Open Force Field Evaluator: An Automated, Efficient, and Scalable Framework for the Estimation of Physical Properties from Molecular Simulation.
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[1] Michael R. Shirts,et al. Development and Benchmarking of Open Force Field v1.0.0-the Parsley Small-Molecule Force Field. , 2020, Journal of chemical theory and computation.
[2] Teresa Head-Gordon,et al. Systematic Optimization of Water Models Using Liquid/Vapor Surface Tension Data. , 2019, The journal of physical chemistry. B.
[3] Pnina Dauber-Osguthorpe,et al. Biomolecular force fields: where have we been, where are we now, where do we need to go and how do we get there? , 2018, Journal of Computer-Aided Molecular Design.
[4] Michael R. Shirts,et al. Configuration-Sampling-Based Surrogate Models for Rapid Parameterization of Non-Bonded Interactions. , 2018, Journal of chemical theory and computation.
[5] Alexander D. MacKerell,et al. Optimized Lennard-Jones Parameters for Druglike Small Molecules. , 2018, Journal of Chemical Theory and Computation.
[6] Katarzyna B. Koziara,et al. Optimization of Empirical Force Fields by Parameter Space Mapping: A Single-Step Perturbation Approach. , 2017, Journal of chemical theory and computation.
[7] William L. Jorgensen,et al. LigParGen web server: an automatic OPLS-AA parameter generator for organic ligands , 2017, Nucleic Acids Res..
[8] William L. Jorgensen,et al. 1.14*CM1A-LBCC: Localized Bond-Charge Corrected CM1A Charges for Condensed-Phase Simulations. , 2017, The journal of physical chemistry. B.
[9] Vijay S. Pande,et al. OpenMM 7: Rapid development of high performance algorithms for molecular dynamics , 2016, bioRxiv.
[10] David L. Mobley,et al. FreeSolv: a database of experimental and calculated hydration free energies, with input files , 2014, Journal of Computer-Aided Molecular Design.
[11] Vijay S Pande,et al. Building Force Fields: An Automatic, Systematic, and Reproducible Approach. , 2014, The journal of physical chemistry letters.
[12] Pengyu Y. Ren,et al. Systematic improvement of a classical molecular model of water. , 2013, The journal of physical chemistry. B.
[13] Jiahao Chen,et al. Systematic Parametrization of Polarizable Force Fields from Quantum Chemistry Data. , 2013, Journal of chemical theory and computation.
[14] Peter A. Williams,et al. ThermoML: an XML-Based Approach for Storage and Exchange of Experimental and Critically Evaluated Thermophysical and Thermochemical Property Data. 5. Speciation and Complex Equilibria , 2011 .
[15] Michael R. Shirts,et al. Statistically optimal analysis of samples from multiple equilibrium states. , 2008, The Journal of chemical physics.
[16] Xin Wen,et al. BindingDB: a web-accessible database of experimentally determined protein–ligand binding affinities , 2006, Nucleic Acids Res..
[17] Hans W. Horn,et al. Characterization of the TIP4P-Ew water model: vapor pressure and boiling point. , 2005, The Journal of chemical physics.
[18] Junmei Wang,et al. Development and testing of a general amber force field , 2004, J. Comput. Chem..
[19] Greg L. Hura,et al. Development of an improved four-site water model for biomolecular simulations: TIP4P-Ew. , 2004, The Journal of chemical physics.
[20] Michael D. Frenkel,et al. ThermoML -An XML-based approach for storage and exchange of experimental and critically evaluated thermophysical and thermochemical property data. 4. biomaterials , 2003 .
[21] W. L. Jorgensen,et al. Development and Testing of the OPLS All-Atom Force Field on Conformational Energetics and Properties of Organic Liquids , 1996 .
[22] Michael D. Frenkel,et al. ThermoML-An XML-based approach for storage and exchange of experimental and critically evaluated thermophysical and thermochemical property data. 2. Uncertainties , 2003 .