Genome-wide profiling of nucleosome sensitivity and chromatin accessibility inDrosophila melanogaster

Mechanisms Underlying Nucleosome Positioning In Vivo

(2014) Amanda L. Hughes et al.   Annual Review of Biophysics

Functional roles of nucleosome stability and dynamics

(2014) R. V. Chereji et al.   Briefings in Functional Genomics

Two distinct promoter architectures centered on dynamic nucleosomes control ribosomal protein gene transcription

(2014) Britta Knight et al.   GENES & DEVELOPMENT

RSC-dependent constructive and destructive interference between opposing arrays of phased nucleosomes in yeast

(2014) Dwaipayan Ganguli et al.   GENOME RESEARCH

Nucleosome repositioning links DNA (de)methylation and differential CTCF binding during stem cell development

(2014) Vladimir B. Teif et al.   GENOME RESEARCH

Genome-scale functional characterization of Drosophila developmental enhancers in vivo

(2014) Evgeny Z. Kvon et al.   NATURE

Comparative analysis of the transcriptome across distant species

(2014) Mark B. Gerstein et al.   NATURE

High-resolution digital profiling of the epigenome

(2014) Gabriel E. Zentner et al.   NATURE REVIEWS GENETICS

Fuzziness and noise in nucleosomal architecture

(2014) Oscar Flores et al.   NUCLEIC ACIDS RESEARCH

Ubiquitous nucleosome crowding in the yeast genome

(2014) R. V. Chereji et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cryo-EM Study of the Chromatin Fiber Reveals a Double Helix Twisted by Tetranucleosomal Units

(2014) F. Song et al.   SCIENCE

Transcribing through the nucleosome

(2014) Sheila S. Teves et al.   TRENDS IN BIOCHEMICAL SCIENCES

Regulation of the Nucleosome Repeat Length In Vivo by the DNA Sequence, Protein Concentrations and Long-Range Interactions

(2014) Daria A. Beshnova et al.   PLoS Computational Biology

The budding yeast Centromere DNA Element II wraps a stable Cse4 hemisome in either orientation in vivo

(2014) Steven Henikoff et al.   eLife

Transcription-generated torsional stress destabilizes nucleosomes

(2013) Sheila S Teves et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Nucleosome sliding mechanisms: new twists in a looped history

(2013) Felix Mueller-Planitz et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Determinants of nucleosome positioning

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

Quantifying the role of steric constraints in nucleosome positioning

(2013) H. Tomas Rube 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

Toward a unified physical model of nucleosome patterns flanking transcription start sites

(2013) W. Mobius et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nucleosome Dynamics as Modular Systems that Integrate DNA Damage and Repair

(2013) C. L. Peterson et al.   Cold Spring Harbor Perspectives in Biology

Nucleosome Remodeling and Epigenetics

(2013) P. B. Becker et al.   Cold Spring Harbor Perspectives in Biology

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

(2012) Kristin Brogaard et al.   NATURE

Genome-wide nucleosome positioning during embryonic stem cell development

(2012) Vladimir B Teif et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Defining the Status of RNA Polymerase at Promoters

(2012) Leighton J. Core et al.   Cell Reports

Targeting chromatin remodelers: Signals and search mechanisms

(2011) Fabian Erdel et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Physical properties of naked DNA influence nucleosome positioning and correlate with transcription start and termination sites in yeast

(2011) Özgen Deniz et al.   BMC GENOMICS

Chromatin higher-order structures and gene regulation

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

Nucleosome fragility reveals novel functional states of chromatin and poises genes for activation

(2011) Y. Xi et al.   GENOME RESEARCH

Statistical Mechanics of Nucleosomes Constrained by Higher-Order Chromatin Structure

(2011) Răzvan V. Chereji et al.   JOURNAL OF STATISTICAL PHYSICS

Remodelers Organize Cellular Chromatin by Counteracting Intrinsic Histone-DNA Sequence Preferences in a Class-Specific Manner

(2011) Y. M. Moshkin et al.   MOLECULAR AND CELLULAR BIOLOGY

Chromatin remodelers clear nucleosomes from intrinsically unfavorable sites to establish nucleosome-depleted regions at promoters

(2011) Denis Tolkunov et al.   MOLECULAR BIOLOGY OF THE CELL

Determinants of nucleosome organization in primary human cells

(2011) Anton Valouev et al.   NATURE

Statistical mechanics of nucleosome ordering by chromatin-structure-induced two-body interactions

(2011) Răzvan V. Chereji et al.   PHYSICAL REVIEW E

A Role for Snf2-Related Nucleosome-Spacing Enzymes in Genome-Wide Nucleosome Organization

(2011) T. Gkikopoulos et al.   SCIENCE

A Packing Mechanism for Nucleosome Organization Reconstituted Across a Eukaryotic Genome

(2011) Z. Zhang et al.   SCIENCE

The Effect of Micrococcal Nuclease Digestion on Nucleosome Positioning Data

(2010) Ho-Ryun Chung et al.   PLoS One

High-throughput sequencing reveals a simple model of nucleosome energetics

(2010) G. Locke et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-Wide Kinetics of Nucleosome Turnover Determined by Metabolic Labeling of Histones

(2010) R. B. Deal et al.   SCIENCE

An in vitro-identified high-affinity nucleosome-positioning signal is capable of transiently positioning a nucleosome in vivo

(2010) Lia E Gracey et al.   Epigenetics & Chromatin

G+C content dominates intrinsic nucleosome occupancy

(2009) Desiree Tillo et al.   BMC BIOINFORMATICS

The folding and unfolding of eukaryotic chromatin

(2009) Andrew Bassett et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

High-resolution nucleosome mapping reveals transcription-dependent promoter packaging

(2009) A. Weiner et al.   GENOME RESEARCH

The logic of chromatin architecture and remodelling at promoters

(2009) Bradley R. Cairns   NATURE

Nucleosome positioning and gene regulation: advances through genomics

(2009) Cizhong Jiang et al.   NATURE REVIEWS GENETICS

Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo

(2009) Yong Zhang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Open chromatin encoded in DNA sequence is the signature of ‘master’ replication origins in human cells

(2009) Benjamin Audit et al.   NUCLEIC ACIDS RESEARCH

Thermodynamics of Intragenic Nucleosome Ordering

(2009) G. Chevereau et al.   PHYSICAL REVIEW LETTERS

Nucleosome positioning by genomic excluding-energy barriers

(2009) Pascale Milani et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome

(2008) T. N. Mavrich et al.   GENOME RESEARCH

The DNA-encoded nucleosome organization of a eukaryotic genome

(2008) Noam Kaplan et al.   NATURE

Activator Control of Nucleosome Occupancy in Activation and Repression of Transcription

(2008) Gene O Bryant et al.   PLOS BIOLOGY