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Polymer physics indicates chromatin folding variability across single-cells results from state degeneracy in phase separation

Nature communications, 2020-07, Vol.11 (1), p.3289-3289, Article 3289

2020

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Polymer physics predicts the effects of structural variants on chromatin architecture

Nature genetics, 2018-05, Vol.50 (5), p.662-667

2018

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Loop-extrusion and polymer phase-separation can co-exist at the single-molecule level to shape chromatin folding

Nature communications, 2022-07, Vol.13 (1), p.4070-4070, Article 4070

2022

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Structure of the human chromosome interaction network

PloS one, 2017-11, Vol.12 (11), p.e0188201-e0188201

2017

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Dynamic 3D chromatin architecture contributes to enhancer specificity and limb morphogenesis

Nature genetics, 2018-10, Vol.50 (10), p.1463-1473

2018

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Multiscale modelling of chromatin 4D organization in SARS-CoV-2 infected cells

Nature communications, 2024-05, Vol.15 (1), p.4014-4014, Article 4014

2024

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Hierarchical folding and reorganization of chromosomes are linked to transcriptional changes in cellular differentiation

Molecular systems biology, 2015-12, Vol.11 (12), p.852-n/a

2015

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Comparison of the Hi-C, GAM and SPRITE methods using polymer models of chromatin

Nature methods, 2021-05, Vol.18 (5), p.482

2021

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Multiplex-GAM: genome-wide identification of chromatin contacts yields insights overlooked by Hi-C

Nature methods, 2023-07, Vol.20 (7), p.1037

2023

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Molecular Dynamics simulations of the Strings and Binders Switch model of chromatin

Methods (San Diego, Calif.), 2018-06, Vol.142, p.81-88

2018

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Hmga2 protein loss alters nuclear envelope and 3D chromatin structure

BMC biology, 2022-08, Vol.20 (1), p.1-171, Article 171

2022

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A Dynamic Folded Hairpin Conformation Is Associated with α-Globin Activation in Erythroid Cells

Cell reports (Cambridge), 2020-02, Vol.30 (7), p.2125-2135.e5

2020

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Further Delineation of Duplications of ARX Locus Detected in Male Patients with Varying Degrees of Intellectual Disability

International journal of molecular sciences, 2022-03, Vol.23 (6), p.3084

2022

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Polymer Models of Chromatin Imaging Data in Single Cells

Algorithms, 2022-09, Vol.15 (9), p.330

2022

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The Physics of DNA Folding: Polymer Models and Phase-Separation

Polymers, 2022-05, Vol.14 (9), p.1918

2022

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Polymer physics of chromosome large-scale 3D organisation

Scientific reports, 2016-07, Vol.6 (1), p.29775-29775, Article 29775

2016

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The Interplay between Phase Separation and Gene-Enhancer Communication: A Theoretical Study

Biophysical journal, 2020-08, Vol.119 (4), p.873-883

2020

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A Polymer Physics Investigation of the Architecture of the Murine Orthologue of the 7q11.23 Human Locus

Frontiers in neuroscience, 2017-10, Vol.11, p.559-559

2017

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CTCF mediates dosage- and sequence-context-dependent transcriptional insulation by forming local chromatin domains

Nature genetics, 2021-07, Vol.53 (7), p.1064-1074

2021

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Computational approaches from polymer physics to investigate chromatin folding

Current opinion in cell biology, 2020-06, Vol.64, p.10-17

2020

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Preformed chromatin topology assists transcriptional robustness of Shh during limb development

Proceedings of the National Academy of Sciences - PNAS, 2019-06, Vol.116 (25), p.12390-12399

2019

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8-oxodG accumulation within super-enhancers marks fragile CTCF-mediated chromatin loops

Nucleic acids research, 2022-04, Vol.50 (6), p.3292

2022

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Physics-Based Polymer Models to Probe Chromosome Structure in Single Molecules

Methods in molecular biology (Clifton, N.J.), 2023, Vol.2655, p.57

2023

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Polymer physics reveals a combinatorial code linking 3D chromatin architecture to 1D chromatin states

Cell reports (Cambridge), 2022-03, Vol.38 (13), p.110601-110601, Article 110601

2022

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Divergent Transcription of the Nkx2-5 Locus Generates Two Enhancer RNAs with Opposing Functions

iScience, 2020-09, Vol.23 (9), p.101539-101539, Article 101539

2020

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Polymer physics indicates chromatin folding variability across single-cells results from state degeneracy in phase separation

Polymer physics predicts the effects of structural variants on chromatin architecture

Loop-extrusion and polymer phase-separation can co-exist at the single-molecule level to shape chromatin folding

Structure of the human chromosome interaction network

Dynamic 3D chromatin architecture contributes to enhancer specificity and limb morphogenesis

Multiscale modelling of chromatin 4D organization in SARS-CoV-2 infected cells

Hierarchical folding and reorganization of chromosomes are linked to transcriptional changes in cellular differentiation

Comparison of the Hi-C, GAM and SPRITE methods using polymer models of chromatin

Multiplex-GAM: genome-wide identification of chromatin contacts yields insights overlooked by Hi-C

Molecular Dynamics simulations of the Strings and Binders Switch model of chromatin

Hmga2 protein loss alters nuclear envelope and 3D chromatin structure

A Dynamic Folded Hairpin Conformation Is Associated with α-Globin Activation in Erythroid Cells

Further Delineation of Duplications of ARX Locus Detected in Male Patients with Varying Degrees of Intellectual Disability

Polymer Models of Chromatin Imaging Data in Single Cells

The Physics of DNA Folding: Polymer Models and Phase-Separation

Polymer physics of chromosome large-scale 3D organisation

The Interplay between Phase Separation and Gene-Enhancer Communication: A Theoretical Study

A Polymer Physics Investigation of the Architecture of the Murine Orthologue of the 7q11.23 Human Locus

CTCF mediates dosage- and sequence-context-dependent transcriptional insulation by forming local chromatin domains

Computational approaches from polymer physics to investigate chromatin folding

Preformed chromatin topology assists transcriptional robustness of Shh during limb development

8-oxodG accumulation within super-enhancers marks fragile CTCF-mediated chromatin loops

Physics-Based Polymer Models to Probe Chromosome Structure in Single Molecules

Polymer physics reveals a combinatorial code linking 3D chromatin architecture to 1D chromatin states

Divergent Transcription of the Nkx2-5 Locus Generates Two Enhancer RNAs with Opposing Functions

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