3-way Networks: Application of Hypergraphs for Modelling Increased Complexity in Comparative Genomics

We present and develop the theory of 3-way networks, a type of hypergraph in which each edge models relationships between triplets of objects as opposed to pairs of objects as done by standard network models. We explore approaches of how to prune these 3-way networks, illustrate their utility in com...

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Detalles Bibliográficos
Autores principales: Weighill, Deborah A, Jacobson, Daniel A
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2015
Materias:
Research Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4376783/
https://www.ncbi.nlm.nih.gov/pubmed/25815802
http://dx.doi.org/10.1371/journal.pcbi.1004079
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author Weighill, Deborah A
Jacobson, Daniel A
author_facet Weighill, Deborah A
Jacobson, Daniel A
author_sort Weighill, Deborah A
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description We present and develop the theory of 3-way networks, a type of hypergraph in which each edge models relationships between triplets of objects as opposed to pairs of objects as done by standard network models. We explore approaches of how to prune these 3-way networks, illustrate their utility in comparative genomics and demonstrate how they find relationships which would be missed by standard 2-way network models using a phylogenomic dataset of 211 bacterial genomes.
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spelling pubmed-43767832015-04-04 3-way Networks: Application of Hypergraphs for Modelling Increased Complexity in Comparative Genomics Weighill, Deborah A Jacobson, Daniel A PLoS Comput Biol Research Article We present and develop the theory of 3-way networks, a type of hypergraph in which each edge models relationships between triplets of objects as opposed to pairs of objects as done by standard network models. We explore approaches of how to prune these 3-way networks, illustrate their utility in comparative genomics and demonstrate how they find relationships which would be missed by standard 2-way network models using a phylogenomic dataset of 211 bacterial genomes. Public Library of Science 2015-03-27 /pmc/articles/PMC4376783/ /pubmed/25815802 http://dx.doi.org/10.1371/journal.pcbi.1004079 Text en © 2015 Weighill, Jacobson http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.
spellingShingle Research Article
Weighill, Deborah A
Jacobson, Daniel A
3-way Networks: Application of Hypergraphs for Modelling Increased Complexity in Comparative Genomics
title 3-way Networks: Application of Hypergraphs for Modelling Increased Complexity in Comparative Genomics
title_full 3-way Networks: Application of Hypergraphs for Modelling Increased Complexity in Comparative Genomics
title_fullStr 3-way Networks: Application of Hypergraphs for Modelling Increased Complexity in Comparative Genomics
title_full_unstemmed 3-way Networks: Application of Hypergraphs for Modelling Increased Complexity in Comparative Genomics
title_short 3-way Networks: Application of Hypergraphs for Modelling Increased Complexity in Comparative Genomics
title_sort 3-way networks: application of hypergraphs for modelling increased complexity in comparative genomics
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4376783/
https://www.ncbi.nlm.nih.gov/pubmed/25815802
http://dx.doi.org/10.1371/journal.pcbi.1004079
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