The physics of epigenetics

R Cortini, M Barbi, BR Caré, C Lavelle, A Lesne… - Reviews of Modern …, 2016 - APS
In higher organisms, all cells share the same genome, but every cell expresses only a
limited and specific set of genes that defines the cell type. During cell division, not only the …

[图书][B] Stochastic processes in cell biology

PC Bressloff - 2014 - Springer
One of the major challenges in modern biology is to understand how the molecular
components of a living cell operate in a highly noisy environment. What are the specific …

Quasi-potential landscape in complex multi-stable systems

JX Zhou, MDS Aliyu, E Aurell… - Journal of the Royal …, 2012 - royalsocietypublishing.org
The developmental dynamics of multicellular organisms is a process that takes place in a
multi-stable system in which each attractor state represents a cell type, and attractor …

Polymer model with Epigenetic Recoloring Reveals a Pathway for the de novo Establishment and 3D Organization of Chromatin Domains

D Michieletto, E Orlandini, D Marenduzzo - Physical Review X, 2016 - APS
One of the most important problems in development is how epigenetic domains can first be
established, and then maintained, within cells. To address this question, we propose a …

The epigenetic landscape in the course of time: Conrad Hal Waddington's methodological impact on the life sciences

J Baedke - Studies in History and Philosophy of Science Part C …, 2013 - Elsevier
It seems that the reception of Conrad Hal Waddington's work never really gathered speed in
mainstream biology. This paper, offering a transdisciplinary survey of approaches using his …

Physical modeling of the heritability and maintenance of epigenetic modifications

SH Sandholtz, Q MacPherson… - Proceedings of the …, 2020 - National Acad Sciences
We develop a predictive theoretical model of the physical mechanisms that govern the
heritability and maintenance of epigenetic modifications. This model focuses on a particular …

Painters in chromatin: a unified quantitative framework to systematically characterize epigenome regulation and memory

AZ Abdulla, C Vaillant, D Jost - Nucleic acids research, 2022 - academic.oup.com
In eukaryotes, many stable and heritable phenotypes arise from the same DNA sequence,
owing to epigenetic regulatory mechanisms relying on the molecular cooperativity of 'reader …

Epigenetics meets mathematics: towards a quantitative understanding of chromatin biology

PA Steffen, JP Fonseca, L Ringrose - Bioessays, 2012 - Wiley Online Library
Abstract How fast? How strong? How many? So what? Why do numbers matter in biology?
Chromatin binding proteins are forever in motion, exchanging rapidly between bound and …

Shaping epigenetic memory via genomic bookmarking

D Michieletto, M Chiang, D Coli… - Nucleic acids …, 2018 - academic.oup.com
Reconciling the stability of epigenetic patterns with the rapid turnover of histone
modifications and their adaptability to external stimuli is an outstanding challenge. Here, we …

Dynamical phase transition in models that couple chromatin folding with histone modifications

A Sood, G Schuette, B Zhang - Physical Review E, 2024 - APS
Genomic regions can acquire heritable epigenetic states through unique histone
modifications, which lead to stable gene expression patterns without altering the underlying …