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Influence maximization in Boolean networks

The optimization problem aiming at the identification of minimal sets of nodes able to drive the dynamics of Boolean networks toward desired long-term behaviors is central for some applications, as for example the detection of key therapeutic targets to control pathways in models of biological signa...

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Detalles Bibliográficos
Autores principales: Parmer, Thomas, Rocha, Luis M., Radicchi, Filippo
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9203747/
https://www.ncbi.nlm.nih.gov/pubmed/35710639
http://dx.doi.org/10.1038/s41467-022-31066-0
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author Parmer, Thomas
Rocha, Luis M.
Radicchi, Filippo
author_facet Parmer, Thomas
Rocha, Luis M.
Radicchi, Filippo
author_sort Parmer, Thomas
collection PubMed
description The optimization problem aiming at the identification of minimal sets of nodes able to drive the dynamics of Boolean networks toward desired long-term behaviors is central for some applications, as for example the detection of key therapeutic targets to control pathways in models of biological signaling and regulatory networks. Here, we develop a method to solve such an optimization problem taking inspiration from the well-studied problem of influence maximization for spreading processes in social networks. We validate the method on small gene regulatory networks whose dynamical landscapes are known by means of brute-force analysis. We then systematically study a large collection of gene regulatory networks. We find that for about 65% of the analyzed networks, the minimal driver sets contain less than 20% of their nodes.
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spelling pubmed-92037472022-06-18 Influence maximization in Boolean networks Parmer, Thomas Rocha, Luis M. Radicchi, Filippo Nat Commun Article The optimization problem aiming at the identification of minimal sets of nodes able to drive the dynamics of Boolean networks toward desired long-term behaviors is central for some applications, as for example the detection of key therapeutic targets to control pathways in models of biological signaling and regulatory networks. Here, we develop a method to solve such an optimization problem taking inspiration from the well-studied problem of influence maximization for spreading processes in social networks. We validate the method on small gene regulatory networks whose dynamical landscapes are known by means of brute-force analysis. We then systematically study a large collection of gene regulatory networks. We find that for about 65% of the analyzed networks, the minimal driver sets contain less than 20% of their nodes. Nature Publishing Group UK 2022-06-16 /pmc/articles/PMC9203747/ /pubmed/35710639 http://dx.doi.org/10.1038/s41467-022-31066-0 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Article
Parmer, Thomas
Rocha, Luis M.
Radicchi, Filippo
Influence maximization in Boolean networks
title Influence maximization in Boolean networks
title_full Influence maximization in Boolean networks
title_fullStr Influence maximization in Boolean networks
title_full_unstemmed Influence maximization in Boolean networks
title_short Influence maximization in Boolean networks
title_sort influence maximization in boolean networks
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9203747/
https://www.ncbi.nlm.nih.gov/pubmed/35710639
http://dx.doi.org/10.1038/s41467-022-31066-0
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