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

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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Main Authors: Hirata, Yoshito, Oda, Arisa, Ohta, Kunihiro, Aihara, Kazuyuki
Format: Online
Language:English
Published: Nature Publishing Group 2016
Online Access:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5057099/
id pubmed-5057099
recordtype oai_dc
spelling pubmed-50570992016-10-24 Three-dimensional reconstruction of single-cell chromosome structure using recurrence plots Hirata, Yoshito Oda, Arisa Ohta, Kunihiro Aihara, Kazuyuki 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/
repository_type Open Access Journal
institution_category Foreign Institution
institution US National Center for Biotechnology Information
building NCBI PubMed
collection Online Access
language English
format Online
author Hirata, Yoshito
Oda, Arisa
Ohta, Kunihiro
Aihara, Kazuyuki
spellingShingle Hirata, Yoshito
Oda, Arisa
Ohta, Kunihiro
Aihara, Kazuyuki
Three-dimensional reconstruction of single-cell chromosome structure using recurrence plots
author_facet Hirata, Yoshito
Oda, Arisa
Ohta, Kunihiro
Aihara, Kazuyuki
author_sort Hirata, Yoshito
title 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_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_sort three-dimensional reconstruction of single-cell chromosome structure using recurrence plots
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.
publisher Nature Publishing Group
publishDate 2016
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5057099/
_version_ 1613678439378714624

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