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Sci Rep. 2016 Oct 11;6:34982. doi: 10.1038/srep34982.

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

Author information

1
Institute of Industrial Science, The University of Tokyo, 4-6-1 Komaba, Meguro-ku, Tokyo 153-8505, Japan.
2
Department of Life Sciences, Graduate School of Arts and Sciences, The University of Tokyo, 3-8-1 Komaba, Meguro-ku, Tokyo 153-8902, Japan.

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.

PMID:
27725694
PMCID:
PMC5057099
DOI:
10.1038/srep34982
[Indexed for MEDLINE]
Free PMC Article

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