Bifractal nature of chromosome contact maps

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Bifractal nature of chromosome contact maps. / Pigolotti, Simone; Jensen, Mogens H.; Zhan, Yinxiu; Tiana, Guido.

In: Physical Review Research, Vol. 2, No. 4, 043078, 15.10.2020.

Research output: Contribution to journal › Journal article › Research › peer-review

Harvard

Pigolotti, S, Jensen, MH, Zhan, Y & Tiana, G 2020, 'Bifractal nature of chromosome contact maps', Physical Review Research, vol. 2, no. 4, 043078. https://doi.org/10.1103/PhysRevResearch.2.043078

APA

Pigolotti, S., Jensen, M. H., Zhan, Y., & Tiana, G. (2020). Bifractal nature of chromosome contact maps. Physical Review Research, 2(4), [043078]. https://doi.org/10.1103/PhysRevResearch.2.043078

Vancouver

Pigolotti S, Jensen MH, Zhan Y, Tiana G. Bifractal nature of chromosome contact maps. Physical Review Research. 2020 Oct 15;2(4). 043078. https://doi.org/10.1103/PhysRevResearch.2.043078

Author

Pigolotti, Simone ; Jensen, Mogens H. ; Zhan, Yinxiu ; Tiana, Guido. / Bifractal nature of chromosome contact maps. In: Physical Review Research. 2020 ; Vol. 2, No. 4.

Bibtex

@article{2e0815b5d19447239d5a1ad1d97a3cfd,
title = "Bifractal nature of chromosome contact maps",
abstract = "Modern biological techniques such as Hi-C permit one to measure probabilities that different chromosomal regions are close in space. These probabilities can be visualized as matrices called contact maps. In this paper, we introduce a multifractal analysis of chromosomal contact maps. Our analysis reveals that Hi-C maps are bifractal, i.e., complex geometrical objects characterized by two distinct fractal dimensions. To rationalize this observation, we introduce a model that describes chromosomes as a hierarchical set of nested domains and we solve it exactly. The predicted multifractal spectrum is in excellent quantitative agreement with experimental data. Moreover, we show that our theory yields a more robust estimation of the scaling exponent of the contact probability than existing methods. By applying this method to experimental data, we detect subtle conformational changes among chromosomes during differentiation of human stem cells.",
keywords = "3D GENOME, DOMAINS, ORGANIZATION, PRINCIPLES, FLUCTUATIONS, CONFORMATION, ACTIVATION, INSULATION, SCALE",
author = "Simone Pigolotti and Jensen, {Mogens H.} and Yinxiu Zhan and Guido Tiana",
year = "2020",
month = oct,
day = "15",
doi = "10.1103/PhysRevResearch.2.043078",
language = "English",
volume = "2",
journal = "Physical Review Research",
issn = "2643-1564",
publisher = "AMER PHYSICAL SOC",
number = "4",

}

RIS

TY - JOUR

T1 - Bifractal nature of chromosome contact maps

AU - Pigolotti, Simone

AU - Jensen, Mogens H.

AU - Zhan, Yinxiu

AU - Tiana, Guido

PY - 2020/10/15

Y1 - 2020/10/15

N2 - Modern biological techniques such as Hi-C permit one to measure probabilities that different chromosomal regions are close in space. These probabilities can be visualized as matrices called contact maps. In this paper, we introduce a multifractal analysis of chromosomal contact maps. Our analysis reveals that Hi-C maps are bifractal, i.e., complex geometrical objects characterized by two distinct fractal dimensions. To rationalize this observation, we introduce a model that describes chromosomes as a hierarchical set of nested domains and we solve it exactly. The predicted multifractal spectrum is in excellent quantitative agreement with experimental data. Moreover, we show that our theory yields a more robust estimation of the scaling exponent of the contact probability than existing methods. By applying this method to experimental data, we detect subtle conformational changes among chromosomes during differentiation of human stem cells.

AB - Modern biological techniques such as Hi-C permit one to measure probabilities that different chromosomal regions are close in space. These probabilities can be visualized as matrices called contact maps. In this paper, we introduce a multifractal analysis of chromosomal contact maps. Our analysis reveals that Hi-C maps are bifractal, i.e., complex geometrical objects characterized by two distinct fractal dimensions. To rationalize this observation, we introduce a model that describes chromosomes as a hierarchical set of nested domains and we solve it exactly. The predicted multifractal spectrum is in excellent quantitative agreement with experimental data. Moreover, we show that our theory yields a more robust estimation of the scaling exponent of the contact probability than existing methods. By applying this method to experimental data, we detect subtle conformational changes among chromosomes during differentiation of human stem cells.

KW - 3D GENOME

KW - DOMAINS

KW - ORGANIZATION

KW - PRINCIPLES

KW - FLUCTUATIONS

KW - CONFORMATION

KW - ACTIVATION

KW - INSULATION

KW - SCALE

U2 - 10.1103/PhysRevResearch.2.043078

DO - 10.1103/PhysRevResearch.2.043078

M3 - Journal article

VL - 2

JO - Physical Review Research

JF - Physical Review Research

SN - 2643-1564

IS - 4

M1 - 043078

ER -

ID: 255734693