Comparison of permutationally invariant polynomials, neural networks, and Gaussian approximation potentials in representing water interactions through many-body expansions.
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Jörg Behler | Michele Ceriotti | Gábor Csányi | Giulio Imbalzano | Andreas W Götz | Francesco Paesani | J. Behler | Gábor Csányi | M. Ceriotti | G. Imbalzano | T. Nguyen | Eszter Székely | A. W. Götz | F. Paesani | Thuong T Nguyen | Eszter Székely | A. Götz
[1] F. R. Parker,et al. Monte Carlo Equation of State of Molecules Interacting with the Lennard‐Jones Potential. I. A Supercritical Isotherm at about Twice the Critical Temperature , 1957 .
[2] Francesco Paesani,et al. Exploring Electrostatic Effects on the Hydrogen Bond Network of Liquid Water through Many-Body Molecular Dynamics. , 2016, The journal of physical chemistry. B.
[3] R. Kondor,et al. On representing chemical environments , 2012, 1209.3140.
[4] P. Mankoo,et al. The vibrational proton potential in bulk liquid water and ice. , 2008, The Journal of chemical physics.
[5] Michele Parrinello,et al. Simplifying the representation of complex free-energy landscapes using sketch-map , 2011, Proceedings of the National Academy of Sciences.
[6] G. Voth,et al. Flexible simple point-charge water model with improved liquid-state properties. , 2006, The Journal of chemical physics.
[7] Petros Drineas,et al. CUR matrix decompositions for improved data analysis , 2009, Proceedings of the National Academy of Sciences.
[8] Gábor Csányi,et al. Modeling Molecular Interactions in Water: From Pairwise to Many-Body Potential Energy Functions , 2016, Chemical reviews.
[9] Berhane Temelso,et al. Benchmark structures and binding energies of small water clusters with anharmonicity corrections. , 2011, The journal of physical chemistry. A.
[10] Francesco Paesani,et al. Getting the Right Answers for the Right Reasons: Toward Predictive Molecular Simulations of Water with Many-Body Potential Energy Functions. , 2016, Accounts of chemical research.
[11] Sotiris S. Xantheas,et al. Development of transferable interaction models for water. III. Reparametrization of an all-atom polarizable rigid model (TTM2–R) from first principles , 2002 .
[12] Jörg Behler,et al. Nuclear Quantum Effects in Water at the Triple Point: Using Theory as a Link Between Experiments. , 2016, The journal of physical chemistry letters.
[13] Volodymyr Babin,et al. Development of a "First-Principles" Water Potential with Flexible Monomers. III. Liquid Phase Properties. , 2014, Journal of chemical theory and computation.
[14] J. Pablo.,et al. Dinámica del volteo de bloques en taludes rocosos , 2020 .
[15] Gregory S. Tschumper,et al. CCSD(T) complete basis set limit relative energies for low-lying water hexamer structures. , 2009, The journal of physical chemistry. A.
[16] Giorgina Corongiu,et al. Molecular dynamics simulations of liquid water using the NCC ab initio potential , 1990 .
[17] E. Clementi,et al. Preliminary observations on a new water–water potential , 2009 .
[18] V. Babin,et al. Development of a "First Principles" Water Potential with Flexible Monomers. II: Trimer Potential Energy Surface, Third Virial Coefficient, and Small Clusters. , 2014, Journal of chemical theory and computation.
[19] Francesco Paesani,et al. Dissecting the Molecular Structure of the Air/Water Interface from Quantum Simulations of the Sum-Frequency Generation Spectrum. , 2016, Journal of the American Chemical Society.
[20] Lie,et al. Molecular-dynamics simulation of liquid water with an ab initio flexible water-water interaction potential. , 1986, Physical review. A, General physics.
[21] Bertrand Guillot,et al. A reappraisal of what we have learnt during three decades of computer simulations on water , 2002 .
[22] Joel M. Bowman,et al. Permutationally invariant potential energy surfaces in high dimensionality , 2009 .
[23] Thomas E. Markland,et al. Competing quantum effects in the dynamics of a flexible water model. , 2009, The Journal of chemical physics.
[24] Hans-Joachim Werner,et al. A simple and efficient CCSD(T)-F12 approximation. , 2007, The Journal of chemical physics.
[25] Joel M. Bowman,et al. Flexible, ab initio potential, and dipole moment surfaces for water. I. Tests and applications for clusters up to the 22-mer. , 2011, The Journal of chemical physics.
[26] Michele Ceriotti,et al. Mapping and classifying molecules from a high-throughput structural database , 2016, Journal of Cheminformatics.
[27] Volodymyr Babin,et al. A Critical Assessment of Two-Body and Three-Body Interactions in Water. , 2012, Journal of chemical theory and computation.
[28] L. Dang,et al. MOLECULAR DYNAMICS STUDY OF WATER CLUSTERS, LIQUID, AND LIQUID-VAPOR INTERFACE OF WATER WITH MANY-BODY POTENTIALS , 1997 .
[29] Frank H. Stillinger,et al. Polarization model for water and its ionic dissociation products , 1978 .
[30] Noam Bernstein,et al. Machine learning unifies the modeling of materials and molecules , 2017, Science Advances.
[31] Volodymyr Babin,et al. Toward a Universal Water Model: First Principles Simulations from the Dimer to the Liquid Phase. , 2012, The journal of physical chemistry letters.
[32] S. Xantheas,et al. Development of transferable interaction models for water. I. Prominent features of the water dimer potential energy surface , 2002 .
[33] N. Metropolis,et al. Equation of State Calculations by Fast Computing Machines , 1953, Resonance.
[34] Harry Partridge,et al. The determination of an accurate isotope dependent potential energy surface for water from extensive ab initio calculations and experimental data , 1997 .
[35] P. Kollman,et al. Water–water and water–ion potential functions including terms for many body effects , 1985 .
[36] Pengyu Y. Ren,et al. Polarizable Atomic Multipole Water Model for Molecular Mechanics Simulation , 2003 .
[37] Sandra E Brown,et al. Monitoring Water Clusters "Melt" Through Vibrational Spectroscopy. , 2017, Journal of the American Chemical Society.
[38] Robert J. Harrison,et al. Development of transferable interaction models for water. II. Accurate energetics of the first few water clusters from first principles , 2002 .
[39] Volodymyr Babin,et al. Development of a "First Principles" Water Potential with Flexible Monomers: Dimer Potential Energy Surface, VRT Spectrum, and Second Virial Coefficient. , 2014, Journal of chemical theory and computation.
[40] T. Morawietz,et al. How van der Waals interactions determine the unique properties of water , 2016, Proceedings of the National Academy of Sciences.
[41] Francesco Paesani,et al. Molecular Origin of the Vibrational Structure of Ice Ih. , 2017, The journal of physical chemistry letters.
[42] B. Alder,et al. Studies in Molecular Dynamics. II. Behavior of a Small Number of Elastic Spheres , 1960 .
[43] Gábor Csányi,et al. Comparing molecules and solids across structural and alchemical space. , 2015, Physical chemistry chemical physics : PCCP.
[44] Wei Zhang,et al. An accurate and simple quantum model for liquid water. , 2006, The Journal of chemical physics.
[45] Frederick R. Manby,et al. Machine-learning approach for one- and two-body corrections to density functional theory: Applications to molecular and condensed water , 2013 .
[46] Michele Parrinello,et al. Generalized neural-network representation of high-dimensional potential-energy surfaces. , 2007, Physical review letters.
[47] John E Herr,et al. The many-body expansion combined with neural networks. , 2016, The Journal of chemical physics.
[48] H. Berendsen,et al. Interaction Models for Water in Relation to Protein Hydration , 1981 .
[49] T. Cheatham,et al. Determination of Alkali and Halide Monovalent Ion Parameters for Use in Explicitly Solvated Biomolecular Simulations , 2008, The journal of physical chemistry. B.
[50] D. Wales,et al. Structure and torsional dynamics of the water octamer from THz laser spectroscopy near 215 μm , 2016, Science.
[51] W. L. Jorgensen,et al. Comparison of simple potential functions for simulating liquid water , 1983 .
[52] F. Stillinger,et al. Molecular Dynamics Study of Liquid Water , 1971 .
[53] O. Matsuoka,et al. CI study of the water dimer potential surface , 1976 .
[54] T. Straatsma,et al. THE MISSING TERM IN EFFECTIVE PAIR POTENTIALS , 1987 .
[55] K. Kitaura,et al. A new form for intermolecular potential energy functions , 1987 .
[56] Alexander P. Lyubartsev,et al. Determination of effective pair potentials from ab initio simulations: application to liquid water , 2000 .
[57] B. Montgomery Pettitt,et al. Simple intramolecular model potentials for water , 1987 .
[58] J. Behler. First Principles Neural Network Potentials for Reactive Simulations of Large Molecular and Condensed Systems. , 2017, Angewandte Chemie.
[59] Krzysztof Szalewicz,et al. Predictions of the Properties of Water from First Principles , 2007, Science.
[60] Aditya Kamath,et al. Neural networks vs Gaussian process regression for representing potential energy surfaces: A comparative study of fit quality and vibrational spectrum accuracy. , 2018, The Journal of chemical physics.
[61] F. Paesani,et al. A refined MS-EVB model for proton transport in aqueous environments. , 2012, The journal of physical chemistry. B.
[62] Andreas W Götz,et al. On the accuracy of the MB-pol many-body potential for water: Interaction energies, vibrational frequencies, and classical thermodynamic and dynamical properties from clusters to liquid water and ice. , 2016, The Journal of chemical physics.
[63] Josh E. Campbell,et al. Machine learning for the structure–energy–property landscapes of molecular crystals† †Electronic supplementary information (ESI) available. See DOI: 10.1039/c7sc04665k , 2017, Chemical science.
[64] I. Shvab,et al. Atomistic water models: Aqueous thermodynamic properties from ambient to supercritical conditions , 2016 .
[65] Pengyu Y. Ren,et al. Systematic improvement of a classical molecular model of water. , 2013, The journal of physical chemistry. B.
[66] Michael W. Mahoney,et al. A five-site model for liquid water and the reproduction of the density anomaly by rigid, nonpolarizable potential functions , 2000 .
[67] Carlos Vega,et al. Simulating water with rigid non-polarizable models: a general perspective. , 2011, Physical chemistry chemical physics : PCCP.
[68] Jörg Behler,et al. Constructing high‐dimensional neural network potentials: A tutorial review , 2015 .
[69] Sotiris S Xantheas,et al. Development of transferable interaction potentials for water. V. Extension of the flexible, polarizable, Thole-type model potential (TTM3-F, v. 3.0) to describe the vibrational spectra of water clusters and liquid water. , 2008, The Journal of chemical physics.
[70] Wojciech Cencek,et al. Interaction energies of large clusters from many-body expansion. , 2011, The Journal of chemical physics.
[71] J. A. Barker,et al. Structure of water; A Monte Carlo calculation , 1969 .
[72] Zhen Xie,et al. Permutationally Invariant Polynomial Basis for Molecular Energy Surface Fitting via Monomial Symmetrization. , 2010, Journal of chemical theory and computation.
[73] Brooks H. Pate,et al. Concerted hydrogen-bond breaking by quantum tunneling in the water hexamer prism , 2016, Science.
[74] Francesco Paesani,et al. Infrared and Raman Spectroscopy of Liquid Water through "First-Principles" Many-Body Molecular Dynamics. , 2015, Journal of chemical theory and computation.
[75] Sotiris S. Xantheas,et al. Development of transferable interaction models for water. IV. A flexible, all-atom polarizable potential (TTM2-F) based on geometry dependent charges derived from an ab initio monomer dipole moment surface , 2002 .
[76] Andreas W Götz,et al. On the representation of many-body interactions in water. , 2015, The Journal of chemical physics.
[77] Gábor Csányi,et al. Gaussian approximation potentials: A brief tutorial introduction , 2015, 1502.01366.
[78] P. Ball. Water as an active constituent in cell biology. , 2008, Chemical reviews.
[79] Christopher Knight,et al. Many-Body Interactions in Ice. , 2017, Journal of chemical theory and computation.
[80] Greg L. Hura,et al. Development of an improved four-site water model for biomolecular simulations: TIP4P-Ew. , 2004, The Journal of chemical physics.
[81] J. Behler. Atom-centered symmetry functions for constructing high-dimensional neural network potentials. , 2011, The Journal of chemical physics.
[82] DAVID M. FERGUSON,et al. Parameterization and evaluation of a flexible water model , 1995, J. Comput. Chem..
[83] Michele Parrinello,et al. Demonstrating the Transferability and the Descriptive Power of Sketch-Map. , 2013, Journal of chemical theory and computation.
[84] Hans-Joachim Werner,et al. Systematically convergent basis sets for explicitly correlated wavefunctions: the atoms H, He, B-Ne, and Al-Ar. , 2008, The Journal of chemical physics.
[85] Daniel J. Rosenkrantz,et al. An Analysis of Several Heuristics for the Traveling Salesman Problem , 1977, SIAM J. Comput..
[86] R. Kondor,et al. Gaussian approximation potentials: the accuracy of quantum mechanics, without the electrons. , 2009, Physical review letters.
[87] Henry S. Frank,et al. Ion-solvent interaction. Structural aspects of ion-solvent interaction in aqueous solutions: a suggested picture of water structure , 1957 .