DNA structure and function

Regulating the Chromatin Landscape: Structural and Mechanistic Perspectives

(2014) Blaine Bartholomew   Annual Review of Biochemistry

Torsion-Mediated Interaction between Adjacent Genes

(2014) Sam Meyer et al.   PLoS Computational Biology

DNA thermodynamics shape chromosome organization and topology

(2013) Andrew A. Travers et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Temperature Dependence of the DNA Double Helix at the Nanoscale: Structure, Elasticity, and Fluctuations

(2013) Sam Meyer et al.   BIOPHYSICAL JOURNAL

Integration of syntactic and semantic properties of the DNA code reveals chromosomes as thermodynamic machines converting energy into information

(2013) Georgi Muskhelishvili et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

DNA thermodynamic stability and supercoil dynamics determine the gene expression program during the bacterial growth cycle

(2013) Patrick Sobetzko et al.   Molecular BioSystems

Transcription forms and remodels supercoiling domains unfolding large-scale chromatin structures

(2013) Catherine Naughton et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Determinants of nucleosome positioning

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

Transcription-dependent dynamic supercoiling is a short-range genomic force

(2013) Fedor Kouzine et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Modulation of Higher Order Chromatin Conformation in Mammalian Cell Nuclei Can Be Mediated by Polyamines and Divalent Cations

(2013) Ashwat Visvanathan et al.   PLoS One

DNA information: from digital code to analogue structure

(2012) A. A. Travers et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY A-MATHEMATICAL PHYSICAL AND ENGINEERING SCIENCES

Mechanical Properties of High-G⋅C Content DNA with A-Type Base-Stacking

(2011) Silvia Hormeño et al.   BIOPHYSICAL JOURNAL

Linker Histones Incorporation Maintains Chromatin Fiber Plasticity

(2011) Pierre Recouvreux et al.   BIOPHYSICAL JOURNAL

Topoisomerase II binds nucleosome-free DNA and acts redundantly with topoisomerase I to enhance recruitment of RNA Pol II in budding yeast

(2011) A. S. Sperling et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Gene order and chromosome dynamics coordinate spatiotemporal gene expression during the bacterial growth cycle

(2011) P. Sobetzko et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Chromatin structure: does the 30-nm fibre exist in vivo?

(2010) Kazuhiro Maeshima et al.   CURRENT OPINION IN CELL BIOLOGY

Twist-writhe partitioning in a coarse-grained DNA minicircle model

(2010) Mehmet Sayar et al.   PHYSICAL REVIEW E

The Importance of Negative Superhelicity in Inducing the Formation of G-Quadruplex and i-Motif Structures in the c-Myc Promoter: Implications for Drug Targeting and Control of Gene Expression

(2009) Daekyu Sun et al.   JOURNAL OF MEDICINAL CHEMISTRY

Single-molecule force spectroscopy reveals a highly compliant helical folding for the 30-nm chromatin fiber

(2009) Maarten Kruithof et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Dissecting the logical types of network control in gene expression profiles

(2008) Carsten Marr et al.   BMC Systems Biology

The Major Architects of Chromatin: Architectural Proteins in Bacteria, Archaea and Eukaryotes

(2008) Martijn S. Luijsterburg et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

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

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

DNA Double Helices Recognize Mutual Sequence Homology in a Protein Free Environment

(2008) Geoff S. Baldwin et al.   JOURNAL OF PHYSICAL CHEMISTRY B

The functional response of upstream DNA to dynamic supercoiling in vivo

(2008) Fedor Kouzine et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Portal Motor Velocity and Internal Force Resisting Viral DNA Packaging in Bacteriophage ϕ29

(2007) John Peter Rickgauer et al.   BIOPHYSICAL JOURNAL