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Correlated motions in DNA: beyond base-pair step models of DNA flexibility
Traditional mesoscopic models of DNA flexibility use a reductionist-local approach, which assumes that the flexibility of DNA can be expressed as local harmonic movements (at the base-pair step level) in the helical space, ignoring multimodality and correlations in DNA movements, which have in reali...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10085700/ https://www.ncbi.nlm.nih.gov/pubmed/36912082 http://dx.doi.org/10.1093/nar/gkad136 |
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author | López-Güell, Kim Battistini, Federica Orozco, Modesto |
author_facet | López-Güell, Kim Battistini, Federica Orozco, Modesto |
author_sort | López-Güell, Kim |
collection | PubMed |
description | Traditional mesoscopic models of DNA flexibility use a reductionist-local approach, which assumes that the flexibility of DNA can be expressed as local harmonic movements (at the base-pair step level) in the helical space, ignoring multimodality and correlations in DNA movements, which have in reality a large impact in modulating DNA movements. We present a new multimodal-harmonic correlated model, which takes both contributions into account, providing, with a small computational cost, results of an unprecedented local and global quality. The accuracy of this method and its computational efficiency make it an alternative to explore the dynamics of long segments of DNA, approaching the chromatin range. |
format | Online Article Text |
id | pubmed-10085700 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-100857002023-04-11 Correlated motions in DNA: beyond base-pair step models of DNA flexibility López-Güell, Kim Battistini, Federica Orozco, Modesto Nucleic Acids Res Computational Biology Traditional mesoscopic models of DNA flexibility use a reductionist-local approach, which assumes that the flexibility of DNA can be expressed as local harmonic movements (at the base-pair step level) in the helical space, ignoring multimodality and correlations in DNA movements, which have in reality a large impact in modulating DNA movements. We present a new multimodal-harmonic correlated model, which takes both contributions into account, providing, with a small computational cost, results of an unprecedented local and global quality. The accuracy of this method and its computational efficiency make it an alternative to explore the dynamics of long segments of DNA, approaching the chromatin range. Oxford University Press 2023-03-13 /pmc/articles/PMC10085700/ /pubmed/36912082 http://dx.doi.org/10.1093/nar/gkad136 Text en © The Author(s) 2023. Published by Oxford University Press on behalf of Nucleic Acids Research. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
spellingShingle | Computational Biology López-Güell, Kim Battistini, Federica Orozco, Modesto Correlated motions in DNA: beyond base-pair step models of DNA flexibility |
title | Correlated motions in DNA: beyond base-pair step models of DNA flexibility |
title_full | Correlated motions in DNA: beyond base-pair step models of DNA flexibility |
title_fullStr | Correlated motions in DNA: beyond base-pair step models of DNA flexibility |
title_full_unstemmed | Correlated motions in DNA: beyond base-pair step models of DNA flexibility |
title_short | Correlated motions in DNA: beyond base-pair step models of DNA flexibility |
title_sort | correlated motions in dna: beyond base-pair step models of dna flexibility |
topic | Computational Biology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10085700/ https://www.ncbi.nlm.nih.gov/pubmed/36912082 http://dx.doi.org/10.1093/nar/gkad136 |
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