Literature DB >> 15245206

Mayer sampling: calculation of cluster integrals using free-energy perturbation methods.

Jayant K Singh1, David A Kofke.   

Abstract

Free-energy simulation methods are applied toward the calculation of cluster integrals that appear in diagrammatic methods of statistical mechanics. In this approach, Monte Carlo sampling is performed on a number of molecules equal to the order of the integral, and configurations are weighted according to the absolute value of the integrand. An umbrella-sampling average yields the value of the cluster integral in reference to a known integral. Virial coefficients, up to the sixth for the Lennard-Jones model and the fifth for the SPCE model of water, are calculated as a demonstration.

Entities:  

Year:  2004        PMID: 15245206     DOI: 10.1103/PhysRevLett.92.220601

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  10 in total

1.  Comparing Alchemical Free Energy Estimates to Experimental Values Based on the Ben-Naim Formula: How Much Agreement Can We Expect?

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Journal:  J Phys Chem B       Date:  2020-01-23       Impact factor: 2.991

2.  Communication: Predicting virial coefficients and alchemical transformations by extrapolating Mayer-sampling Monte Carlo simulations.

Authors:  Harold W Hatch; Sally Jiao; Nathan A Mahynski; Marco A Blanco; Vincent K Shen
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3.  Modulating non-native aggregation and electrostatic protein-protein interactions with computationally designed single-point mutations.

Authors:  C J O'Brien; M A Blanco; J A Costanzo; M Enterline; E J Fernandez; A S Robinson; C J Roberts
Journal:  Protein Eng Des Sel       Date:  2016-05-09       Impact factor: 1.650

4.  Solubility Limits in Lennard-Jones Mixtures: Effects of Disparate Molecule Geometries.

Authors:  Kippi M Dyer; John S Perkyns; B Montgomery Pettitt
Journal:  J Phys Chem B       Date:  2015-02-19       Impact factor: 2.991

5.  Interplay of particle shape and suspension properties: a study of cube-like particles.

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6.  Effect of the surface charge distribution on the fluid phase behavior of charged colloids and proteins.

Authors:  Marco A Blanco; Vincent K Shen
Journal:  J Chem Phys       Date:  2016-10-21       Impact factor: 3.488

7.  Coarse-grained model for colloidal protein interactions, B(22), and protein cluster formation.

Authors:  Marco A Blanco; Erinc Sahin; Anne S Robinson; Christopher J Roberts
Journal:  J Phys Chem B       Date:  2013-12-10       Impact factor: 2.991

8.  Molecular Calculation of the Critical Parameters of Classical Helium.

Authors:  Richard A Messerly; Navneeth Gokul; Andrew J Schultz; David A Kofke; Allan H Harvey
Journal:  J Chem Eng Data       Date:  2019       Impact factor: 2.694

9.  Evaluating the Effects of Hinge Flexibility on the Solution Structure of Antibodies at Concentrated Conditions.

Authors:  Marco A Blanco; Harold W Hatch; Joseph E Curtis; Vincent K Shen
Journal:  J Pharm Sci       Date:  2018-12-26       Impact factor: 3.534

10.  Quantifying Protein-Protein Interactions in Molecular Simulations.

Authors:  Alfredo Jost Lopez; Patrick K Quoika; Max Linke; Gerhard Hummer; Jürgen Köfinger
Journal:  J Phys Chem B       Date:  2020-06-02       Impact factor: 2.991

  10 in total

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