Molecular force fields with gradient-domain machine learning: Construction and application to dynamics of small molecules with coupled cluster forces.
暂无分享,去创建一个
Klaus-Robert Müller | Alexandre Tkatchenko | Igor Poltavsky | Stefan Chmiela | Huziel E Sauceda | K. Müller | A. Tkatchenko | Stefan Chmiela | H. E. Sauceda | I. Poltavsky
[1] G. Solomon,et al. Interatomic inelastic current , 2017 .
[2] R. Sarpong,et al. Bio-inspired synthesis of xishacorenes A, B, and C, and a new congener from fuscol† †Electronic supplementary information (ESI) available. See DOI: 10.1039/c9sc02572c , 2019, Chemical science.
[3] K. Müller,et al. Machine Learning Predictions of Molecular Properties: Accurate Many-Body Potentials and Nonlocality in Chemical Space , 2015, The journal of physical chemistry letters.
[4] Aldo Glielmo,et al. Efficient nonparametric n -body force fields from machine learning , 2018, 1801.04823.
[5] E. Kryachko,et al. On the intramolecular origin of the blue shift of A-H stretching frequencies: triatomic hydrides HAX. , 2009, The journal of physical chemistry. A.
[6] T. Oroguchi,et al. Influences of lone-pair electrons on directionality of hydrogen bonds formed by hydrophilic amino acid side chains in molecular dynamics simulation , 2017, Scientific Reports.
[7] Britta Redlich,et al. Structures of Neutral Au7, Au19, and Au20 Clusters in the Gas Phase , 2008, Science.
[8] Peter Sollich,et al. Accurate interatomic force fields via machine learning with covariant kernels , 2016, 1611.03877.
[9] Klaus-Robert Müller,et al. Many-Body Descriptors for Predicting Molecular Properties with Machine Learning: Analysis of Pairwise and Three-Body Interactions in Molecules. , 2018, Journal of chemical theory and computation.
[10] A. Tkatchenko,et al. Accurate molecular van der Waals interactions from ground-state electron density and free-atom reference data. , 2009, Physical review letters.
[11] I. Majerz,et al. Peculiarities of quasi-aromatic hydrogen bonding , 2012 .
[12] Klaus-Robert Müller,et al. Assessment and Validation of Machine Learning Methods for Predicting Molecular Atomization Energies. , 2013, Journal of chemical theory and computation.
[13] Atsuto Seko,et al. Exploring a potential energy surface by machine learning for characterizing atomic transport , 2017, 1710.03468.
[14] J. Behler,et al. Construction of high-dimensional neural network potentials using environment-dependent atom pairs. , 2012, The Journal of chemical physics.
[15] Zhenwei Li,et al. Molecular dynamics with on-the-fly machine learning of quantum-mechanical forces. , 2015, Physical review letters.
[16] Gábor Csányi,et al. Gaussian approximation potentials: A brief tutorial introduction , 2015, 1502.01366.
[17] Yaliang Li,et al. SCI , 2021, Proceedings of the 30th ACM International Conference on Information & Knowledge Management.
[18] J. Tersoff,et al. New empirical approach for the structure and energy of covalent systems. , 1988, Physical review. B, Condensed matter.
[19] J. Behler,et al. Representing molecule-surface interactions with symmetry-adapted neural networks. , 2007, The Journal of chemical physics.
[20] Michele Parrinello,et al. Generalized neural-network representation of high-dimensional potential-energy surfaces. , 2007, Physical review letters.
[21] Lai‐Sheng Wang,et al. Probing the structures of neutral boron clusters using infrared/vacuum ultraviolet two color ionization: B11, B16, and B17. , 2012, The Journal of chemical physics.
[22] J. Pablo.,et al. Dinámica del volteo de bloques en taludes rocosos , 2020 .
[23] Alexandre Tkatchenko,et al. Quantum-chemical insights from deep tensor neural networks , 2016, Nature Communications.
[24] Li Li,et al. Bypassing the Kohn-Sham equations with machine learning , 2016, Nature Communications.
[25] Kipton Barros,et al. Learning molecular energies using localized graph kernels. , 2016, The Journal of chemical physics.
[26] Aneesur Rahman,et al. Correlations in the Motion of Atoms in Liquid Argon , 1964 .
[27] Djork-Arné Clevert,et al. Learning continuous and data-driven molecular descriptors by translating equivalent chemical representations , 2018, Chemical science.
[28] 野村栄一,et al. 2 , 1900, The Hatak Witches.
[29] Klaus-Robert Müller,et al. Machine learning of accurate energy-conserving molecular force fields , 2016, Science Advances.
[30] M. Schmitt,et al. Franck Condon spectra of the 2-tolunitrile dimer and the binary 2-tolunitrile water cluster in the gas phase , 2017 .
[31] K. Müller,et al. Towards exact molecular dynamics simulations with machine-learned force fields , 2018, Nature Communications.
[32] E Weinan,et al. Deep Potential Molecular Dynamics: a scalable model with the accuracy of quantum mechanics , 2017, Physical review letters.
[33] Alexandre Tkatchenko,et al. Non-covalent interactions across organic and biological subsets of chemical space: Physics-based potentials parametrized from machine learning. , 2017, The Journal of chemical physics.
[34] Rampi Ramprasad,et al. A universal strategy for the creation of machine learning-based atomistic force fields , 2017, npj Computational Materials.
[35] W. L. Jorgensen,et al. Comparison of simple potential functions for simulating liquid water , 1983 .
[36] J. Behler. Perspective: Machine learning potentials for atomistic simulations. , 2016, The Journal of chemical physics.
[37] Trevor Hastie,et al. The Elements of Statistical Learning , 2001 .
[38] Anders S. Christensen,et al. Alchemical and structural distribution based representation for universal quantum machine learning. , 2017, The Journal of chemical physics.
[39] Peter A. Kollman,et al. AMBER: Assisted model building with energy refinement. A general program for modeling molecules and their interactions , 1981 .
[40] R. Raines,et al. The n→π* Interaction , 2017, Accounts of chemical research.
[41] M. Rupp,et al. Machine learning of molecular electronic properties in chemical compound space , 2013, 1305.7074.
[42] Stéphane Mallat,et al. Solid Harmonic Wavelet Scattering for Predictions of Molecule Properties , 2018, The Journal of chemical physics.
[43] J. López,et al. Rotational Characterization of an n → π* Interaction in a Pyridine-Formaldehyde Adduct. , 2018, The journal of physical chemistry letters.
[44] J. Behler. Atom-centered symmetry functions for constructing high-dimensional neural network potentials. , 2011, The Journal of chemical physics.
[45] John E Herr,et al. The many-body expansion combined with neural networks. , 2016, The Journal of chemical physics.
[46] Hao Wu,et al. VAMPnets for deep learning of molecular kinetics , 2017, Nature Communications.
[47] R. Sankararamakrishnan,et al. Unconventional N-H…N Hydrogen Bonds Involving Proline Backbone Nitrogen in Protein Structures. , 2016, Biophysical journal.
[48] 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 .
[49] Andrea Grisafi,et al. Symmetry-Adapted Machine Learning for Tensorial Properties of Atomistic Systems. , 2017, Physical review letters.
[50] Vladimir Naumovich Vapni. The Nature of Statistical Learning Theory , 1995 .
[51] Burke,et al. Generalized Gradient Approximation Made Simple. , 1996, Physical review letters.
[52] S. Scheiner. Special Issue: Intramolecular Hydrogen Bonding 2017 , 2017, Molecules.
[53] Noam Bernstein,et al. Machine learning unifies the modeling of materials and molecules , 2017, Science Advances.
[54] K-R Müller,et al. SchNetPack: A Deep Learning Toolbox For Atomistic Systems. , 2018, Journal of chemical theory and computation.
[55] David W Toth,et al. The TensorMol-0.1 model chemistry: a neural network augmented with long-range physics , 2017, Chemical science.
[56] Antonio-José Almeida,et al. NAT , 2019, Springer Reference Medizin.
[57] Hao Wu,et al. Boltzmann generators: Sampling equilibrium states of many-body systems with deep learning , 2018, Science.
[58] R. Kondor,et al. On representing chemical environments , 2012, 1209.3140.
[59] Alexander V. Shapeev,et al. Active learning of linearly parametrized interatomic potentials , 2016, 1611.09346.
[60] Rampi Ramprasad,et al. Learning scheme to predict atomic forces and accelerate materials simulations , 2015, 1505.02701.
[61] J. Behler. Neural network potential-energy surfaces in chemistry: a tool for large-scale simulations. , 2011, Physical chemistry chemical physics : PCCP.
[62] J. Yi,et al. Electronic spectra of 2- and 3-tolunitrile in the gas phase. I. A study of methyl group internal rotation via rovibronically resolved spectroscopy. , 2016, The Journal of chemical physics.
[63] Gerbrand Ceder,et al. Efficient and accurate machine-learning interpolation of atomic energies in compositions with many species , 2017, 1706.06293.
[64] Sason Shaik,et al. A Unified Theory for the Blue- and Red-Shifting Phenomena in Hydrogen and Halogen Bonds. , 2017, Journal of chemical theory and computation.
[65] R. Kondor,et al. Gaussian approximation potentials: the accuracy of quantum mechanics, without the electrons. , 2009, Physical review letters.
[66] Derui Liu,et al. ACC , 2020, Catalysis from A to Z.
[67] Isaac Tamblyn,et al. Convolutional neural networks for atomistic systems , 2017, Computational Materials Science.
[68] George E. Dahl,et al. Prediction Errors of Molecular Machine Learning Models Lower than Hybrid DFT Error. , 2017, Journal of chemical theory and computation.
[69] Justin S. Smith,et al. Hierarchical modeling of molecular energies using a deep neural network. , 2017, The Journal of chemical physics.
[70] R. Raines,et al. An n→π* interaction in aspirin: implications for structure and reactivity. , 2011, The Journal of organic chemistry.
[71] Matthias Rupp,et al. Big Data Meets Quantum Chemistry Approximations: The Δ-Machine Learning Approach. , 2015, Journal of chemical theory and computation.
[72] P. Hobza. N-H· · ·F improper blue-shifting H-bond† , 2002 .
[73] M. Rupp,et al. Machine Learning for Quantum Mechanical Properties of Atoms in Molecules , 2015, 1505.00350.
[74] K. L. Reid,et al. Probing the origins of vibrational mode specificity in intramolecular dynamics through picosecond time-resolved photoelectron imaging studies. , 2017, Physical chemistry chemical physics : PCCP.
[75] Michael Gastegger,et al. Machine learning molecular dynamics for the simulation of infrared spectra† †Electronic supplementary information (ESI) available. See DOI: 10.1039/c7sc02267k , 2017, Chemical science.
[76] M. Karplus,et al. CHARMM: A program for macromolecular energy, minimization, and dynamics calculations , 1983 .
[77] George E. Karniadakis,et al. An Atomistic Fingerprint Algorithm for Learning Ab Initio Molecular Force Fields , 2018, The Journal of chemical physics.
[78] Chem. , 2020, Catalysis from A to Z.
[79] Gábor Csányi,et al. Comparing molecules and solids across structural and alchemical space. , 2015, Physical chemistry chemical physics : PCCP.
[80] Roman M. Balabin. The identification of the two missing conformers of gas-phase alanine: a jet-cooled Raman spectroscopy study. , 2010, Physical chemistry chemical physics : PCCP.
[81] B. Kuhn,et al. Intramolecular hydrogen bonding in medicinal chemistry. , 2010, Journal of medicinal chemistry.
[82] P. Alam. ‘O’ , 2021, Composites Engineering: An A–Z Guide.
[83] Bertrand Guillot,et al. A reappraisal of what we have learnt during three decades of computer simulations on water , 2002 .
[84] K. Müller,et al. Fast and accurate modeling of molecular atomization energies with machine learning. , 2011, Physical review letters.
[85] Walter Thiel,et al. Structure-based sampling and self-correcting machine learning for accurate calculations of potential energy surfaces and vibrational levels. , 2017, The Journal of chemical physics.
[86] Matthew L. Leininger,et al. Psi4: an open‐source ab initio electronic structure program , 2012 .
[87] Eric R. Ziegel,et al. The Elements of Statistical Learning , 2003, Technometrics.
[88] Risi Kondor,et al. Predicting molecular properties with covariant compositional networks. , 2018, The Journal of chemical physics.
[89] K-R Müller,et al. SchNet - A deep learning architecture for molecules and materials. , 2017, The Journal of chemical physics.
[90] J S Smith,et al. ANI-1: an extensible neural network potential with DFT accuracy at force field computational cost , 2016, Chemical science.
[91] P. Alam. ‘A’ , 2021, Composites Engineering: An A–Z Guide.
[92] S. Mahapatra,et al. On the Jahn–Teller effect in the X∼2E electronic ground state of CH3F+ , 2017 .
[93] Chris Oostenbrink,et al. An improved nucleic acid parameter set for the GROMOS force field , 2005, J. Comput. Chem..
[94] Arieh Warshel,et al. Modeling electrostatic effects in proteins. , 2006, Biochimica et biophysica acta.
[95] F. Stillinger,et al. Molecular Dynamics Study of Liquid Water , 1971 .
[96] Xiao Wang,et al. Psi4 1.1: An Open-Source Electronic Structure Program Emphasizing Automation, Advanced Libraries, and Interoperability. , 2017, Journal of chemical theory and computation.
[97] Matthias Scheffler,et al. Ab initio molecular simulations with numeric atom-centered orbitals , 2009, Comput. Phys. Commun..
[98] P. Alam. ‘S’ , 2021, Composites Engineering: An A–Z Guide.
[99] Daniel G A Smith,et al. Psi4NumPy: An Interactive Quantum Chemistry Programming Environment for Reference Implementations and Rapid Development. , 2018, Journal of chemical theory and computation.
[100] L. Verlet. Computer "Experiments" on Classical Fluids. I. Thermodynamical Properties of Lennard-Jones Molecules , 1967 .
[101] M. Baskes,et al. Embedded-atom method: Derivation and application to impurities, surfaces, and other defects in metals , 1984 .
[102] O. Anatole von Lilienfeld,et al. The "DNA" of chemistry: Scalable quantum machine learning with "amons" , 2017, 1707.04146.