Polymers under confinement: single polymers, how they interact, and as model chromosomes

A polymer in a crowded and confined space: effects of crowder size and poly-dispersity

(2015) Juin Kim et al.   Soft Matter

The multifork Escherichia coli chromosome is a self-duplicating and self-segregating thermodynamic ring polymer

(2014) B. Youngren et al.   GENES & DEVELOPMENT

Extended de Gennes Regime of DNA Confined in a Nanochannel

(2014) Liang Dai et al.   MACROMOLECULES

Mixing and segregation of ring polymers: spatial confinement and molecular crowding effects

(2014) Jaeoh Shin et al.   NEW JOURNAL OF PHYSICS

Four-Dimensional Imaging of E. coli Nucleoid Organization and Dynamics in Living Cells

(2013) Jay K. Fisher et al.   CELL

Segregation of semiflexible macromolecules in nanochannel

(2013) Dušan Račko et al.   JOURNAL OF CHEMICAL PHYSICS

Free Energy and Extension of a Wormlike Chain in Tube Confinement

(2013) Jeff Z. Y. Chen   MACROMOLECULES

Comparisons of a Polymer in Confinement versus Applied Force

(2013) Liang Dai et al.   MACROMOLECULES

Organization and segregation of bacterial chromosomes

(2013) Xindan Wang et al.   NATURE REVIEWS GENETICS

Polymer modeling of the E. coli genome reveals the involvement of locus positioning and macrodomain structuring for the control of chromosome conformation and segregation

(2013) Ivan Junier et al.   NUCLEIC ACIDS RESEARCH

Molecular crowding limits translation and cell growth

(2013) S. Klumpp et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High-Resolution Mapping of the Spatial Organization of a Bacterial Chromosome

(2013) T. B. K. Le et al.   SCIENCE

Elasticity of flexible polymers under cylindrical confinement: appreciating the blob scaling regime in computer simulations

(2013) Juin Kim et al.   Soft Matter

Intrachain Ordering and Segregation of Polymers under Confinement

(2012) Youngkyun Jung et al.   MACROMOLECULES

Variation of the folding and dynamics of theEscherichia colichromosome with growth conditions

(2012) Nastaran Hadizadeh Yazdi et al.   MOLECULAR MICROBIOLOGY

Segregation of polymers in confined spaces

(2012) Ya Liu et al.   PHYSICAL BIOLOGY

Spontaneous Helicity of a Polymer with Side Loops Confined to a Cylinder

(2012) Debasish Chaudhuri et al.   PHYSICAL REVIEW LETTERS

Physical manipulation of the Escherichia coli chromosome reveals its soft nature

(2012) J. Pelletier et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Physical descriptions of the bacterial nucleoid at large scales, and their biological implications

(2012) Vincenzo G Benza et al.   REPORTS ON PROGRESS IN PHYSICS

DNA confinement in nanochannels: physics and biological applications

(2012) Walter Reisner et al.   REPORTS ON PROGRESS IN PHYSICS

Self-assembly of diblock copolymers under confinement

(2012) An-Chang Shi et al.   Soft Matter

A device for extraction, manipulation and stretching of DNA from single human chromosomes

(2011) Kristian H. Rasmussen et al.   LAB ON A CHIP

Simulation of DNA Extension in Nanochannels

(2011) Yanwei Wang et al.   MACROMOLECULES

Effect of Nanochannel Geometry on DNA Structure in the Presence of Macromolecular Crowding Agent

(2011) Jeremy J. Jones et al.   NANO LETTERS

A model for Escherichia coli chromosome packaging supports transcription factor-induced DNA domain formation

(2011) Miriam Fritsche et al.   NUCLEIC ACIDS RESEARCH

Transition between Two Regimes Describing Internal Fluctuation of DNA in a Nanochannel

(2011) Tianxiang Su et al.   PLoS One

Ring polymers as model bacterial chromosomes: confinement, chain topology, single chain statistics, and how they interact

(2011) Youngkyun Jung et al.   Soft Matter

DNA condensation in bacteria: Interplay between macromolecular crowding and nucleoid proteins

(2010) Renko de Vries   BIOCHIMIE

Towards building a chromosome segregation machine

(2010) Kerry Bloom et al.   NATURE

Entropy as the driver of chromosome segregation

(2010) Suckjoon Jun et al.   NATURE REVIEWS MICROBIOLOGY

Overlapping two self-avoiding polymers in a closed cylindrical pore: Implications for chromosome segregation in a bacterial cell

(2010) Youngkyun Jung et al.   PHYSICAL REVIEW E

Demixing of compact polymers chains in three dimensions

(2010) Jesper Lykke Jacobsen   PHYSICAL REVIEW E

DNA Compaction in a Crowded Environment with Negatively Charged Proteins

(2010) M. K. Krotova et al.   PHYSICAL REVIEW LETTERS

Bacterial Chromosomal Loci Move Subdiffusively through a Viscoelastic Cytoplasm

(2010) Stephanie C. Weber et al.   PHYSICAL REVIEW LETTERS

A Geometrical Model for DNA Organization in Bacteria

(2010) Mathias Buenemann et al.   PLoS One

Strong intranucleoid interactions organize the Escherichia coli chromosome into a nucleoid filament

(2010) P. A. Wiggins et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Escherichia coli

(2009) David S. Goodsell   BIOCHEMISTRY AND MOLECULAR BIOLOGY EDUCATION

Entropic organization of interphase chromosomes

(2009) Peter R. Cook et al.   JOURNAL OF CELL BIOLOGY

Replication-directed sister chromosome alignment inEscherichia coli

(2009) Xun Liu et al.   MOLECULAR MICROBIOLOGY

Topological origins of chromosomal territories

(2009) Julien Dorier et al.   NUCLEIC ACIDS RESEARCH

Self-avoiding polymer trapped inside a cylindrical pore: Flory free energy and unexpected dynamics

(2009) Youngkyun Jung et al.   PHYSICAL REVIEW E

Nonlinear Low-Force Elasticity of Single-Stranded DNA Molecules

(2009) O. A. Saleh et al.   PHYSICAL REVIEW LETTERS

Macromolecular crowding induced elongation and compaction of single DNA molecules confined in a nanochannel

(2009) C. Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Entropic Unfolding of DNA Molecules in Nanofluidic Channels

(2008) Stephen L. Levy et al.   NANO LETTERS

Scaling theory of DNA confined in nanochannels and nanoslits

(2008) Theo Odijk   PHYSICAL REVIEW E

Compression and Stretching of a Self-Avoiding Chain in Cylindrical Nanopores

(2008) Suckjoon Jun et al.   PHYSICAL REVIEW LETTERS

Spatial organization of a replicating bacterial chromosome

(2008) I. A. Berlatzky et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Measuring the Surface Dynamics of Glassy Polymers

(2008) Z. Fakhraai et al.   SCIENCE

Packaging of a Polymer by a Viral Capsid: The Interplay between Polymer Length and Capsid Size

(2007) Yufang Hu et al.   BIOPHYSICAL JOURNAL