Generalized simulated tempering for exploring strong phase transitions (Q34279694)

1 August 2017

title

Generalized simulated tempering for exploring strong phase transitions (English)

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1 August 2017

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8 August 2024

author name string

Jaegil Kim

1

1 reference

1 August 2017

John E. Straub

2

1 reference

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8 August 2024

language of work or name

English

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publication date

1 October 2010

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1 August 2017

21 October 2010

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National Center for Biotechnology Information

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=pubmed&retmode=json&id=20969364

full work available at URL

8 August 2024

https://europepmc.org/articles/pmc2973984?pdf=render

online access status

open access

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https://www.ncbi.nlm.nih.gov/pmc/articles/pmid/20969364/pdf/?tool=EBI

8 August 2024

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8 August 2024

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https://europepmc.org/articles/PMC2973984

8 August 2024

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https://europepmc.org/articles/PMC2973984?pdf=render

8 August 2024

online access status

open access

content deliverer

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?resulttype=core&format=json&query=SRC%3AMED%20AND%20EXT_ID%3A20969364

https://doi.org/10.1063/1.3503503

8 August 2024

online access status

open access

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https://pubs.aip.org/aip/jcp/article-pdf/doi/10.1063/1.3503503/13797495/154101_1_online.pdf

8 August 2024

1 reference

Journal of Chemical Physics

8 August 2024

published in

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1 August 2017

volume

133

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1 August 2017

issue

15

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1 August 2017

page(s)

154101

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Enhanced sampling and applications in protein folding in explicit solvent

1 August 2017

cites work

1 reference

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Generalized replica exchange method

6 July 2018

1 reference

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Error and efficiency of simulated tempering simulations

6 July 2018

1 reference

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Optimal replica exchange method combined with Tsallis weight sampling

6 July 2018

1 reference

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Replica exchange statistical temperature Monte Carlo

6 July 2018

1 reference

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Simulated tempering yields insight into the low-resolution Rosetta scoring functions

6 July 2018

1 reference

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Convergence of folding free energy landscapes via application of enhanced sampling methods in a distributed computing environment

6 July 2018

1 reference

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Simulation via direct computation of partition functions

6 July 2018

1 reference

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Statistical temperature molecular dynamics: application to coarse-grained beta-barrel-forming protein models

6 July 2018

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Replica exchange with solute tempering: a method for sampling biological systems in explicit water

6 July 2018

1 reference

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Performance Limitations of Flat-Histogram Methods

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2973984

Determining the density of states for classical statistical models: A random walk algorithm to produce a flat histogram

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2973984

Generalized-ensemble algorithms for molecular simulations of biopolymers

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2973984

Efficient, Multiple-Range Random Walk Algorithm to Calculate the Density of States

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2973984

Negative Heat Capacity for a Cluster of 147 Sodium Atoms

6 July 2018

1 reference

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Three-helix-bundle protein in a Ramachandran model

6 July 2018

1 reference

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New Monte Carlo algorithm: Entropic sampling.

6 July 2018

1 reference

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Novel methods of sampling phase space in the simulation of biological systems

6 July 2018

1 reference

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Replica Monte Carlo simulation of spin glasses.

6 July 2018

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Replica-exchange molecular dynamics method for protein folding

21 January 2018

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Optimized parallel tempering simulations of proteins.

21 January 2018

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Structure optimization and folding mechanisms of off-lattice protein models using statistical temperature molecular dynamics simulation: Statistical temperature annealing.

21 January 2018

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Monte Carlo simulations in generalized ensemble: Multicanonical algorithm versus simulated tempering.

21 January 2018

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Choosing weights for simulated tempering

21 January 2018

1 reference

Simulated Tempering Distributed Replica Sampling, Virtual Replica Exchange, and Other Generalized-Ensemble Methods for Conformational Sampling.

21 January 2018

1 reference

Comparison of the serial and parallel algorithms of generalized ensemble simulations: an analytical approach.

21 January 2018

1 reference

Comparison of sampling efficiency between simulated tempering and replica exchange

21 January 2018

1 reference

From multidimensional replica-exchange method to multidimensional multicanonical algorithm and simulated tempering.

21 January 2018

1 reference

Simulated-tempering replica-exchange method for the multidimensional version.

21 January 2018

1 reference

Comparison between integrated and parallel tempering methods in enhanced sampling simulations

21 January 2018

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Relationship between protein folding thermodynamics and the energy landscape

21 January 2018

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Dynamical origin of uniform sampling in multicanonical ensemble.

21 January 2018

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Possible generalization of Boltzmann-Gibbs statistics

21 January 2018

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Efficient parallel tempering for first-order phase transitions.

21 January 2018

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Replica-exchange method using the generalized effective potential.

21 January 2018

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All-atom level direct folding simulation of a betabetaalpha miniprotein.

21 January 2018

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Performances of Wang-Landau algorithms for continuous systems.

21 January 2018

1 reference

Comment on "The incomplete beta function law for parallel tempering sampling of classical canonical systems" [J. Chem. Phys. 120, 4119 (2004)].

21 January 2018

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Structure of Met-enkephalin in explicit aqueous solution using replica exchange molecular dynamics

21 January 2018

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Optimal allocation of replicas in parallel tempering simulations.

21 January 2018

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Multidimensional generalized-ensemble algorithms for complex systems.

21 January 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2973984

Statistical-temperature Monte Carlo and molecular dynamics algorithms.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2973984

Generalized simulated annealing algorithms using Tsallis statistics: Application to conformational optimization of a tetrapeptide.

28 October 2018

1 reference

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Generalized-ensemble Monte Carlo method for systems with rough energy landscape

28 October 2018

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Replica-exchange simulated tempering method for simulations of frustrated systems

21 January 2018

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Generalized simulated tempering realized on expanded ensembles of non-Boltzmann weights

21 January 2018

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12 December 2020

Simulated Solute Tempering

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12 December 2020

Tsallis dynamics using the Nosé-Hoover approach

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12 December 2020

Adaptive integration method for Monte Carlo simulations

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12 December 2020

New Monte Carlo technique for studying phase transitions

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12 December 2020

Microcanonical versus canonical analysis of protein folding

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12 December 2020

Gaussian ensemble as an interpolating ensemble

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12 December 2020

Stochastic formulation of sampling dynamics in generalized ensemble methods

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12 December 2020

Coexistence in finite systems

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12 December 2020

Microcanonical Analyses of Peptide Aggregation Processes

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12 December 2020

Simulated-tempering procedure for spin-glass simulations

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12 December 2020

Optimized Monte Carlo data analysis

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12 December 2020

Statistical thermodynamics of the cluster solid-liquid transition

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12 December 2020

New approach to spin-glass simulations

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12 December 2020

Simulated Tempering: A New Monte Carlo Scheme

10

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Negative heat capacity in the critical region of nuclear fragmentation: an experimental evidence of the liquid-gas phase transition

8 August 2024

59

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8 August 2024

The Potts model

66

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8 August 2024

Identifiers

DOI

10.1063/1.3503503

1 reference

1 August 2017

1 reference

1 August 2017

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