Three-dimensional reconstruction of single-cell chromosome structure using recurrence plots

Single-cell analysis of the three-dimensional (3D) chromosome structure can reveal cell-to-cell variability in genome activities. Here, we propose to apply recurrence plots, a mathematical method of nonlinear time series analysis, to reconstruct the 3D chromosome structure of a single cell based on...

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Detalles Bibliográficos
Autores principales: Hirata, Yoshito, Oda, Arisa, Ohta, Kunihiro, Aihara, Kazuyuki
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group 2016
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5057099/
https://www.ncbi.nlm.nih.gov/pubmed/27725694
http://dx.doi.org/10.1038/srep34982
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author Hirata, Yoshito
Oda, Arisa
Ohta, Kunihiro
Aihara, Kazuyuki
author_facet Hirata, Yoshito
Oda, Arisa
Ohta, Kunihiro
Aihara, Kazuyuki
author_sort Hirata, Yoshito
collection PubMed
description Single-cell analysis of the three-dimensional (3D) chromosome structure can reveal cell-to-cell variability in genome activities. Here, we propose to apply recurrence plots, a mathematical method of nonlinear time series analysis, to reconstruct the 3D chromosome structure of a single cell based on information of chromosomal contacts from genome-wide chromosome conformation capture (Hi-C) data. This recurrence plot-based reconstruction (RPR) method enables rapid reconstruction of a unique structure in single cells, even from incomplete Hi-C information.
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spelling pubmed-50570992016-10-24 Three-dimensional reconstruction of single-cell chromosome structure using recurrence plots Hirata, Yoshito Oda, Arisa Ohta, Kunihiro Aihara, Kazuyuki Sci Rep Article Single-cell analysis of the three-dimensional (3D) chromosome structure can reveal cell-to-cell variability in genome activities. Here, we propose to apply recurrence plots, a mathematical method of nonlinear time series analysis, to reconstruct the 3D chromosome structure of a single cell based on information of chromosomal contacts from genome-wide chromosome conformation capture (Hi-C) data. This recurrence plot-based reconstruction (RPR) method enables rapid reconstruction of a unique structure in single cells, even from incomplete Hi-C information. Nature Publishing Group 2016-10-11 /pmc/articles/PMC5057099/ /pubmed/27725694 http://dx.doi.org/10.1038/srep34982 Text en Copyright © 2016, The Author(s) http://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/
spellingShingle Article
Hirata, Yoshito
Oda, Arisa
Ohta, Kunihiro
Aihara, Kazuyuki
Three-dimensional reconstruction of single-cell chromosome structure using recurrence plots
title Three-dimensional reconstruction of single-cell chromosome structure using recurrence plots
title_full Three-dimensional reconstruction of single-cell chromosome structure using recurrence plots
title_fullStr Three-dimensional reconstruction of single-cell chromosome structure using recurrence plots
title_full_unstemmed Three-dimensional reconstruction of single-cell chromosome structure using recurrence plots
title_short Three-dimensional reconstruction of single-cell chromosome structure using recurrence plots
title_sort three-dimensional reconstruction of single-cell chromosome structure using recurrence plots
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5057099/
https://www.ncbi.nlm.nih.gov/pubmed/27725694
http://dx.doi.org/10.1038/srep34982
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