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Advances in the computational analysis of SARS-COV2 genome

Given a data-set of Ribonucleic acid (RNA) sequences we can infer the phylogenetics of the samples and tackle the information for scientific purposes. Based on current data and knowledge, the SARS-CoV-2 seemingly mutates much more slowly than the influenza virus that causes seasonal flu. However, ve...

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Autores principales: Machado, J. A. Tenreiro, Rocha-Neves, J. M., Azevedo, Filipe, Andrade, J. P.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Netherlands 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8391012/
https://www.ncbi.nlm.nih.gov/pubmed/34465942
http://dx.doi.org/10.1007/s11071-021-06836-y
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author Machado, J. A. Tenreiro
Rocha-Neves, J. M.
Azevedo, Filipe
Andrade, J. P.
author_facet Machado, J. A. Tenreiro
Rocha-Neves, J. M.
Azevedo, Filipe
Andrade, J. P.
author_sort Machado, J. A. Tenreiro
collection PubMed
description Given a data-set of Ribonucleic acid (RNA) sequences we can infer the phylogenetics of the samples and tackle the information for scientific purposes. Based on current data and knowledge, the SARS-CoV-2 seemingly mutates much more slowly than the influenza virus that causes seasonal flu. However, very recent evolution poses some doubts about such conjecture and shadows the out-coming light of people vaccination. This paper adopts mathematical and computational tools for handling the challenge of analyzing the data-set of different clades of the severe acute respiratory syndrome virus-2 (SARS-CoV-2). On one hand, based on the mathematical paraphernalia of tools, the concept of distance associated with the Kolmogorov complexity and Shannon information theories, as well as with the Hamming scheme, are considered. On the other, advanced data processing computational techniques, such as, data compression, clustering and visualization, are borrowed for tackling the problem. The results of the synergistic approach reveal the complex time dynamics of the evolutionary process and may help to clarify future directions of the SARS-CoV-2 evolution.
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spelling pubmed-83910122021-08-27 Advances in the computational analysis of SARS-COV2 genome Machado, J. A. Tenreiro Rocha-Neves, J. M. Azevedo, Filipe Andrade, J. P. Nonlinear Dyn Original Paper Given a data-set of Ribonucleic acid (RNA) sequences we can infer the phylogenetics of the samples and tackle the information for scientific purposes. Based on current data and knowledge, the SARS-CoV-2 seemingly mutates much more slowly than the influenza virus that causes seasonal flu. However, very recent evolution poses some doubts about such conjecture and shadows the out-coming light of people vaccination. This paper adopts mathematical and computational tools for handling the challenge of analyzing the data-set of different clades of the severe acute respiratory syndrome virus-2 (SARS-CoV-2). On one hand, based on the mathematical paraphernalia of tools, the concept of distance associated with the Kolmogorov complexity and Shannon information theories, as well as with the Hamming scheme, are considered. On the other, advanced data processing computational techniques, such as, data compression, clustering and visualization, are borrowed for tackling the problem. The results of the synergistic approach reveal the complex time dynamics of the evolutionary process and may help to clarify future directions of the SARS-CoV-2 evolution. Springer Netherlands 2021-08-27 2021 /pmc/articles/PMC8391012/ /pubmed/34465942 http://dx.doi.org/10.1007/s11071-021-06836-y Text en © The Author(s), under exclusive licence to Springer Nature B.V. 2021 This article is made available via the PMC Open Access Subset for unrestricted research re-use and secondary analysis in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the World Health Organization (WHO) declaration of COVID-19 as a global pandemic.
spellingShingle Original Paper
Machado, J. A. Tenreiro
Rocha-Neves, J. M.
Azevedo, Filipe
Andrade, J. P.
Advances in the computational analysis of SARS-COV2 genome
title Advances in the computational analysis of SARS-COV2 genome
title_full Advances in the computational analysis of SARS-COV2 genome
title_fullStr Advances in the computational analysis of SARS-COV2 genome
title_full_unstemmed Advances in the computational analysis of SARS-COV2 genome
title_short Advances in the computational analysis of SARS-COV2 genome
title_sort advances in the computational analysis of sars-cov2 genome
topic Original Paper
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8391012/
https://www.ncbi.nlm.nih.gov/pubmed/34465942
http://dx.doi.org/10.1007/s11071-021-06836-y
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