A single nucleotide resolution model for large-scale simulations of double stranded DNA
Published 2016 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
A single nucleotide resolution model for large-scale simulations of double stranded DNA
Authors
Keywords
-
Journal
Soft Matter
Volume 12, Issue 47, Pages 9458-9470
Publisher
Royal Society of Chemistry (RSC)
Online
2016-11-08
DOI
10.1039/c6sm01859a
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Stochastic Model of Supercoiling-Dependent Transcription
- (2016) C. A. Brackley et al. PHYSICAL REVIEW LETTERS
- DNA denaturation bubbles: Free-energy landscape and nucleation/closure rates
- (2015) François Sicard et al. JOURNAL OF CHEMICAL PHYSICS
- Introducing improved structural properties and salt dependence into a coarse-grained model of DNA
- (2015) Benedict E. K. Snodin et al. JOURNAL OF CHEMICAL PHYSICS
- Topological patterns in two-dimensional gel electrophoresis of DNA knots
- (2015) Davide Michieletto et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Plectoneme tip bubbles: Coupled denaturation and writhing in supercoiled DNA
- (2015) Christian Matek et al. Scientific Reports
- Pack, unpack, bend, twist, pull, push: the physical side of gene expression
- (2014) Christophe Lavelle CURRENT OPINION IN GENETICS & DEVELOPMENT
- Models for twistable elastic polymers in Brownian dynamics, and their implementation for LAMMPS
- (2014) C. A. Brackley et al. JOURNAL OF CHEMICAL PHYSICS
- Simulations of DNA topoisomerase 1B bound to supercoiled DNA reveal changes in the flexibility pattern of the enzyme and a secondary protein–DNA binding site
- (2014) Ilda D'Annessa et al. NUCLEIC ACIDS RESEARCH
- DNA supercoiling: A regulatory signal for the repressor
- (2014) Y. Ding et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Threading Dynamics of Ring Polymers in a Gel
- (2014) Davide Michieletto et al. ACS Macro Letters
- An experimentally-informed coarse-grained 3-site-per-nucleotide model of DNA: Structure, thermodynamics, and dynamics of hybridization
- (2013) Daniel M. Hinckley et al. JOURNAL OF CHEMICAL PHYSICS
- Functional implications of genome topology
- (2013) Giacomo Cavalli et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Developments in understanding and controlling self assembly of DNA-functionalized colloids
- (2013) Lorenzo Di Michele et al. PHYSICAL CHEMISTRY CHEMICAL PHYSICS
- Nonspecific bridging-induced attraction drives clustering of DNA-binding proteins and genome organization
- (2013) C. A. Brackley et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Coarse-Grained Simulations of Macromolecules: From DNA to Nanocomposites
- (2011) Juan J. de Pablo Annual Review of Physical Chemistry
- Supramolecular DNA assembly
- (2011) Christopher K. McLaughlin et al. CHEMICAL SOCIETY REVIEWS
- Structural, mechanical, and thermodynamic properties of a coarse-grained DNA model
- (2011) Thomas E. Ouldridge et al. JOURNAL OF CHEMICAL PHYSICS
- Magnetic torque tweezers: measuring torsional stiffness in DNA and RecA-DNA filaments
- (2010) Jan Lipfert et al. NATURE METHODS
- Supercoiling Induces Denaturation Bubbles in Circular DNA
- (2010) Jae-Hyung Jeon et al. PHYSICAL REVIEW LETTERS
- Entropic organization of interphase chromosomes
- (2009) Peter R. Cook et al. JOURNAL OF CELL BIOLOGY
- Single Stranded Loops of Quadruplex DNA As Key Benchmark for Testing Nucleic Acids Force Fields
- (2009) Eva Fadrná et al. Journal of Chemical Theory and Computation
- Towards self-replicating materials of DNA-functionalized colloids
- (2009) Mirjam E. Leunissen et al. Soft Matter
- Recent advances in the study of nucleic acid flexibility by molecular dynamics
- (2008) Modesto Orozco et al. CURRENT OPINION IN STRUCTURAL BIOLOGY
- Structure and Dynamics of Interphase Chromosomes
- (2008) Angelo Rosa et al. PLoS Computational Biology
Find Funding. Review Successful Grants.
Explore over 25,000 new funding opportunities and over 6,000,000 successful grants.
ExploreFind the ideal target journal for your manuscript
Explore over 38,000 international journals covering a vast array of academic fields.
Search