ReviewChromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology2017
Perspectives: using polymer modeling to understand the formation and function of nuclear compartments.
Review in Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed.
- Nucleosome spacing can fine-tune higher-order chromatin assembly.Nature communications · 2025Article
- Multiscale molecular modeling of chromatin with MultiMM: From nucleosomes to the whole genome.Computational and structural biotechnology journal · 2024Article
- Review
- Polycomb repression of Hox genes involves spatial feedback but not domain compaction or phase transition.Nature genetics · 2024Article
- Computational methods for analysing multiscale 3D genome organization.Nature reviews. Genetics · 2024Review
- Interplay between epigenome and 3D chromatin structure.BMB reports · 2023Review
- Epigenetic switching with asymmetric bridging interactions.Biophysical journal · 2023Article
- Strong interactions between highly dynamic lamina-associated domains and the nuclear envelope stabilize the 3D architecture of Drosophila interphase chromatin.Epigenetics & chromatin · 2023Article
- Dynamical modeling of the H3K27 epigenetic landscape in mouse embryonic stem cells.PLoS computational biology · 2022Article
- Uncovering the Principles of Genome Folding by 3D Chromatin Modeling.Cold Spring Harbor perspectives in biology · 2022Review
- Current Understanding of Molecular Phase Separation in Chromosomes.International journal of molecular sciences · 2021Review
- Epigenomic landscape and 3D genome structure in pediatric high-grade glioma.Science advances · 2021Article
- Deciphering hierarchical organization of topologically associated domains through change-point testing.BMC bioinformatics · 2021Article
- Phase separation of DNA: From past to present.Biophysical journal · 2021Review
- A Liquid State Perspective on Dynamics of Chromatin Compartments.Frontiers in molecular biosciences · 2021Review
- Generating Chromosome Geometries in a Minimal Cell From Cryo-Electron Tomograms and Chromosome Conformation Capture Maps.Frontiers in molecular biosciences · 2021Article
- Nonequilibrium Biophysical Processes Influence the Large-Scale Architecture of the Cell Nucleus.Biophysical journal · 2020Article
- Mechanisms and Functions of Chromosome Compartmentalization.Trends in biochemical sciences · 2020Review
- Hi-D: nanoscale mapping of nuclear dynamics in single living cells.Genome biology · 2020Article
- Single cell analysis pushes the boundaries of TAD formation and function.Current opinion in genetics & development · 2020Review
Corrections and comments
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Authors and funding
3 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Compartmentalization is a ubiquitous feature of cellular function. In the nucleus, early observations revealed a non-random spatial organization of the genome with a large-scale segregation between transcriptionally active-euchromatin-and silenced-heterochromatin-parts of the genome. Recent advances in genome-wide mapping and imaging techniques have strikingly improved the resolution at which nuclear genome folding can be analyzed and have revealed a multiscale spatial compartmentalization with increasing evidences that such compartment may indeed result from and participate to genome function. Understanding the underlying mechanisms of genome folding and in particular the link to gene regulation requires a cross-disciplinary approach that combines the new high-resolution techniques with computational modeling of chromatin and chromosomes. In this perspective article, we first present how the copolymer theoretical framework can account for the genome compartmentalization. We then suggest, in a second part, that compartments may act as a "nanoreactor," increasing the robustness of either activation or repression by enhancing the local concentration of regulators. We conclude with the need to develop a new framework, namely the "living chromatin" model that will allow to explicitly investigate the coupling between spatial compartmentalization and gene regulation.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.