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Müller M, Hagg A, Strickstrock R, Hülsmann M, Asteroth A, Kirschner KN, Reith D. Determining Lennard-Jones Parameters Using Multiscale Target Data through Presampling-Enhanced, Surrogate-Assisted Global Optimization. J Chem Inf Model 2023; 63:1872-1881. [PMID: 36942658 DOI: 10.1021/acs.jcim.2c01231] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/23/2023]
Abstract
Force field-based models are a Newtonian mechanics approximation of reality and are inherently noisy. Coupling models from different molecular scale domains (including single, gas-phase molecules up to multimolecule, condensed phase ensembles) is difficult, which is also the case for finding solutions that transfer well between the scales. In this contribution, we introduce a surrogate-assisted algorithm to optimize Lennard-Jones parameters for target data from different scale domains to overcome the difficulties named above. Specifically, our approach combines a surrogate-assisted global evolutionary optimization method with a presampling phase that takes advantage of one scale domain being less computationally expensive to evaluate. The algorithm's components were evaluated individually, elucidating their individual merits. Our findings show that the process of parametrizing force fields can significantly benefit from both the presampling method, which alleviates the need to have a good initial guess for the parameters, and the surrogate model, which improves efficiency.
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Affiliation(s)
- Max Müller
- Department of Computer Science, Bonn-Rhein-Sieg University of Applied Sciences, 53757 Sankt Augustin, Germany
| | - Alexander Hagg
- Department of Electrical Engineering, Mechanical Engineering and Technical Journalism, Bonn-Rhein-Sieg University of Applied Sciences, 53757 Sankt Augustin, Germany
| | - Robin Strickstrock
- Department of Electrical Engineering, Mechanical Engineering and Technical Journalism, Bonn-Rhein-Sieg University of Applied Sciences, 53757 Sankt Augustin, Germany
| | - Marco Hülsmann
- Department of Computer Science, Bonn-Rhein-Sieg University of Applied Sciences, 53757 Sankt Augustin, Germany
| | - Alexander Asteroth
- Department of Computer Science, Bonn-Rhein-Sieg University of Applied Sciences, 53757 Sankt Augustin, Germany
| | - Karl N Kirschner
- Department of Computer Science, Bonn-Rhein-Sieg University of Applied Sciences, 53757 Sankt Augustin, Germany
| | - Dirk Reith
- Department of Electrical Engineering, Mechanical Engineering and Technical Journalism, Bonn-Rhein-Sieg University of Applied Sciences, 53757 Sankt Augustin, Germany
- Fraunhofer Institute for Algorithms and Scientific Computing (SCAI), Schloss Birlinghoven, 53757 Sankt Augustin, Germany
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2
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Sharapa DI, Genaev A, Cavallo L, Minenkov Y. A Robust and Cost‐Efficient Scheme for Accurate Conformational Energies of Organic Molecules. Chemphyschem 2018; 20:92-102. [DOI: 10.1002/cphc.201801063] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2018] [Indexed: 11/09/2022]
Affiliation(s)
- Dmitry I. Sharapa
- Institute of Catalysis Research and TechnologyKarlsruhe Institute of Technology (KIT) Hermann-von-Helmholtz Platz 1 Eggenstein-Leopoldshafen D-76344 Germany
| | - Alexander Genaev
- Vorozhtsov Novosibirsk Institute of Organic Chemistry Academician Lavrent'ev Ave., 9 Novosibirsk 630090 Russian Federation
| | - Luigi Cavallo
- KAUST Catalysis Center (KCC)King Abdullah University of Science and Technology Thuwal- 23955-6900 Saudi Arabia
| | - Yury Minenkov
- Moscow Institute of Physics and Technology Institutskiy Pereulok 9, Dolgoprudny Moscow Region 141700 Russia
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3
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Zhang Y, Li Y, Zhang X, Xiao S, Tang J. Insights on decomposition process of c-C 4F 8 and c-C 4F 8/N 2 mixture as substitutes for SF 6. ROYAL SOCIETY OPEN SCIENCE 2018; 5:181104. [PMID: 30473854 PMCID: PMC6227993 DOI: 10.1098/rsos.181104] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/10/2018] [Accepted: 09/03/2018] [Indexed: 05/17/2023]
Abstract
In recent years, many scholars have carried out studies on c-C4F8 and its gas mixture and found it has potential to be used as an environment-friendly insulating medium to replace SF6 in medium-voltage equipment. In this paper, the c-C4F8 and c-C4F8/N2 gas mixture models were built to study its decomposition process by the combination of reactive molecular dynamics method and density functional theory. The yield of the main decomposition products, the reaction pathways and enthalpy under different temperatures were explored. It was found that the decomposition of c-C4F8/N2 mainly produces CF2, F, CF3, CF, C, CF4 and C2F4. c-C4F8 can decompose to C2F4 by absorbing 43.28 kcal/mol, which is the main decomposition path and this process easily occurs under high temperature. There is a dynamic equilibrium process among the various produced radicals, which ensures the insulation performance of system to a certain extent. The decomposition performance of c-C4F8/N2 mixture is better than that of pure c-C4F8 at the same temperature. Relevant results provide guidance for engineering application of the c-C4F8/N2 gas mixture.
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Affiliation(s)
- Ying Zhang
- Scientific Research Institute of Electric Power, Guizhou Power Grid Company Ltd, Guiyang 550002, People's Republic of China
- School of Electrical Engineering, Wuhan University, Wuhan 430072, People's Republic of China
| | - Yi Li
- School of Electrical Engineering, Wuhan University, Wuhan 430072, People's Republic of China
| | - Xiaoxing Zhang
- School of Electrical Engineering, Wuhan University, Wuhan 430072, People's Republic of China
| | - Song Xiao
- School of Electrical Engineering, Wuhan University, Wuhan 430072, People's Republic of China
| | - Ju Tang
- School of Electrical Engineering, Wuhan University, Wuhan 430072, People's Republic of China
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Tóbiás R, Császár AG, Gyevi-Nagy L, Tasi G. Definitive thermochemistry and kinetics of the interconversions among conformers of n-butane and n-pentane. J Comput Chem 2018; 39:424-437. [PMID: 29239472 DOI: 10.1002/jcc.25130] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2017] [Revised: 10/27/2017] [Accepted: 10/31/2017] [Indexed: 11/09/2022]
Abstract
The focal-point analysis (FPA) technique is used for the definitive characterization of conformational interconversion parameters, including activation energy barriers, activation free energies, and kinetic rate coefficients at 298 K, of two n-alkanes, n-butane, and n-pentane, yielding the first complete analysis of their interconversion kinetics. The FPA implementation developed in this study is based on geometry optimizations and harmonic frequency computations carried out with density functional theory methods and single-point energy computations up to the CCSD(T) level of electronic structure theory using atom-centered Gaussian basis sets as large as cc-pV5Z. The anharmonic vibrational computations are carried out, at the MP2/6-31G* level of theory. Reflecting the convergence behavior of the Gibbs free-energy terms and the interconversion parameters, well-defined uncertainties, mostly neglected in previous theoretical studies, are provided. Finally, the effect of these uncertainties on the concentrations of the conformers of n-butane and n-pentane is examined via a global Monte-Carlo uncertainty analysis. © 2017 Wiley Periodicals, Inc.
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Affiliation(s)
- Roland Tóbiás
- MTA-ELTE Complex Chemical Systems Research Group, H-1518 Budapest 112, P.O. Box 32, Hungary
| | - Attila G Császár
- MTA-ELTE Complex Chemical Systems Research Group, H-1518 Budapest 112, P.O. Box 32, Hungary.,Laboratory of Molecular Structure and Dynamics, Institute of Chemistry, Eötvös Loránd University, H-1117 Budapest, Pázmány Péter sétány 1/A, Hungary
| | - László Gyevi-Nagy
- Department of Physical Chemistry and Materials Science, University of Szeged, H-6720 Szeged, Rerrich B. tér 1, Hungary
| | - Gyula Tasi
- Department of Applied and Environmental Chemistry, University of Szeged, H-6720 Szeged, Rerrich B. tér 1, Hungary
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Kirschner KN, Heiden W, Reith D. Small Alcohols Revisited: CCSD(T) Relative Potential Energies for the Minima, First- and Second-Order Saddle Points, and Torsion-Coupled Surfaces. ACS OMEGA 2018; 3:419-432. [PMID: 31457902 PMCID: PMC6641652 DOI: 10.1021/acsomega.7b01367] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/14/2017] [Accepted: 11/22/2017] [Indexed: 06/10/2023]
Abstract
The elucidation of conformations and relative potential energies (rPEs) of small molecules has a long history across a diverse range of fields. Periodically, it is helpful to revisit what conformations have been investigated and to provide a consistent theoretical framework for which clear comparisons can be made. In this paper, we compute the minima, first- and second-order saddle points, and torsion-coupled surfaces for methanol, ethanol, propan-2-ol, and propanol using consistent high-level MP2 and CCSD(T) methods. While for certain molecules more rigorous methods were employed, the CCSD(T)/aug-cc-pVTZ//MP2/aug-cc-pV5Z theory level was used throughout to provide relative energies of all minima and first-order saddle points. The rPE surfaces were uniformly computed at the CCSD(T)/aug-cc-pVTZ//MP2/aug-cc-pVTZ level. To the best of our knowledge, this represents the most extensive study for alcohols of this kind, revealing some new aspects. Especially for propanol, we report several new conformations that were previously not investigated. Moreover, two metrics are included in our analysis that quantify how the selected surfaces are similar to one another and hence improve our understanding of the relationship between these alcohols.
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Affiliation(s)
- Karl N. Kirschner
- Department
of Computer Science, Department of Electrical Engineering, Mechanical
Engineering and Technical Journalism, and Institute of Visual Computing, Bonn-Rhein-Sieg University of Applied Sciences, Grantham-Allee 20, 53757 Sankt Augustin, Germany
| | - Wolfgang Heiden
- Department
of Computer Science, Department of Electrical Engineering, Mechanical
Engineering and Technical Journalism, and Institute of Visual Computing, Bonn-Rhein-Sieg University of Applied Sciences, Grantham-Allee 20, 53757 Sankt Augustin, Germany
| | - Dirk Reith
- Department
of Computer Science, Department of Electrical Engineering, Mechanical
Engineering and Technical Journalism, and Institute of Visual Computing, Bonn-Rhein-Sieg University of Applied Sciences, Grantham-Allee 20, 53757 Sankt Augustin, Germany
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