Deform-nu: A DNA Deformation Energy-Based Predictor for Nucleosome Positioning

The structure and function of chromatin can be regulated through positioning patterns of nucleosomes. DNA-based processes are regulated via nucleosomes. Therefore, it is significant to determine nucleosome positions in DNA-based processes. A deformation energy model was proposed to predict nucleosom...

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Autores principales: Liu, Guoqing, Zhao, Hongyu, Meng, Hu, Xing, Yongqiang, Yang, Hui, Lin, Hao
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2020
Materias:
Cell and Developmental Biology
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7785812/
https://www.ncbi.nlm.nih.gov/pubmed/33425904
http://dx.doi.org/10.3389/fcell.2020.596341
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author Liu, Guoqing
Zhao, Hongyu
Meng, Hu
Xing, Yongqiang
Yang, Hui
Lin, Hao
author_facet Liu, Guoqing
Zhao, Hongyu
Meng, Hu
Xing, Yongqiang
Yang, Hui
Lin, Hao
author_sort Liu, Guoqing
collection PubMed
description The structure and function of chromatin can be regulated through positioning patterns of nucleosomes. DNA-based processes are regulated via nucleosomes. Therefore, it is significant to determine nucleosome positions in DNA-based processes. A deformation energy model was proposed to predict nucleosome positions in our previous study. A free web server based on the model (http://lin-group.cn/server/deform-nu/) was firstly established to estimate the occupancy and rotational positioning of nucleosomes in the study. Then, the performance of the model was verified by several examples. The results indicated that nucleosome positioning relied on the physical properties of DNA, such as deformation energy.
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spelling pubmed-77858122021-01-07 Deform-nu: A DNA Deformation Energy-Based Predictor for Nucleosome Positioning Liu, Guoqing Zhao, Hongyu Meng, Hu Xing, Yongqiang Yang, Hui Lin, Hao Front Cell Dev Biol Cell and Developmental Biology The structure and function of chromatin can be regulated through positioning patterns of nucleosomes. DNA-based processes are regulated via nucleosomes. Therefore, it is significant to determine nucleosome positions in DNA-based processes. A deformation energy model was proposed to predict nucleosome positions in our previous study. A free web server based on the model (http://lin-group.cn/server/deform-nu/) was firstly established to estimate the occupancy and rotational positioning of nucleosomes in the study. Then, the performance of the model was verified by several examples. The results indicated that nucleosome positioning relied on the physical properties of DNA, such as deformation energy. Frontiers Media S.A. 2020-12-23 /pmc/articles/PMC7785812/ /pubmed/33425904 http://dx.doi.org/10.3389/fcell.2020.596341 Text en Copyright © 2020 Liu, Zhao, Meng, Xing, Yang and Lin. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Cell and Developmental Biology
Liu, Guoqing
Zhao, Hongyu
Meng, Hu
Xing, Yongqiang
Yang, Hui
Lin, Hao
Deform-nu: A DNA Deformation Energy-Based Predictor for Nucleosome Positioning
title Deform-nu: A DNA Deformation Energy-Based Predictor for Nucleosome Positioning
title_full Deform-nu: A DNA Deformation Energy-Based Predictor for Nucleosome Positioning
title_fullStr Deform-nu: A DNA Deformation Energy-Based Predictor for Nucleosome Positioning
title_full_unstemmed Deform-nu: A DNA Deformation Energy-Based Predictor for Nucleosome Positioning
title_short Deform-nu: A DNA Deformation Energy-Based Predictor for Nucleosome Positioning
title_sort deform-nu: a dna deformation energy-based predictor for nucleosome positioning
topic Cell and Developmental Biology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7785812/
https://www.ncbi.nlm.nih.gov/pubmed/33425904
http://dx.doi.org/10.3389/fcell.2020.596341
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