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Derbali E, Ajili Y, Mehnen B, Żuchowski PS, Kędziera D, Al-Mogren MM, Jaidane NE, Hochlaf M. Towards the generation of potential energy surfaces of weakly bound medium-sized molecular systems: the case of benzonitrile-He complex. Phys Chem Chem Phys 2023; 25:30198-30210. [PMID: 37807943 DOI: 10.1039/d3cp02720a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/10/2023]
Abstract
Currently, the explicitly correlated coupled cluster method is used routinely to generate the multi-dimensional potential energy surfaces (mD-PESs) of van der Waals complexes of small molecular systems relevant for atmospheric, astrophysical and industrial applications. Although very accurate, this method is computationally prohibitive for medium and large molecules containing clusters. For instance, the recent detections of complex organic molecules (COMs) in the interstellar medium, such as benzonitrile, revealed the need to establish an accurate enough electronic structure approach to map the mD-PESs of these species interacting with the surrounding gases. As a benchmark, we have treated the case of the polar molecule benzonitrile interacting with helium, where we use post-Hartree-Fock and symmetry-adapted perturbation theory (SAPT) techniques. Accordingly, we show that MP2 and distinguishable-cluster approximation (DCSD) cannot be used for this purpose, whereas accurate enough PESs may be obtained using the corresponding explicitly correlated versions (MP2-F12 or DCSD-F12) with a reduction in computational costs. Alternatively, computations revealed that SAPT(DFT) is as performant as CCSD(T)-F12/aug-cc-pVTZ, making it the method of choice for mapping the mD-PESs of COMs containing clusters. Therefore, we have used this approach to generate the 3D-PES of the benzonitrile-He complex along the intermonomer Jacobi coordinates. As an application, we have incorporated the analytic form of this PES into quantum dynamical computations to determine the cross sections of the rotational (de-)excitation of benzonitrile colliding with helium at a collision energy of 10 cm-1.
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Affiliation(s)
- Eya Derbali
- Laboratoire de Spectroscopie Atomique, Moléculaire et Applications LSAMA, Université de Tunis Al Manar, Tunis, Tunisia.
| | - Yosra Ajili
- Laboratoire de Spectroscopie Atomique, Moléculaire et Applications LSAMA, Université de Tunis Al Manar, Tunis, Tunisia.
| | - Bilel Mehnen
- Institute of Physics, Faculty of Physics, Astronomy and Informatics, Nicolaus Copernicus University in Toruń, Grudziadz Street 5, 87-100 Toruń, Poland
| | - Piotr S Żuchowski
- Institute of Physics, Faculty of Physics, Astronomy and Informatics, Nicolaus Copernicus University in Toruń, Grudziadz Street 5, 87-100 Toruń, Poland
| | - Dariusz Kędziera
- Faculty of Chemistry, Nicolaus Copernicus University in Toruń, ul. Gagarina 7, PL 87-100 Toruń, Poland.
| | - Muneerah Mogren Al-Mogren
- Department of Chemistry, College of Sciences, King Saud University, PO Box 2455, Riyadh 11451, Saudi Arabia
| | - Nejm-Edine Jaidane
- Laboratoire de Spectroscopie Atomique, Moléculaire et Applications LSAMA, Université de Tunis Al Manar, Tunis, Tunisia.
| | - Majdi Hochlaf
- Université Gustave Eiffel, COSYS/IMSE, 5 Bd Descartes 77454, Champs sur Marne, France.
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Schmitz G, Klinting EL, Christiansen O. A Gaussian process regression adaptive density guided approach for potential energy surface construction. J Chem Phys 2020; 153:064105. [DOI: 10.1063/5.0015344] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- Gunnar Schmitz
- Department of Chemistry, Aarhus Universitet, DK-8000 Aarhus, Denmark
| | | | - Ove Christiansen
- Department of Chemistry, Aarhus Universitet, DK-8000 Aarhus, Denmark
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3
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Tschöpe M, Feldmaier M, Main J, Hernandez R. Neural network approach for the dynamics on the normally hyperbolic invariant manifold of periodically driven systems. Phys Rev E 2020; 101:022219. [PMID: 32168686 DOI: 10.1103/physreve.101.022219] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2019] [Accepted: 01/29/2020] [Indexed: 05/21/2023]
Abstract
Chemical reactions in multidimensional systems are often described by a rank-1 saddle, whose stable and unstable manifolds intersect in the normally hyperbolic invariant manifold (NHIM). Trajectories started on the NHIM in principle never leave this manifold when propagated forward or backward in time. However, the numerical investigation of the dynamics on the NHIM is difficult because of the instability of the motion. We apply a neural network to describe time-dependent NHIMs and use this network to stabilize the motion on the NHIM for a periodically driven model system with two degrees of freedom. The method allows us to analyze the dynamics on the NHIM via Poincaré surfaces of section (PSOS) and to determine the transition-state (TS) trajectory as a periodic orbit with the same periodicity as the driving saddle, viz. a fixed point of the PSOS surrounded by near-integrable tori. Based on transition state theory and a Floquet analysis of a periodic TS trajectory we compute the rate constant of the reaction with significantly reduced numerical effort compared to the propagation of a large trajectory ensemble.
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Affiliation(s)
- Martin Tschöpe
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Matthias Feldmaier
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Jörg Main
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Rigoberto Hernandez
- Department of Chemistry, Johns Hopkins University, Baltimore, Maryland 21218, USA
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Schmitz G, Godtliebsen IH, Christiansen O. Machine learning for potential energy surfaces: An extensive database and assessment of methods. J Chem Phys 2019; 150:244113. [DOI: 10.1063/1.5100141] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022] Open
Affiliation(s)
- Gunnar Schmitz
- Department of Chemistry, Aarhus Universitet, DK-8000 Aarhus, Denmark
| | | | - Ove Christiansen
- Department of Chemistry, Aarhus Universitet, DK-8000 Aarhus, Denmark
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5
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Wójcik P, Korona T, Tomza M. Interactions of benzene, naphthalene, and azulene with alkali-metal and alkaline-earth-metal atoms for ultracold studies. J Chem Phys 2019; 150:234106. [PMID: 31228913 DOI: 10.1063/1.5094907] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We consider collisional properties of polyatomic aromatic hydrocarbon molecules immersed into ultracold atomic gases and investigate intermolecular interactions of exemplary benzene, naphthalene, and azulene with alkali-metal (Li, Na, K, Rb, and Cs) and alkaline-earth-metal (Mg, Ca, Sr, and Ba) atoms. We apply the state-of-the-art ab initio techniques to compute the potential energy surfaces (PESs). We use the coupled cluster method restricted to single, double, and noniterative triple excitations to reproduce the correlation energy and the small-core energy-consistent pseudopotentials to model the scalar relativistic effects in heavier metal atoms. We also report the leading long-range isotropic and anisotropic dispersion and induction interaction coefficients. The PESs are characterized in detail, and the nature of intermolecular interactions is analyzed and benchmarked using symmetry-adapted perturbation theory. The full three-dimensional PESs are provided for the selected systems within the atom-bond pairwise additive representation and can be employed in scattering calculations. The present study of the electronic structure is the first step toward the evaluation of prospects for sympathetic cooling of polyatomic aromatic molecules with ultracold atoms. We suggest azulene, an isomer of naphthalene which possesses a significant permanent electric dipole moment and optical transitions in the visible range, as a promising candidate for electric field manipulation and buffer-gas or sympathetic cooling.
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Affiliation(s)
- Paweł Wójcik
- Faculty of Physics, University of Warsaw, Pasteura 5, 02-093 Warsaw, Poland
| | - Tatiana Korona
- Faculty of Chemistry, University of Warsaw, Pasteura 1, 02-093 Warsaw, Poland
| | - Michał Tomza
- Faculty of Physics, University of Warsaw, Pasteura 5, 02-093 Warsaw, Poland
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6
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Schmitz G, Artiukhin DG, Christiansen O. Approximate high mode coupling potentials using Gaussian process regression and adaptive density guided sampling. J Chem Phys 2019; 150:131102. [DOI: 10.1063/1.5092228] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Gunnar Schmitz
- Department of Chemistry, Aarhus Universitet, DK-8000 Aarhus, Denmark
| | | | - Ove Christiansen
- Department of Chemistry, Aarhus Universitet, DK-8000 Aarhus, Denmark
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7
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Feldmaier M, Schraft P, Bardakcioglu R, Reiff J, Lober M, Tschöpe M, Junginger A, Main J, Bartsch T, Hernandez R. Invariant Manifolds and Rate Constants in Driven Chemical Reactions. J Phys Chem B 2019; 123:2070-2086. [DOI: 10.1021/acs.jpcb.8b10541] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Matthias Feldmaier
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Philippe Schraft
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Robin Bardakcioglu
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Johannes Reiff
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Melissa Lober
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Martin Tschöpe
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Andrej Junginger
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Jörg Main
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Thomas Bartsch
- Centre for Nonlinear Mathematics and Applications, Department of Mathematical Sciences, Loughborough University, Loughborough LE11 3TU, United Kingdom
| | - Rigoberto Hernandez
- Department of Chemistry, Johns Hopkins University, Baltimore, Maryland 21218, United States
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8
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Wiens AE, Copan AV, Schaefer HF. Multi-fidelity Gaussian process modeling for chemical energy surfaces. Chem Phys Lett 2019. [DOI: 10.1016/j.cpletx.2019.100022] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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9
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Schmitz G, Christiansen O. Gaussian process regression to accelerate geometry optimizations relying on numerical differentiation. J Chem Phys 2018; 148:241704. [DOI: 10.1063/1.5009347] [Citation(s) in RCA: 39] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Gunnar Schmitz
- Department of Chemistry, Aarhus Universitet, DK-8000 Aarhus, Denmark
| | - Ove Christiansen
- Department of Chemistry, Aarhus Universitet, DK-8000 Aarhus, Denmark
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10
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Kamath A, Vargas-Hernández RA, Krems RV, Carrington T, Manzhos S. Neural networks vs Gaussian process regression for representing potential energy surfaces: A comparative study of fit quality and vibrational spectrum accuracy. J Chem Phys 2018; 148:241702. [DOI: 10.1063/1.5003074] [Citation(s) in RCA: 108] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Aditya Kamath
- Department of Mechanical Engineering, National University of Singapore, Block EA, #07-08, 9 Engineering Drive 1, Singapore 117576
| | | | - Roman V. Krems
- Department of Chemistry, University of British Columbia, Vancouver, British Columbia V6T 1Z1, Canada
| | - Tucker Carrington
- Department of Chemistry, Queen’s University, Chernoff Hall, 90 Bader Lane, Kingston, Ontario K7L 3N6, Canada
| | - Sergei Manzhos
- Department of Mechanical Engineering, National University of Singapore, Block EA, #07-08, 9 Engineering Drive 1, Singapore 117576
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11
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Schraft P, Junginger A, Feldmaier M, Bardakcioglu R, Main J, Wunner G, Hernandez R. Neural network approach to time-dependent dividing surfaces in classical reaction dynamics. Phys Rev E 2018; 97:042309. [PMID: 29758767 DOI: 10.1103/physreve.97.042309] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2017] [Indexed: 05/21/2023]
Abstract
In a dynamical system, the transition between reactants and products is typically mediated by an energy barrier whose properties determine the corresponding pathways and rates. The latter is the flux through a dividing surface (DS) between the two corresponding regions, and it is exact only if it is free of recrossings. For time-independent barriers, the DS can be attached to the top of the corresponding saddle point of the potential energy surface, and in time-dependent systems, the DS is a moving object. The precise determination of these direct reaction rates, e.g., using transition state theory, requires the actual construction of a DS for a given saddle geometry, which is in general a demanding methodical and computational task, especially in high-dimensional systems. In this paper, we demonstrate how such time-dependent, global, and recrossing-free DSs can be constructed using neural networks. In our approach, the neural network uses the bath coordinates and time as input, and it is trained in a way that its output provides the position of the DS along the reaction coordinate. An advantage of this procedure is that, once the neural network is trained, the complete information about the dynamical phase space separation is stored in the network's parameters, and a precise distinction between reactants and products can be made for all possible system configurations, all times, and with little computational effort. We demonstrate this general method for two- and three-dimensional systems and explain its straightforward extension to even more degrees of freedom.
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Affiliation(s)
- Philippe Schraft
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Andrej Junginger
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Matthias Feldmaier
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Robin Bardakcioglu
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Jörg Main
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
| | - Günter Wunner
- Institut für Theoretische Physik 1, Universität Stuttgart, 70550 Stuttgart, Germany
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12
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Kim MU, Byeon SH. Use and limitations of offsite consequence analysis tools from South Korea and the United States in hydrogen fluoride accidental release. INTEGRATED ENVIRONMENTAL ASSESSMENT AND MANAGEMENT 2018; 14:205-211. [PMID: 29240307 DOI: 10.1002/ieam.2019] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/20/2017] [Revised: 10/26/2017] [Accepted: 12/07/2017] [Indexed: 06/07/2023]
Abstract
We investigated the characteristics and limitations in the event of hydrofluoric acid (HF) leakage by comparing and analyzing the offsite consequence analysis (OCA) tools based on the chemical plant operating conditions. We reviewed the tools Korea Offsite Risk Assessment (KORA) from South Korea and Risk Management Plan*Comp (RMP*Comp™) and Areal Location of Hazardous Atmospheres (ALOHA) from the United States. The scenario studied was based on a leak event from a 50% HF aqueous solution storage tank, and the operating conditions taken into consideration were the operating temperature and dike installation conditions. The results from the OCA differed; KORA presented a smaller range of offsite impact than did ALOHA. The offsite impact ranges of KORA and ALOHA increased as the operating temperature and dike installation area increased. However, RMP*Comp differed greatly in its offsite impact range results in the operating temperature range of 25 °C to 30 °C. Moreover, in the alternative scenario, a limitation existed in that the offsite impact range was not changed by the dike installation conditions. The offsite impact range analyzed via KORA and ALOHA reflected the reality of an HF leak accident better than that analyzed via RMP*Comp. Therefore, it is more reasonable to use KORA and ALOHA instead of RMP*Comp in OCA. Moreover, users should realize that ALOHA has a somewhat wider range of offsite impact than KORA does in OCA. The separation distance from the storage tank when installing a dike is effective between 1 and 1.5 m in consideration of securing the minimum workspace for workers. Integr Environ Assess Manag 2018;14:205-211. © 2017 SETAC.
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Affiliation(s)
- Min-Uk Kim
- Department of Health Science, Korea University, Seoul, Republic of Korea
| | - Sang-Hoon Byeon
- Department of Health Science, Korea University, Seoul, Republic of Korea
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13
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Kolb B, Marshall P, Zhao B, Jiang B, Guo H. Representing Global Reactive Potential Energy Surfaces Using Gaussian Processes. J Phys Chem A 2017; 121:2552-2557. [DOI: 10.1021/acs.jpca.7b01182] [Citation(s) in RCA: 52] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Brian Kolb
- Department
of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States
- Department
of Mechanical Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Paul Marshall
- Department
of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States
| | - Bin Zhao
- Department
of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States
| | - Bin Jiang
- Department
of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Hua Guo
- Department
of Chemistry and Chemical Biology, University of New Mexico, Albuquerque, New Mexico 87131, United States
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14
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Rate Constants for Fine-structure Excitations in O–H Collisions with Error Bars Obtained by Machine Learning. ACTA ACUST UNITED AC 2017. [DOI: 10.3847/1538-4357/835/2/255] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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15
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Balakrishnan N. Perspective: Ultracold molecules and the dawn of cold controlled chemistry. J Chem Phys 2016; 145:150901. [DOI: 10.1063/1.4964096] [Citation(s) in RCA: 157] [Impact Index Per Article: 19.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- N. Balakrishnan
- Department of Chemistry, University of Nevada, Las Vegas, Nevada 89154, USA
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