Molecular renormalization group coarse-graining of polymer chains: application to double-stranded DNA.

scientific article published on May 2009

Molecular renormalization group coarse-graining of polymer chains: application to double-stranded DNA. is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1016/J.BPJ.2009.02.067
P932PMC publication ID2712212
P698PubMed publication ID19450476
P5875ResearchGate publication ID24435315

P50authorGaregin A PapoianQ38329029
P2093author name stringAlexey Savelyev
P2860cites workDNA and its counterions: a molecular dynamics studyQ39946368
Multiscale modeling of nucleosome dynamicsQ42957995
Brownian dynamics of double-stranded DNA in periodic systems with discrete saltQ46064810
Polyionic charge density plays a key role in differential recognition of mobile ions by biopolymersQ46505001
A coarse grain model for DNA.Q51053784
Deriving effective mesoscale potentials from atomistic simulations.Q52010759
Polymer chain models of DNA and chromatin.Q53631626
Calculation of effective interaction potentials from radial distribution functions: A reverse Monte Carlo approachQ78072769
A multiscale coarse-graining method for biomolecular systemsQ79935025
Inter-DNA electrostatics from explicit solvent molecular dynamics simulationsQ80208887
Multiscale modeling of lipids and lipid bilayersQ81141978
Canonical dynamics: Equilibrium phase-space distributionsQ21709091
The Amber biomolecular simulation programsQ27860745
BALL--rapid software prototyping in computational molecular biology. Biochemicals Algorithms LibraryQ28139567
Refinement of the AMBER force field for nucleic acids: improving the description of alpha/gamma conformersQ29615408
Compensating bends in a 16-base-pair DNA oligomer containing a T(3)A(3) segment: A NMR study of global DNA curvature.Q30975435
Electrostatic, steric, and hydration interactions favor Na(+) condensation around DNA compared with K(+).Q31074702
Flexible histone tails in a new mesoscopic oligonucleosome modelQ34680344
Coarse-graining in polymer simulation: from the atomistic to the mesoscopic scale and backQ35000496
The multiscale coarse-graining method. II. Numerical implementation for coarse-grained molecular modelsQ37163939
The multiscale coarse-graining method. I. A rigorous bridge between atomistic and coarse-grained modelsQ37163952
Ion motions in molecular dynamics simulations on DNA.Q37571782
P433issue10
P407language of work or nameEnglishQ1860
P304page(s)4044-4052
P577publication date2009-05-01
P1433published inBiophysical JournalQ2032955
P1476titleMolecular renormalization group coarse-graining of polymer chains: application to double-stranded DNA.
P478volume96

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cites work (P2860)
Q57372301A Review of Multiscale Computational Methods in Polymeric Materials
Q46033111A generalized mean field theory of coarse-graining.
Q30416167AWSEM-MD: protein structure prediction using coarse-grained physical potentials and bioinformatically based local structure biasing
Q27319987An advanced coarse-grained nucleosome core particle model for computer simulations of nucleosome-nucleosome interactions under varying ionic conditions
Q21284344BALL--biochemical algorithms library 1.3
Q34377420Chemically accurate coarse graining of double-stranded DNA.
Q37804856Coarse-grained (multiscale) simulations in studies of biophysical and chemical systems
Q43817739Coarse-graining DNA for simulations of DNA nanotechnology.
Q48024614Coarse-graining entropy, forces, and structures.
Q57372065Computer Simulations of Soft Matter: Linking the Scales
Q53483821Denaturation and renaturation behaviors of short DNA in a confined space.
Q45963501Fitting coarse-grained distribution functions through an iterative force-matching method.
Q58022424Genetic Algorithm Optimization of Force Field Parameters: Application to a Coarse-Grained Model of RNA
Q53526838Monte-Carlo simulations of PAMAM dendrimer-DNA interactions.
Q40042600Moving beyond Watson-Crick models of coarse grained DNA dynamics.
Q38136697Perspective: Coarse-grained models for biomolecular systems
Q35529949RedMDStream: Parameterization and Simulation Toolbox for Coarse-Grained Molecular Dynamics Models
Q38646397Reference state for the generalized Yvon-Born-Green theory: application for coarse-grained model of hydrophobic hydration
Q46727149Sequence-dependent thermodynamics of a coarse-grained DNA model.
Q50896330Systematic hierarchical coarse-graining with the inverse Monte Carlo method.
Q48047632The "sugar" coarse-grained DNA model.
Q45865562The adsorption-desorption transition of double-stranded DNA interacting with an oppositely charged dendrimer induced by multivalent anions

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