where a contradiction suggests HGT. Public Library of Science 2023-03-24 /pmc/articles/PMC10038315/ /pubmed/36961781 http://dx.doi.org/10.1371/journal.pone.0281824 Text en © 2023 Belal, Heath https://creativecommons.org/licenses/by/4.0/This is an open access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Research Article
Belal, Nahla A.
Heath, Lenwood S.
A complete theoretical framework for inferring horizontal gene transfers using partial order sets
title A complete theoretical framework for inferring horizontal gene transfers using partial order sets
title_full A complete theoretical framework for inferring horizontal gene transfers using partial order sets
title_fullStr A complete theoretical framework for inferring horizontal gene transfers using partial order sets
title_full_unstemmed A complete theoretical framework for inferring horizontal gene transfers using partial order sets
title_short A complete theoretical framework for inferring horizontal gene transfers using partial order sets
title_sort complete theoretical framework for inferring horizontal gene transfers using partial order sets
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10038315/
https://www.ncbi.nlm.nih.gov/pubmed/36961781
http://dx.doi.org/10.1371/journal.pone.0281824
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