Nucleosome Clutches are Regulated by Chromatin Internal Parameters

Mesoscale Modeling and Single-Nucleosome Tracking Reveal Remodeling of Clutch Folding and Dynamics in Stem Cell Differentiation

(2021) Pablo Aurelio Gómez-García et al.   Cell Reports

Ultrastructural Details of Mammalian Chromosome Architecture

(2020) Nils Krietenstein et al.   MOLECULAR CELL

Mesoscale modeling reveals formation of an epigenetically driven HOXC gene hub

(2019) Gavin D. Bascom et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Sensitive effect of linker histone binding mode and subtype on chromatin condensation

(2019) Ognjen Perišić et al.   NUCLEIC ACIDS RESEARCH

Super-resolution microscopy reveals how histone tail acetylation affects DNA compaction within nucleosomes in vivo

(2019) Jason Otterstrom et al.   NUCLEIC ACIDS RESEARCH

Nucleosome positions alone can be used to predict domains in yeast chromosomes

(2019) Oliver Wiese et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nucleosome structure and dynamics are coming of age

(2018) Keda Zhou et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Kilobase Pair Chromatin Fiber Contacts Promoted by Living-System-Like DNA Linker Length Distributions and Nucleosome Depletion

(2017) Gavin D Bascom et al.   JOURNAL OF PHYSICAL CHEMISTRY B

Dynamic Organization of Chromatin Domains Revealed by Super-Resolution Live-Cell Imaging

(2017) Tadasu Nozaki et al.   MOLECULAR CELL

Emerging roles of linker histones in regulating chromatin structure and function

(2017) Dmitry V. Fyodorov et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

ChromEMT: Visualizing 3D chromatin structure and compaction in interphase and mitotic cells

(2017) Horng D. Ou et al.   SCIENCE

Insights into Nucleosome Organization in Mouse Embryonic Stem Cells through Chemical Mapping

(2016) Lilien N. Voong et al.   CELL

Nucleosome positioning changes during human embryonic stem cell differentiation

(2016) Wenjuan Zhang et al.   Epigenetics

Nucleosome repositioning underlies dynamic gene expression

(2016) Nicolas Nocetti et al.   GENES & DEVELOPMENT

Hierarchical looping of zigzag nucleosome chains in metaphase chromosomes

(2016) Sergei A. Grigoryev et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MNase titration reveals differences between nucleosome occupancy and chromatin accessibility

(2016) Jakub Mieczkowski et al.   Nature Communications

Nucleosome architecture throughout the cell cycle

(2016) Özgen Deniz et al.   Scientific Reports

Mapping Nucleosome Resolution Chromosome Folding in Yeast by Micro-C

(2015) Tsung-Han S. Hsieh et al.   CELL

Chromatin Fibers Are Formed by Heterogeneous Groups of Nucleosomes In Vivo

(2015) Maria Aurelia Ricci et al.   CELL

A brief review of nucleosome structure

(2015) Amber R. Cutter et al.   FEBS LETTERS

Forced unraveling of chromatin fibers with nonuniform linker DNA lengths

(2015) Gungor Ozer et al.   JOURNAL OF PHYSICS-CONDENSED MATTER

Chromatin Unfolding by Epigenetic Modifications Explained by Dramatic Impairment of Internucleosome Interactions: A Multiscale Computational Study

(2015) Rosana Collepardo-Guevara et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Increasing Nucleosome Occupancy Is Correlated with an Increasing Mutation Rate so Long as DNA Repair Machinery Is Intact

(2015) Puya G. Yazdi et al.   PLoS One

Dynamic condensation of linker histone C-terminal domain regulates chromatin structure

(2014) Antoni Luque et al.   NUCLEIC ACIDS RESEARCH

Developmentally Regulated Linker Histone H1c Promotes Heterochromatin Condensation and Mediates Structural Integrity of Rod Photoreceptors in Mouse Retina

(2013) Evgenya Y. Popova et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Determinants of nucleosome positioning

(2013) Kevin Struhl et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

High-resolution nucleosome mapping of targeted regions using BAC-based enrichment

(2013) Erbay Yigit et al.   NUCLEIC ACIDS RESEARCH

Chemical map of Schizosaccharomyces pombe reveals species-specific features in nucleosome positioning

(2013) G. Moyle-Heyrman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High-Resolution Mapping of H1 Linker Histone Variants in Embryonic Stem Cells

(2013) Kaixiang Cao et al.   PLoS Genetics

A map of nucleosome positions in yeast at base-pair resolution

(2012) Kristin Brogaard et al.   NATURE

Crucial role of dynamic linker histone binding and divalent ions for DNA accessibility and gene regulation revealed by mesoscale modeling of oligonucleosomes

(2012) Rosana Collepardo-Guevara et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Chromatin Remodeling Identified at GC-Rich Long Nucleosome-Free Regions

(2012) Karin Schwarzbauer et al.   PLoS One

Nucleosome distribution and linker DNA: connecting nuclear function to dynamic chromatin structureThis paper is one of a selection of papers published in a Special Issue entitled 31st Annual International Asilomar Chromatin and Chromosomes Conference, and has undergone the Journal’s usual peer review process.

(2011) Heather J. Szerlong et al.   Biochemistry and Cell Biology

Chromatin higher-order structures and gene regulation

(2011) Guohong Li et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Histone fold modifications control nucleosome unwrapping and disassembly

(2011) M. Simon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Modeling Studies of Chromatin Fiber Structure as a Function of DNA Linker Length

(2010) Ognjen Perišić et al.   JOURNAL OF MOLECULAR BIOLOGY

Living without 30nm chromatin fibers

(2010) Eden Fussner et al.   TRENDS IN BIOCHEMICAL SCIENCES

Mechanisms that Specify Promoter Nucleosome Location and Identity

(2009) Paul D. Hartley et al.   CELL

Nucleosome positioning: How is it established, and why does it matter?

(2009) Marta Radman-Livaja et al.   DEVELOPMENTAL BIOLOGY

A Tale of Tails: How Histone Tails Mediate Chromatin Compaction in Different Salt and Linker Histone Environments†

(2009) Gaurav Arya et al.   JOURNAL OF PHYSICAL CHEMISTRY A

Nucleosome positioning and gene regulation: advances through genomics

(2009) Cizhong Jiang et al.   NATURE REVIEWS GENETICS

Evidence for heteromorphic chromatin fibers from analysis of nucleosome interactions

(2009) S. A. Grigoryev et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Global Transcription in Pluripotent Embryonic Stem Cells

(2008) Sol Efroni et al.   Cell Stem Cell

Histone H1 and its isoforms: Contribution to chromatin structure and function

(2008) Nicole Happel et al.   GENE

30 nm Chromatin Fibre Decompaction Requires both H4-K16 Acetylation and Linker Histone Eviction

(2008) Philip J.J. Robinson et al.   JOURNAL OF MOLECULAR BIOLOGY

A Library of Yeast Transcription Factor Motifs Reveals a Widespread Function for Rsc3 in Targeting Nucleosome Exclusion at Promoters

(2008) Gwenael Badis et al.   MOLECULAR CELL

The DNA-encoded nucleosome organization of a eukaryotic genome

(2008) Noam Kaplan et al.   NATURE

Nucleosome repeat length and linker histone stoichiometry determine chromatin fiber structure

(2008) Andrew Routh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA