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A Polymer Model with Epigenetic Recolouring Reveals a Pathway for the de novo Establishment and 3D organisation of Chromatin Domains

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Three-Dimensional Folding and Functional Organization Principles of the Drosophila Genome
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Dynamics and Memory of Heterochromatin in Living Cells
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Predictive Polymer Modeling Reveals Coupled Fluctuations in Chromosome Conformation and Transcription
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A Systems Approach to Reverse Engineer Lifespan Extension by Dietary Restriction
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Fast signals and slow marks: the dynamics of histone modifications
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Loss of the Suv39h Histone Methyltransferases Impairs Mammalian Heterochromatin and Genome Stability
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Cellular Memory and the Histone Code
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Statistical mechanics of random heteropolymers
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Targeted Recruitment of Set1 Histone Methylase by Elongating Pol II Provides a Localized Mark and Memory of Recent Transcriptional Activity
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The language of covalent histone modifications
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Ultrasensitive gene regulation by positive feedback loops in nucleosome modification
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SAGA interacting factors confine sub-diffusion of transcribed genes to the nuclear envelope
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The genetics of ageing
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A Polycomb-based switch underlying quantitative epigenetic memory
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Spatial partitioning of the regulatory landscape of the X-inactivation centre
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Topological domains in mammalian genomes identified by analysis of chromatin interactions
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Super-resolution imaging reveals distinct chromatin folding for different epigenetic states
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Retrieving the intracellular topology from multi-scale protein mobility mapping in living cells
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A multistep epigenetic switch enables the stable inheritance of DNA methylation states
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Epigenetic inheritance during the cell cycle
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Regulation of nucleosome dynamics by histone modifications
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Folding kinetics of a polymer
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The role of topological constraints in the kinetics of collapse of macromolecules
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Kinetics of collapse for a flexible coil
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Folding mechanism of a polymer chain with short-range attractions
inferredcites →https://doi.org/10.1073/pnas.1204799109openalex-snapshot
Complexity of chromatin folding is captured by the strings and binders switch model
inferredcites →https://doi.org/10.1073/pnas.1302950110openalex-snapshot
Nonspecific bridging-induced attraction drives clustering of DNA-binding proteins and genome organization
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HJURP is a CENP-A chromatin assembly factor sufficient to form a functional de novo kinetochore
inferredcites →https://doi.org/10.1088/0305-4470/13/11/023openalex-snapshot
Distribution functions in the interior of polymer chains
inferredcites →https://doi.org/10.1088/1478-3975/12/2/026007openalex-snapshot
Effect of replication on epigenetic memory and consequences on gene transcription
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Theory for the stability and regulation of epigenetic landscapes
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Editorial: NAR Surveys the Past, Present and Future of Restriction Endonucleases
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Jarid2 and PRC2, partners in regulating gene expression
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Spreading of X chromosome inactivation via a hierarchy of defined Polycomb stations
inferredcites →https://doi.org/10.1103/physrevb.35.5290openalex-snapshot
Exact contact critical exponents of a self-avoiding polymer chain in two dimensions
inferredcites →https://doi.org/10.1103/physrevlett.109.100602openalex-snapshot
Multistability with a Metastable Mixed State
inferredcites →https://doi.org/10.1103/physrevlett.111.268302openalex-snapshot
Elasticity-Based Mechanism for the Collective Motion of Self-Propelled Particles with Springlike Interactions: A Model System for Natural and Artificial Swarms
inferredcites →https://doi.org/10.1103/physrevlett.112.068101openalex-snapshot
Statistical Mechanics Model for the Dynamics of Collective Epigenetic Histone Modification
inferredcites →https://doi.org/10.1103/physrevlett.98.108104openalex-snapshot
Symmetry-Breaking Model for X -Chromosome Inactivation
inferredcites →https://doi.org/10.1111/nyas.12262openalex-snapshot
Establishing epigenetic domains via chromatin‐bound histone modifiers
inferredcites →https://doi.org/10.1126/sciadv.1500737openalex-snapshot
Regulation of gene transcription by Polycomb proteins
inferredcites →https://doi.org/10.1126/science.1063127openalex-snapshot
Translating the Histone Code
inferredcites →https://doi.org/10.1126/science.1067799openalex-snapshot
Capturing Chromosome Conformation
inferredcites →https://doi.org/10.1126/science.1181369openalex-snapshot
Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
inferredcites →https://doi.org/10.1146/annurev.biochem.70.1.475openalex-snapshot
Transcriptional Coactivator Complexes
inferredcites →https://doi.org/10.1186/1756-8935-7-30openalex-snapshot
Mechanistic stochastic model of histone modification pattern formation
inferredcites →https://doi.org/10.1186/s13059-015-0770-6openalex-snapshot
Molecular memories in the regulation of seasonal flowering: from competence to cessation
inferredcites →https://doi.org/10.1209/0295-5075/6/4/005openalex-snapshot
Mean-Field Model for Protein Folding
inferredcites →https://doi.org/10.1209/epl/i2002-00207-5openalex-snapshot
Collapse dynamics of a polymer chain: Theory and simulation
inferredcites →https://doi.org/10.1371/journal.pcbi.0040001openalex-snapshot
Chemotaxis in Escherichia coli: A Molecular Model for Robust Precise Adaptation
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Specificity, propagation, and memory of pericentric heterochromatin
inferredcites →https://doi.org/10.1530/joe-14-0141openalex-snapshot
Clocks for all seasons: unwinding the roles and mechanisms of circadian and interval timers in the hypothalamus and pituitary
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A polymer model explains the complexity of large-scale chromatin folding

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1007/s10577-016-9548-2openalex-snapshot
Perspectives: using polymer modeling to understand the formation and function of nuclear compartments
inferred← citeshttps://doi.org/10.1371/journal.pcbi.1010450openalex-snapshot
Dynamical modeling of the H3K27 epigenetic landscape in mouse embryonic stem cells
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