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

ABSTRACT: 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.

SUBMITTER: Hirata Y

PROVIDER: S-EPMC5057099 | biostudies-literature | 2016 Oct

REPOSITORIES: biostudies-literature

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

Hirata Yoshito Y Oda Arisa A Ohta Kunihiro K Aihara Kazuyuki K

Scientific reports 20161011

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 struct ...[more]

PMID: 27725694

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