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Dynamics of Nucleosome Invasion by DNA Binding Proteins
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Effect of force on mononucleosomal dynamics
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Nucleosome Geometry and Internucleosomal Interactions Control the Chromatin Fiber Conformation
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Cryo-EM Study of the Chromatin Fiber Reveals a Double Helix Twisted by Tetranucleosomal Units
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April 2014 |
The Effect of Internucleosomal Interaction on Folding of the Chromatin Fiber
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AWSEM-MD: Protein Structure Prediction Using Coarse-Grained Physical Potentials and Bioinformatically Based Local Structure Biasing
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Rotational and translational diffusion of short rodlike molecules in solution: Oligonucleotides
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Multidimensional free-energy calculations using the weighted histogram analysis method
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Superresolution intrinsic fluorescence imaging of chromatin utilizing native, unmodified nucleic acids for contrast
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Mapping Nucleosome Resolution Chromosome Folding in Yeast by Micro-C
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Nucleosome sliding mechanisms: new twists in a looped history
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September 2013 |
An experimentally-informed coarse-grained 3-site-per-nucleotide model of DNA: Structure, thermodynamics, and dynamics of hybridization
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Frustration, specific sequence dependence, and nonlinearity in large-amplitude fluctuations of allosteric proteins
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Exploring the Free Energy Landscape of Nucleosomes
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Single-molecule super-resolution imaging of chromosomes and in situ haplotype visualization using Oligopaint FISH probes
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Nucleosome structural studies
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Chromatin fibers are left-handed double helices with diameter and mass per unit length that depend on linker length
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Chromatin structure-dependent conformations of the H1 CTD
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June 2016 |
DNA Methylation Effects on Tetra-Nucleosome Compaction and Aggregation
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Activation of proto-oncogenes by disruption of chromosome neighborhoods
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March 2016 |
Rapid spontaneous accessibility of nucleosomal DNA
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December 2004 |
Crystal structure of the nucleosome core particle at 2.8 Å resolution
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Variable chromatin structure revealed by in situ spatially correlated DNA cleavage mapping
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December 2016 |
The Free Energy Landscape of Internucleosome Interactions and Its Relation to Chromatin Fiber Structure
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January 2019 |
Kinetics of DNA supercoiling studied by Brownian dynamics simulation
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Structure of the 3000Å chromatin filament: X-ray diffraction from oriented samples
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November 1985 |
Comprehensive analysis of the chromatin landscape in Drosophila melanogaster
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A Method for the In Vitro Reconstitution of a Defined “30nm” Chromatin Fibre Containing Stoichiometric Amounts of the Linker Histone
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Linker DNA bending induced by the core histones of chromatin
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A relationship between the helical twist of DNA and the ordered positioning of nucleosomes in all eukaryotic cells.
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Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
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Chromatin structure: does the 30-nm fibre exist in vivo?
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June 2010 |
Exploring the three-dimensional organization of genomes: interpreting chromatin interaction data
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May 2013 |
Determinants of nucleosome positioning
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March 2013 |
Crystal structure of globular domain of histone H5 and its implications for nucleosome binding
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March 1993 |
Characterization of Nucleosome Unwrapping within Chromatin Fibers Using Magnetic Tweezers
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July 2014 |
Ionic effects on the elasticity of single DNA molecules
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The Effect of Linker Histone's Nucleosome Binding Affinity on Chromatin Unfolding Mechanisms
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Nucleosome Arrays Reveal the Two-Start Organization of the Chromatin Fiber
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Histone acetylation dependent energy landscapes in tri-nucleosome revealed by residue-resolved molecular simulations
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October 2016 |
A chromatin folding model that incorporates linker variability generates fibers resembling the native structures.
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Hierarchical looping of zigzag nucleosome chains in metaphase chromosomes
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Computer Simulation of the 30-Nanometer Chromatin Fiber
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Direct detection of linker DNA bending in defined-length oligomers of chromatin.
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Structure of the ‘30nm’ chromatin fibre: A key role for the linker histone
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Unraveling the 3D genome: genomics tools for multiscale exploration
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July 2015 |
A coarse grain model for DNA
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A dynamic light scattering study of four DNA restriction fragments
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Tension-Dependent Free Energies of Nucleosome Unwrapping
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August 2016 |
Role of histone tails in chromatin folding revealed by a mesoscopic oligonucleosome model
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October 2006 |
Evidence for heteromorphic chromatin fibers from analysis of nucleosome interactions
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July 2009 |
X-ray structure of a tetranucleosome and its implications for the chromatin fibre
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July 2005 |
Solvent Mediated Interactions in the Structure of the Nucleosome Core Particle at 1.9Å Resolution
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June 2002 |
Cancer Genetics and Epigenetics: Two Sides of the Same Coin?
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July 2012 |
Higher-Order Structures of Chromatin: The Elusive 30 nm Fiber
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February 2007 |
Dynamic condensation of linker histone C-terminal domain regulates chromatin structure
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June 2014 |
Single-molecule force spectroscopy reveals a highly compliant helical folding for the 30-nm chromatin fiber
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April 2009 |
Specific Contributions of Histone Tails and their Acetylation to the Mechanical Stability of Nucleosomes
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February 2005 |
Living without 30nm chromatin fibers
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January 2011 |
Chromatin conformation and salt-induced compaction: three-dimensional structural information from cryoelectron microscopy
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Single-Nucleosome Mapping of Histone Modifications in S. cerevisiae
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The structure of histone H1 and its location in chromatin
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Nucleosomes in Solution Exist as a Mixture of Twist-defect States
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Uncovering the forces between nucleosomes using DNA origami
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November 2016 |
Flexible Histone Tails in a New Mesoscopic Oligonucleosome Model
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July 2006 |
Spatial organization of chromatin domains and compartments in single chromosomes
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July 2016 |
Rotational Brownian motion in an external potential: The Langevin equation approach
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Structure and Dynamics of a 197 bp Nucleosome in Complex with Linker Histone H1
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May 2017 |
Role of linker histone in chromatin structure and function: H1 stoichiometry and nucleosome repeat length
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February 2006 |
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Liquid-like behavior of chromatin
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April 2016 |
Super-resolution imaging reveals distinct chromatin folding for different epigenetic states
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January 2016 |
Exploring the Conformational Space of Chromatin Fibers and Their Stability by Numerical Dynamic Phase Diagrams
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March 2010 |
Measuring the translational diffusion coefficients of small DNA molecules by capillary electrophoresis
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January 2001 |
Topological domains in mammalian genomes identified by analysis of chromatin interactions
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April 2012 |
Coarse-grained modeling of DNA curvature
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October 2014 |
A Molecular View of the Dynamics of dsDNA Packing Inside Viral Capsids in the Presence of Ions
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April 2017 |
Blocking Transcription Through a Nucleosome with Synthetic DNA Ligands
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August 2002 |
In silico evidence for sequence-dependent nucleosome sliding
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October 2017 |
Chromatin remodeling by DNA bending, not twisting
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January 2005 |
Mesoscale Modeling Reveals Hierarchical Looping of Chromatin Fibers Near Gene Regulatory Elements
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May 2016 |
EM measurements define the dimensions of the "30-nm" chromatin fiber: Evidence for a compact, interdigitated structure
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April 2006 |
Pulling a single chromatin fiber reveals the forces that maintain its higher-order structure
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January 2000 |
Magnetic torque tweezers: measuring torsional stiffness in DNA and RecA-DNA filaments
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October 2010 |
Chromatin Dynamics: Nucleosomes go Mobile through Twist Defects
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October 2003 |
Chromosome Organization by a Nucleoid-Associated Protein in Live Bacteria
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September 2011 |
Umbrella sampling: Umbrella sampling
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May 2011 |
Nucleosome repeat length and linker histone stoichiometry determine chromatin fiber structure
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Force spectroscopy of chromatin fibers: Extracting energetics and structural information from Monte Carlo simulations
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A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
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Models for twistable elastic polymers in Brownian dynamics, and their implementation for LAMMPS
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April 2014 |
The fractal globule as a model of chromatin architecture in the cell
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January 2011 |
Rotational brownian motion in an external potential: the langevin equation approach
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July 1996 |
Structure and Dynamics of a 197 bp Nucleosome in Complex with Linker Histone H1
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June 2017 |
Dynamic condensation of linker histone C-terminal domain regulates chromatin structure.
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January 2014 |
Chromosome Organization by a Nucleoid-Associated Protein in Live Bacteria
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A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
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July 2015 |
Spatial Organization of Chromatin Domains and Compartments in Single Chromosomes
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February 2017 |
Models for twistable elastic polymers in Brownian dynamics, and their implementation for LAMMPS
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January 2014 |
Coarse-grained Modeling of DNA Curvature
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January 2014 |
Tension-dependent Free Energies of Nucleosome Unwrapping
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January 2016 |