ArticleNature communications2021
Precise measurements of chromatin diffusion dynamics by modeling using Gaussian processes.
Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 22 citations in OpenAlex.
- Cell-specific Cahn-Hilliard models predict condensed fates of the chromosomal passenger complex.PLoS computational biology · 2026Article
- Integrated MINFLUX tracking reveals two distinct chromatin dynamics classes across cell types.Nature structural & molecular biology · 2026Article
- Chromatin dynamics of the Klf4 locus in mouse pluripotent cells.Scientific reports · 2026Article
- Cahn-Hilliard dynamical models for condensed biomolecular systems.bioRxiv : the preprint server for biology · 2025Article
- Transcription processes compete with loop extrusion to homogenize promoter and enhancer dynamics.Science advances · 2024Article
- DNA choreography: correlating mobility and organization of DNA across different resolutions from loops to chromosomes.Histochemistry and cell biology · 2024Article
- Visualization of CONature chemistry · 2024Article
- Article
- Competition between transcription and loop extrusion modulates promoter and enhancer dynamics.Research square · 2023Article
- Live-cell imaging of chromatin contacts opens a new window into chromatin dynamics.Epigenetics & chromatin · 2023Review
- Competition between transcription and loop extrusion modulates promoter and enhancer dynamics.bioRxiv : the preprint server for biology · 2023Article
- A quantitative modelling approach for DNA repair on a population scale.PLoS computational biology · 2022Article
- Precise measurements of chromatin diffusion dynamics by modeling using Gaussian processes.Nature communications · 2021Article
Corrections and comments
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Authors and funding
7 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The spatiotemporal organization of chromatin influences many nuclear processes: from chromosome segregation to transcriptional regulation. To get a deeper understanding of these processes, it is essential to go beyond static viewpoints of chromosome structures, to accurately characterize chromatin's diffusion properties. We present GP-FBM: a computational framework based on Gaussian processes and fractional Brownian motion to extract diffusion properties from stochastic trajectories of labeled chromatin loci. GP-FBM uses higher-order temporal correlations present in the data, therefore, outperforming existing methods. Furthermore, GP-FBM allows to interpolate incomplete trajectories and account for substrate movement when two or more particles are present. Using our method, we show that average chromatin diffusion properties are surprisingly similar in interphase and mitosis in mouse embryonic stem cells. We observe surprising heterogeneity in local chromatin dynamics, correlating with potential regulatory activity. We also present GP-Tool, a user-friendly graphical interface to facilitate usage of GP-FBM by the research community.
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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.