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Relating SARS-CoV-2 variants using cellular automata imaging
We classify the main variants of the SARS-CoV-2 virus representing a given biological sequence coded as a symbolic digital sequence and by its evolution by a cellular automata with a properly chosen rule. The spike protein, common to all variants of the SARS-CoV-2 virus, is then by the picture of th...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2022
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9206224/ https://www.ncbi.nlm.nih.gov/pubmed/35717436 http://dx.doi.org/10.1038/s41598-022-14404-6 |
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author | Souza, Luryane F. Rocha Filho, Tarcísio M. Moret, Marcelo A. |
author_facet | Souza, Luryane F. Rocha Filho, Tarcísio M. Moret, Marcelo A. |
author_sort | Souza, Luryane F. |
collection | PubMed |
description | We classify the main variants of the SARS-CoV-2 virus representing a given biological sequence coded as a symbolic digital sequence and by its evolution by a cellular automata with a properly chosen rule. The spike protein, common to all variants of the SARS-CoV-2 virus, is then by the picture of the cellular automaton evolution yielding a visible representation of important features of the protein. We use information theory Hamming distance between different stages of the evolution of the cellular automaton for seven variants relative to the original Wuhan/China virus. We show that our approach allows to classify and group variants with common ancestors and same mutations. Although being a simpler method, it can be used as an alternative for building phylogenetic trees. |
format | Online Article Text |
id | pubmed-9206224 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2022 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-92062242022-06-20 Relating SARS-CoV-2 variants using cellular automata imaging Souza, Luryane F. Rocha Filho, Tarcísio M. Moret, Marcelo A. Sci Rep Article We classify the main variants of the SARS-CoV-2 virus representing a given biological sequence coded as a symbolic digital sequence and by its evolution by a cellular automata with a properly chosen rule. The spike protein, common to all variants of the SARS-CoV-2 virus, is then by the picture of the cellular automaton evolution yielding a visible representation of important features of the protein. We use information theory Hamming distance between different stages of the evolution of the cellular automaton for seven variants relative to the original Wuhan/China virus. We show that our approach allows to classify and group variants with common ancestors and same mutations. Although being a simpler method, it can be used as an alternative for building phylogenetic trees. Nature Publishing Group UK 2022-06-18 /pmc/articles/PMC9206224/ /pubmed/35717436 http://dx.doi.org/10.1038/s41598-022-14404-6 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis 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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . |
spellingShingle | Article Souza, Luryane F. Rocha Filho, Tarcísio M. Moret, Marcelo A. Relating SARS-CoV-2 variants using cellular automata imaging |
title | Relating SARS-CoV-2 variants using cellular automata imaging |
title_full | Relating SARS-CoV-2 variants using cellular automata imaging |
title_fullStr | Relating SARS-CoV-2 variants using cellular automata imaging |
title_full_unstemmed | Relating SARS-CoV-2 variants using cellular automata imaging |
title_short | Relating SARS-CoV-2 variants using cellular automata imaging |
title_sort | relating sars-cov-2 variants using cellular automata imaging |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9206224/ https://www.ncbi.nlm.nih.gov/pubmed/35717436 http://dx.doi.org/10.1038/s41598-022-14404-6 |
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