1
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Hsiao HW, Narendra N, Kubis T. Long range piezoelectricity effects in van der Waals heterobilayer systems beyond 1000 atoms. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2024; 36:265901. [PMID: 38518366 DOI: 10.1088/1361-648x/ad3708] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/12/2024] [Accepted: 03/22/2024] [Indexed: 03/24/2024]
Abstract
Twist angle is a relevant design and control component for the piezoelectric coefficients of van der Waals (vdW) heterostructures. This theoretical work assesses in high detail the impact of the twist angle on the piezoelectricity of two-dimensional (2D) heterobilayer systems. We expand the density-functional based tight-binding method to predict the piezoelectric coefficients of twisted and corrugated 2D heterobilayer structures with more than 1000 atoms. We showcase the method on hexagonal III-V/transition metal dichalcogenide vdW heterosystems. Our calculations yield a periodic relationship between the in-plane piezoelectric coefficients and the corresponding twist angles, indicating the tunability of the in-plane piezoelectricity. In contrast, the out-of-plane piezoelectricity is not twist angle dependent, but nonlinearly changes with the average interlayer distance.
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Affiliation(s)
- Han-Wei Hsiao
- Elmore Family School of Electrical and Computer Engineering, Purdue University, West Lafayette, IN 47907, United States of America
| | - Namita Narendra
- Elmore Family School of Electrical and Computer Engineering, Purdue University, West Lafayette, IN 47907, United States of America
| | - Tillmann Kubis
- Elmore Family School of Electrical and Computer Engineering, Purdue University, West Lafayette, IN 47907, United States of America
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2
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Vuong VQ, Aradi B, Niklasson AMN, Cui Q, Irle S. Multipole Expansion of Atomic Electron Density Fluctuation Interactions in the Density-Functional Tight-Binding Method. J Chem Theory Comput 2023; 19:7592-7605. [PMID: 37890454 PMCID: PMC10821749 DOI: 10.1021/acs.jctc.3c00778] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/29/2023]
Abstract
The accuracy of the density-functional tight-binding (DFTB) method in describing noncovalent interactions is limited due to its reliance on monopole-based spherical charge densities. In this study, we present a multipole-extended second-order DFTB (mDFTB2) method that takes into account atomic dipole and quadrupole interactions. Furthermore, we combine the multipole expansion with the monopole-based third-order contribution, resulting in the mDFTB3 method. To assess the accuracy of mDFTB2 and mDFTB3, we evaluate their performance in describing noncovalent interactions, proton transfer barriers, and dipole moments. Our benchmark results show promising improvements even when using the existing electronic parameters optimized for the original DFTB3 model. Both mDFTB2 and mDFTB3 outperform their monopole-based counterparts, DFTB2 and DFTB3, in terms of accuracy. While mDFTB2 and mDFTB3 perform comparably for neutral and positively charged systems, mDFTB3 exhibits superior performance over mDFTB2 when dealing with negatively charged systems and proton transfers. Overall, the incorporation of the multipole expansion significantly enhances the accuracy of the DFTB method in describing noncovalent interactions and proton transfers.
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Affiliation(s)
- Van-Quan Vuong
- Department of Chemistry, Boston University, Boston, Massachusetts 02215, United States
- Bredesen Center for Interdisciplinary Research and Graduate Education, University of Tennessee, Knoxville, Tennessee 37996, United States
| | - Bálint Aradi
- Bremen Center for Computational Materials Science, Universität Bremen, Bremen 28359, Germany
| | - Anders M N Niklasson
- Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - Qiang Cui
- Department of Chemistry, Boston University, Boston, Massachusetts 02215, United States
- Department of Physics, Boston University, Boston, Massachusetts 02215, United States
- Department of Biomedical Engineering, Boston University, Boston, Massachusetts 02215, United States
| | - Stephan Irle
- Computational Sciences & Engineering Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, United States
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3
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Vuong VQ, Lee KH, Savara AA, Fung V, Irle S. Toward Quantum Chemical Free Energy Simulations of Platinum Nanoparticles on Titania Support. J Chem Theory Comput 2023; 19:6471-6483. [PMID: 37647252 DOI: 10.1021/acs.jctc.3c00661] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/01/2023]
Abstract
Platinum nanoparticles (Pt-NPs) supported on titania surfaces are costly but indispensable heterogeneous catalysts because of their highly effective and selective catalytic properties. Therefore, it is vital to understand their physicochemical processes during catalysis to optimize their use and to further develop better catalysts. However, simulating these dynamic processes is challenging due to the need for a reliable quantum chemical method to describe chemical bond breaking and bond formation during the processes but, at the same time, fast enough to sample a large number of configurations required to compute the corresponding free energy surfaces. Density functional theory (DFT) is often used to explore Pt-NPs; nonetheless, it is usually limited to some minimum-energy reaction pathways on static potential energy surfaces because of its high computational cost. We report here a combination of the density functional tight binding (DFTB) method as a fast but reliable approximation to DFT, the steered molecular dynamics (SMD) technique, and the Jarzynski equality to construct free energy surfaces of the temperature-dependent diffusion and growth of platinum particles on a titania surface. In particular, we present the parametrization for Pt-X (X = Pt, Ti, or O) interactions in the framework of the second-order DFTB method, using a previous parametrization for titania as a basis. The optimized parameter set was used to simulate the surface diffusion of a single platinum atom (Pt1) and the growth of Pt6 from Pt5 and Pt1 on the rutile (110) surface at three different temperatures (T = 400, 600, 800 K). The free energy profile was constructed by using over a hundred SMD trajectories for each process. We found that increasing the temperature has a minimal effect on the formation free energy; nevertheless, it significantly reduces the free energy barrier of Pt atom migration on the TiO2 surface and the transition state (TS) of its deposition. In a concluding remark, the methodology opens the pathway to quantum chemical free energy simulations of Pt-NPs' temperature-dependent growth and other transformation processes on the titania support.
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Affiliation(s)
- Van-Quan Vuong
- Bredesen Center for Interdisciplinary Research and Graduate Education, University of Tennessee, Knoxville, Tennessee 37996, United States
| | - Ka Hung Lee
- Bredesen Center for Interdisciplinary Research and Graduate Education, University of Tennessee, Knoxville, Tennessee 37996, United States
| | - Aditya A Savara
- Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, United States
| | - Victor Fung
- Center for Nanophase Materials Sciences, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, United States
| | - Stephan Irle
- Bredesen Center for Interdisciplinary Research and Graduate Education, University of Tennessee, Knoxville, Tennessee 37996, United States
- Computational Sciences & Engineering Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831, United States
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4
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Budiutama G, Li R, Manzhos S, Ihara M. Hybrid Density Functional Tight Binding (DFTB)─Molecular Mechanics Approach for a Low-Cost Expansion of DFTB Applicability. J Chem Theory Comput 2023. [PMID: 37450317 DOI: 10.1021/acs.jctc.3c00310] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/18/2023]
Abstract
The density functional-based tight binding (DFTB) method has seen a rise in adoption for materials modeling, as it offers significant improvement in scalability with accuracy comparable to the density functional theory (DFT) when good parameterizations exist. The cost reduction in DFTB compared to DFT is achieved by the pre-parameterization of the elements of the Hamiltonian matrix as well as the repulsion potential between all pairs of atoms. Parameterization for new systems with accuracies competitive with DFT in specific applications requires specialized manpower and computational resources. This prevents the application of the DFTB method to systems for which it was not parameterized. In this work, we explore an approach to address the problem of missing parameters of DFTB by modeling the interactions with missing Slater-Koster parameters with an interatomic interaction potential. When the distance between two atoms modeled at the force-field level is sufficiently large, the approach results in accurate structural and electronic properties. The resulting calculation is therefore a hybrid between DFTB and molecular mechanics, a pure DFTB for atoms with a complete set of interatomic parameterizations, and a mix between DFTB and molecular mechanics for atoms with a missing interatomic parameterization. The approach is expected to be particularly useful for hybrid materials and interfaces. The method is tested on the examples of 2D materials, mixed oxides, and a large-scale calculation of an oxide-oxide interface.
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Affiliation(s)
- Gekko Budiutama
- School of Materials and Chemical Technology, Tokyo Institute of Technology, Ookayama 2-12-1, Meguro-ku, Tokyo 152-8552 Japan
| | - Ruicheng Li
- School of Materials and Chemical Technology, Tokyo Institute of Technology, Ookayama 2-12-1, Meguro-ku, Tokyo 152-8552 Japan
| | - Sergei Manzhos
- School of Materials and Chemical Technology, Tokyo Institute of Technology, Ookayama 2-12-1, Meguro-ku, Tokyo 152-8552 Japan
| | - Manabu Ihara
- School of Materials and Chemical Technology, Tokyo Institute of Technology, Ookayama 2-12-1, Meguro-ku, Tokyo 152-8552 Japan
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5
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Goldman N, Fried LE, Lindsey RK, Pham CH, Dettori R. Enhancing the accuracy of density functional tight binding models through ChIMES many-body interaction potentials. J Chem Phys 2023; 158:144112. [PMID: 37061479 DOI: 10.1063/5.0141616] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/17/2023] Open
Abstract
Semi-empirical quantum models such as Density Functional Tight Binding (DFTB) are attractive methods for obtaining quantum simulation data at longer time and length scales than possible with standard approaches. However, application of these models can require lengthy effort due to the lack of a systematic approach for their development. In this work, we discuss the use of the Chebyshev Interaction Model for Efficient Simulation (ChIMES) to create rapidly parameterized DFTB models, which exhibit strong transferability due to the inclusion of many-body interactions that might otherwise be inaccurate. We apply our modeling approach to silicon polymorphs and review previous work on titanium hydride. We also review the creation of a general purpose DFTB/ChIMES model for organic molecules and compounds that approaches hybrid functional and coupled cluster accuracy with two orders of magnitude fewer parameters than similar neural network approaches. In all cases, DFTB/ChIMES yields similar accuracy to the underlying quantum method with orders of magnitude improvement in computational cost. Our developments provide a way to create computationally efficient and highly accurate simulations over varying extreme thermodynamic conditions, where physical and chemical properties can be difficult to interrogate directly, and there is historically a significant reliance on theoretical approaches for interpretation and validation of experimental results.
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Affiliation(s)
- Nir Goldman
- Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, California 94550, USA
| | - Laurence E Fried
- Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, California 94550, USA
| | - Rebecca K Lindsey
- Department of Chemical Engineering, University of Michigan, Ann Arbor, Michigan 48109, USA
| | - C Huy Pham
- Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, California 94550, USA
| | - R Dettori
- Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, California 94550, USA
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6
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Bai J, Liu X, Guo W, Lei T, Teng B, Xiang H, Wen X. An Efficient Way to Model Complex Iron Carbides: A Benchmark Study of DFTB2 against DFT. J Phys Chem A 2023; 127:2071-2080. [PMID: 36849363 DOI: 10.1021/acs.jpca.2c06805] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/01/2023]
Abstract
Iron carbides have attracted increasing attention in recent years due to their enormous potential in catalytic fields, such as Fischer-Tropsch synthesis and the growth of carbon nanotubes. Theoretical calculations can provide a more thorough understanding of these reactions at the atomic scale. However, due to the extreme complexity of the active phases and surface structures of iron carbides at the operando conditions, calculations based on density functional theory (DFT) are too costly for realistically large models of iron carbide particles. Therefore, a cheap and efficient quantum mechanical simulation method with accuracy comparable to DFT is desired. In this work, we adopt the spin-polarized self-consistent charge density functional tight-binding (DFTB2) method for iron carbides by reparametrization of the repulsive part of the Fe-C interactions. To assess the performance of the improved parameters, the structural and electronic properties of iron carbide bulks and clusters obtained with DFTB2 method are compared with the previous experimental values and the results obtained with DFT approach. Calculated lattice parameters and density of states are close to DFT predictions. The benchmark results show that the proposed parametrization of Fe-C interactions provides transferable and balanced description of iron carbide systems. Therefore, spin-polarized DFTB2 is valued as an efficient and reliable method for the description of iron carbide systems.
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Affiliation(s)
- Jiawei Bai
- State Key Laboratory of Coal Conversion, Institute of Coal Chemistry, Chinese Academy of Sciences, Taiyuan 030001, China.,University of Chinese Academy of Sciences, Beijing 100049, China.,National Energy Center for Coal to Liquids, Synfuels China Co., Ltd., Beijing 101400, China
| | - Xingchen Liu
- State Key Laboratory of Coal Conversion, Institute of Coal Chemistry, Chinese Academy of Sciences, Taiyuan 030001, China.,University of Chinese Academy of Sciences, Beijing 100049, China
| | - Wenping Guo
- National Energy Center for Coal to Liquids, Synfuels China Co., Ltd., Beijing 101400, China
| | - Tingyu Lei
- State Key Laboratory of Coal Conversion, Institute of Coal Chemistry, Chinese Academy of Sciences, Taiyuan 030001, China.,University of Chinese Academy of Sciences, Beijing 100049, China
| | - Botao Teng
- Tianjin Key Laboratory of Brine Chemical Engineering and Resource Eco-utilization, College of Chemical Engineering and Materials Science, Tianjin University of Science and Technology, Tianjin 300457, PR China
| | - Hongwei Xiang
- State Key Laboratory of Coal Conversion, Institute of Coal Chemistry, Chinese Academy of Sciences, Taiyuan 030001, China.,University of Chinese Academy of Sciences, Beijing 100049, China.,National Energy Center for Coal to Liquids, Synfuels China Co., Ltd., Beijing 101400, China
| | - Xiaodong Wen
- State Key Laboratory of Coal Conversion, Institute of Coal Chemistry, Chinese Academy of Sciences, Taiyuan 030001, China.,University of Chinese Academy of Sciences, Beijing 100049, China.,National Energy Center for Coal to Liquids, Synfuels China Co., Ltd., Beijing 101400, China
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7
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Nakai H, Kobayashi M, Yoshikawa T, Seino J, Ikabata Y, Nishimura Y. Divide-and-Conquer Linear-Scaling Quantum Chemical Computations. J Phys Chem A 2023; 127:589-618. [PMID: 36630608 DOI: 10.1021/acs.jpca.2c06965] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
Fragmentation and embedding schemes are of great importance when applying quantum-chemical calculations to more complex and attractive targets. The divide-and-conquer (DC)-based quantum-chemical model is a fragmentation scheme that can be connected to embedding schemes. This feature article explains several DC-based schemes developed by the authors over the last two decades, which was inspired by the pioneering study of DC self-consistent field (SCF) method by Yang and Lee (J. Chem. Phys. 1995, 103, 5674-5678). First, the theoretical aspects of the DC-based SCF, electron correlation, excited-state, and nuclear orbital methods are described, followed by the two-component relativistic theory, quantum-mechanical molecular dynamics simulation, and the introduction of three programs, including DC-based schemes. Illustrative applications confirmed the accuracy and feasibility of the DC-based schemes.
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Affiliation(s)
- Hiromi Nakai
- Department of Chemistry and Biochemistry, School of Advanced Science and Engineering, Waseda University, 3-4-1 Okubo, Shinjuku, Tokyo169-8555, Japan.,Waseda Research Institute for Science and Engineering, Waseda University, 3-4-1 Okubo, Shinjuku, Tokyo169-8555, Japan
| | - Masato Kobayashi
- Department of Chemistry, Faculty of Science, Hokkaido University, Kita 10 Nishi 8, Kita-ku, Sapporo, Hokkaido060-0810, Japan.,Institute for Chemical Reaction Design and Discovery (WPI-ICReDD), Hokkaido University, Kita 21 Nishi 10, Kita-ku, Sapporo, Hokkaido001-0021, Japan
| | - Takeshi Yoshikawa
- Faculty of Pharmaceutical Sciences, Toho University, 2-2-1 Miyama, Funabashi, Chiba274-8510, Japan
| | - Junji Seino
- Department of Chemistry and Biochemistry, School of Advanced Science and Engineering, Waseda University, 3-4-1 Okubo, Shinjuku, Tokyo169-8555, Japan.,Waseda Research Institute for Science and Engineering, Waseda University, 3-4-1 Okubo, Shinjuku, Tokyo169-8555, Japan
| | - Yasuhiro Ikabata
- Information and Media Center, Toyohashi University of Technology, 1-1 Hibarigaoka, Tempaku-cho, Toyohashi, Aichi441-8580, Japan.,Department of Computer Science and Engineering, Toyohashi University of Technology, 1-1 Hibarigaoka, Tempaku-cho, Toyohashi, Aichi441-8580, Japan
| | - Yoshifumi Nishimura
- Waseda Research Institute for Science and Engineering, Waseda University, 3-4-1 Okubo, Shinjuku, Tokyo169-8555, Japan
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8
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Pham CH, Lindsey RK, Fried LE, Goldman N. High-Accuracy Semiempirical Quantum Models Based on a Minimal Training Set. J Phys Chem Lett 2022; 13:2934-2942. [PMID: 35343698 DOI: 10.1021/acs.jpclett.2c00453] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
A great need exists for computationally efficient quantum simulation approaches that can achieve an accuracy similar to high-level theories at a fraction of the computational cost. In this regard, we have leveraged a machine-learned interaction potential based on Chebyshev polynomials to improve density functional tight binding (DFTB) models for organic materials. The benefit of our approach is two-fold: (1) many-body interactions can be corrected for in a systematic and rapidly tunable process, and (2) high-level quantum accuracy for a broad range of compounds can be achieved with ∼0.3% of data required for one advanced deep learning potential. Our model exhibits both transferability and extensibility through comparison to quantum chemical results for organic clusters, solid carbon phases, and molecular crystal phase stability rankings. Our efforts thus allow for high-throughput physical and chemical predictions with up to coupled-cluster accuracy for systems that are computationally intractable with standard approaches.
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Affiliation(s)
- Cong Huy Pham
- Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, California 94550, United States
| | - Rebecca K Lindsey
- Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, California 94550, United States
| | - Laurence E Fried
- Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, California 94550, United States
| | - Nir Goldman
- Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, California 94550, United States
- Department of Chemical Engineering, University of California, Davis, California 95616, United States
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9
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Nurhuda M, Perry CC, Addicoat MA. Performance of GFN1-xTB for periodic optimization of Metal Organic Frameworks. Phys Chem Chem Phys 2022; 24:10906-10914. [DOI: 10.1039/d2cp00184e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Tight-binding approaches bridge the gap between force field methods and Density Functional Theory (DFT). Density Functional Tight Binding (DFTB) has been employed for a wide range of systems containing up...
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10
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Anniés S, Panosetti C, Voronenko M, Mauth D, Rahe C, Scheurer C. Accessing Structural, Electronic, Transport and Mesoscale Properties of Li-GICs via a Complete DFTB Model with Machine-Learned Repulsion Potential. MATERIALS 2021; 14:ma14216633. [PMID: 34772156 PMCID: PMC8585443 DOI: 10.3390/ma14216633] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/30/2021] [Revised: 10/22/2021] [Accepted: 10/27/2021] [Indexed: 12/03/2022]
Abstract
Lithium-graphite intercalation compounds (Li-GICs) are the most popular anode material for modern lithium-ion batteries and have been subject to numerous studies—both experimental and theoretical. However, the system is still far from being consistently understood in detail across the full range of state of charge (SOC). The performance of approaches based on density functional theory (DFT) varies greatly depending on the choice of functional, and their computational cost is far too high for the large supercells necessary to study dilute and non-equilibrium configurations which are of paramount importance for understanding a complete charging cycle. On the other hand, cheap machine learning methods have made some progress in predicting, e.g., formation energetics, but fail to provide the full picture, including electrostatics and migration barriers. Following up on our previous work, we deliver on the promise of providing a complete and affordable simulation framework for Li-GICs. It is based on density functional tight binding (DFTB), which is fitted to dispersion-corrected DFT data using Gaussian process regression (GPR). In this work, we added the previously neglected lithium–lithium repulsion potential and extend the training set to include superdense Li-GICs (LiC6−x; x>0) and lithium metal, allowing for the investigation of dendrite formation, next-generation modified GIC anodes, and non-equilibrium states during fast charging processes in the future. For an extended range of structural and energetic properties—layer spacing, bond lengths, formation energies and migration barriers—our method compares favorably with experimental results and with state-of-the-art dispersion-corrected DFT at a fraction of the computational cost. We make use of this by investigating some larger-scale system properties—long range Li–Li interactions, dielectric constants and domain-formation—proving our method’s capability to bring to light new insights into the Li-GIC system and bridge the gap between DFT and meso-scale methods such as cluster expansions and kinetic Monte Carlo simulations.
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Affiliation(s)
- Simon Anniés
- Department of Chemistry, Technische Universität München, Lichtenbergstr. 4, 85748 Garching, Germany; (S.A.); (M.V.); (D.M.)
| | - Chiara Panosetti
- Department of Chemistry, Technische Universität München, Lichtenbergstr. 4, 85748 Garching, Germany; (S.A.); (M.V.); (D.M.)
- Fritz Haber Institute of the Max Planck Society, Faradayweg 4-6, 14195 Berlin, Germany;
- Correspondence:
| | - Maria Voronenko
- Department of Chemistry, Technische Universität München, Lichtenbergstr. 4, 85748 Garching, Germany; (S.A.); (M.V.); (D.M.)
| | - Dario Mauth
- Department of Chemistry, Technische Universität München, Lichtenbergstr. 4, 85748 Garching, Germany; (S.A.); (M.V.); (D.M.)
| | - Christiane Rahe
- ISEA, RWTH Aachen University, Jägerstraße 17-19, 52066 Aachen, Germany;
| | - Christoph Scheurer
- Fritz Haber Institute of the Max Planck Society, Faradayweg 4-6, 14195 Berlin, Germany;
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11
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Hutama AS, Marlina LA, Chou CP, Irle S, Hofer TS. Development of Density-Functional Tight-Binding Parameters for the Molecular Dynamics Simulation of Zirconia, Yttria, and Yttria-Stabilized Zirconia. ACS OMEGA 2021; 6:20530-20548. [PMID: 34395999 PMCID: PMC8359130 DOI: 10.1021/acsomega.1c02411] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/17/2021] [Accepted: 07/15/2021] [Indexed: 06/13/2023]
Abstract
In this work, a set of density-functional tight-binding (DFTB) parameters for the Zr-Zr, Zr-O, Y-Y, Y-O, and Zr-Y interactions was developed for bulk and surface simulations of ZrO2 (zirconia), Y2O3 (yttria), and yttria-stabilized zirconia (YSZ) materials. The parameterization lays the ground work for realistic simulations of zirconia-, yttria-, and YSZ-based electrolytes in solid oxide fuel cells and YSZ-based catalysts on long timescales and relevant size scales. The parameterization was validated for the zirconia and yttria polymorphs observed under standard conditions based on density functional theory calculations and experimental data. Additionally, we performed DFTB-based molecular dynamics (MD) simulations to compute structural and vibrational properties of these materials. The results show that the parameters can give a qualitatively correct phase ordering of zirconia, where the tetragonal phase is more stable than the cubic phase at a lower temperature. The lattice parameters are only slightly overestimated by 0.05-0.1 Å (2% error), still within the typical accuracy of first-principles methods. Additionally, the MD results confirm that zirconia and yttria phases are stable against transformations under standard conditions. The parameterization also predicts that vibrational spectra are within the range of 100-1000 cm-1 for zirconia and 100-800 cm-1 for yttria, which is in good agreement with predictions both from full quantum mechanics and a recently developed classical force field. To further demonstrate the advantage of the developed DFTB parameters in terms of computational resources, we conducted DFTB/MD simulations of the YSZ4 and YS12 models containing approximately 750 atoms.
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Affiliation(s)
- Aulia Sukma Hutama
- Department
of Chemistry, Faculty of Mathematics and Natural Sciences, Universitas Gadjah Mada, Yogyakarta 55281, Indonesia
| | - Lala Adetia Marlina
- Department
of Chemistry, Faculty of Mathematics and Natural Sciences, Universitas Gadjah Mada, Yogyakarta 55281, Indonesia
| | - Chien-Pin Chou
- Department
of Applied Chemistry, National Chiao Tung
University, Hsinchu 30010, Taiwan
| | - Stephan Irle
- Computational
Sciences and Engineering Division & Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37830, United States
| | - Thomas S. Hofer
- Theoretical
Chemistry Division, Institute of General, Inorganic and Theoretical
Chemistry, Center for Chemistry and Biomedicine, University of Innsbruck, Innsbruck A-6020, Austria
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12
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Westermayr J, Gastegger M, Schütt KT, Maurer RJ. Perspective on integrating machine learning into computational chemistry and materials science. J Chem Phys 2021; 154:230903. [PMID: 34241249 DOI: 10.1063/5.0047760] [Citation(s) in RCA: 65] [Impact Index Per Article: 21.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023] Open
Abstract
Machine learning (ML) methods are being used in almost every conceivable area of electronic structure theory and molecular simulation. In particular, ML has become firmly established in the construction of high-dimensional interatomic potentials. Not a day goes by without another proof of principle being published on how ML methods can represent and predict quantum mechanical properties-be they observable, such as molecular polarizabilities, or not, such as atomic charges. As ML is becoming pervasive in electronic structure theory and molecular simulation, we provide an overview of how atomistic computational modeling is being transformed by the incorporation of ML approaches. From the perspective of the practitioner in the field, we assess how common workflows to predict structure, dynamics, and spectroscopy are affected by ML. Finally, we discuss how a tighter and lasting integration of ML methods with computational chemistry and materials science can be achieved and what it will mean for research practice, software development, and postgraduate training.
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Affiliation(s)
- Julia Westermayr
- Department of Chemistry, University of Warwick, Gibbet Hill Road, Coventry CV4 7AL, United Kingdom
| | - Michael Gastegger
- Machine Learning Group, Technische Universität Berlin, 10587 Berlin, Germany
| | - Kristof T Schütt
- Machine Learning Group, Technische Universität Berlin, 10587 Berlin, Germany
| | - Reinhard J Maurer
- Department of Chemistry, University of Warwick, Gibbet Hill Road, Coventry CV4 7AL, United Kingdom
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13
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Hutama AS, Chou CP, Nishimura Y, Witek HA, Irle S. Density-Functional Tight-Binding Parameters for Bulk Zirconium: A Case Study for Repulsive Potentials. J Phys Chem A 2021; 125:2184-2196. [PMID: 33645988 DOI: 10.1021/acs.jpca.0c11178] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Density-functional tight-binding (DFTB) parameters are presented for the simulation of the bulk phases of zirconium. Electronic parameters were obtained using a band structure fitting strategy, while two-center repulsive potentials were created by particle swarm optimization. As objective functions for the repulsive potential fitting, we employed the Birch-Murnaghan equations of state for hexagonal close-packed (HCP), body-centered cubic (BCC) and ω phases of Zr from density-functional theory (DFT). When fractional atomic coordinates are not allowed to change in the generation of the equation-of-state curves, long-range repulsive DFTB potentials are able to almost perfectly reproduce equilibrium structures, relative DFT energies of the bulk phases, and bulk moduli. However, the same potentials lead to artifacts in the DFTB potential energy surfaces when atom positions in the unit cell are allowed to fully relax during the change of unit cell parameters. Conventional short-range repulsive DFTB potentials, while inferior in their ability to reproduce DFT bulk energetics, are able to correctly reproduce the qualitative shape of the DFT potential energy surfaces, including the location of global minima, and can therefore be considered more transferable.
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Affiliation(s)
- Aulia Sukma Hutama
- Department of Chemistry, Nagoya University, Nagoya 464-8601, Japan.,Department of Chemistry, Faculty of Mathematics and Natural Sciences, Universitas Gadjah Mada, Yogyakarta 55281, Indonesia
| | - Chien-Pin Chou
- Department of Applied Chemistry, National Chiao Tung University, Hsinchu 30010, Taiwan
| | - Yoshifumi Nishimura
- Waseda Research Institute for Science and Engineering, Waseda University, Tokyo 169-8555, Japan
| | - Henryk A Witek
- Department of Applied Chemistry, National Chiao Tung University, Hsinchu 30010, Taiwan.,Institute of Molecular Science, National Chiao Tung University, Hsinchu 30010, Taiwan.,Center for Emergent Functional Matter Science, National Chiao Tung University, Hsinchu 30010, Taiwan
| | - Stephan Irle
- Computational Sciences and Engineering Division & Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37830, United States
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14
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Ammothum Kandy AK, Wadbro E, Aradi B, Broqvist P, Kullgren J. Curvature Constrained Splines for DFTB Repulsive Potential Parametrization. J Chem Theory Comput 2021; 17:1771-1781. [PMID: 33606527 PMCID: PMC8023658 DOI: 10.1021/acs.jctc.0c01156] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
![]()
The Curvature Constrained
Splines (CCS) methodology has been used
for fitting repulsive potentials to be used in SCC-DFTB calculations.
The benefit of using CCS is that the actual fitting of the repulsive
potential is performed through quadratic programming on a convex objective
function. This guarantees a unique (for strictly convex) and optimum
two-body repulsive potential in a single shot, thereby making the
parametrization process robust, and with minimal human effort. Furthermore,
the constraints in CCS give the user control to tune the shape of
the repulsive potential based on prior knowledge about the system
in question. Herein, we developed the method further with new constraints
and the capability to handle sparse data. We used the method to generate
accurate repulsive potentials for bulk Si polymorphs and demonstrate
that for a given Slater-Koster table, which reproduces the experimental
band structure for bulk Si in its ground state, we are unable to find
one single two-body repulsive potential that can accurately describe
the various bulk polymorphs of silicon in our training set. We further
demonstrate that to increase transferability, the repulsive potential
needs to be adjusted to account for changes in the chemical environment,
here expressed in the form of a coordination number. By training a
near-sighted Atomistic Neural Network potential, which includes many-body
effects but still essentially within the first-neighbor shell, we
can obtain full transferability for SCC-DFTB in terms of describing
the energetics of different Si polymorphs.
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Affiliation(s)
| | - Eddie Wadbro
- Department of Computing Science, Umeå University, Umeå SE-901 87, Sweden
| | - Bálint Aradi
- Bremen Center for Computational Materials Science, University of Bremen, Am Fallturm 1, 28359 Bremen, Germany
| | - Peter Broqvist
- Department of Chemistry - Ångström Laboratory, Uppsala University, Box 538, 751 21 Uppsala, Sweden
| | - Jolla Kullgren
- Department of Chemistry - Ångström Laboratory, Uppsala University, Box 538, 751 21 Uppsala, Sweden
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15
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Panosetti C, Anniés SB, Grosu C, Seidlmayer S, Scheurer C. DFTB Modeling of Lithium-Intercalated Graphite with Machine-Learned Repulsive Potential. J Phys Chem A 2021; 125:691-699. [PMID: 33426892 DOI: 10.1021/acs.jpca.0c09388] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Lithium ion batteries have been a central part of consumer electronics for decades. More recently, they have also become critical components in the quickly arising technological fields of electric mobility and intermittent renewable energy storage. However, many fundamental principles and mechanisms are not yet understood to a sufficient extent to fully realize the potential of the incorporated materials. The vast majority of concurrent lithium ion batteries make use of graphite anodes. Their working principle is based on intercalation, the embedding and ordering of (lithium-) ions in two-dimensional spaces between the graphene sheets. This important process, it yields the upper bound to a battery's charging speed and plays a decisive role in its longevity, is characterized by multiple phase transitions, ordered and disordered domains, as well as nonequilibrium phenomena, and therefore quite complex. In this work, we provide a simulation framework for the purpose of better understanding lithium-intercalated graphite and its behavior during use in a battery. To address large system sizes and long time scales required to investigate said effects, we identify the highly efficient, but semiempirical density functional tight binding (DFTB) as a suitable approach and combine particle swarm optimization (PSO) with the machine learning (ML) procedure Gaussian process regression (GPR) as implemented in the recently developed GPrep package for DFTB repulsion fitting to obtain the necessary parameters. Using the resulting parametrization, we are able to reproduce experimental reference structures at a level of accuracy which is in no way inferior to much more costly ab initio methods. We finally present structural properties and diffusion barriers for some exemplary system states.
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Affiliation(s)
- Chiara Panosetti
- Department of Chemistry, Technische Universität München, Lichtenbergstr. 4, 85748 Garching b. München, Germany
| | - Simon B Anniés
- Department of Chemistry, Technische Universität München, Lichtenbergstr. 4, 85748 Garching b. München, Germany
| | - Cristina Grosu
- Department of Chemistry, Technische Universität München, Lichtenbergstr. 4, 85748 Garching b. München, Germany.,Institute of Energy and Climate Research (IEK-9), Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Stefan Seidlmayer
- Heinz Maier-Leibnitz Zentrum (MLZ), Technische Universität München, Lichtenbergstr. 1, 85748 Garching b. München, Germany
| | - Christoph Scheurer
- Department of Chemistry, Technische Universität München, Lichtenbergstr. 4, 85748 Garching b. München, Germany
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16
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Vuong VQ, Madridejos JML, Aradi B, Sumpter BG, Metha GF, Irle S. Density-functional tight-binding for phosphine-stabilized nanoscale gold clusters. Chem Sci 2020; 11:13113-13128. [PMID: 34094493 PMCID: PMC8163209 DOI: 10.1039/d0sc04514d] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2020] [Accepted: 10/21/2020] [Indexed: 12/19/2022] Open
Abstract
We report a parameterization of the second-order density-functional tight-binding (DFTB2) method for the quantum chemical simulation of phosphine-ligated nanoscale gold clusters, metalloids, and gold surfaces. Our parameterization extends the previously released DFTB2 "auorg" parameter set by connecting it to the electronic parameter of phosphorus in the "mio" parameter set. Although this connection could technically simply be accomplished by creating only the required additional Au-P repulsive potential, we found that the Au 6p and P 3d virtual atomic orbital energy levels exert a strong influence on the overall performance of the combined parameter set. Our optimized parameters are validated against density functional theory (DFT) geometries, ligand binding and cluster isomerization energies, ligand dissociation potential energy curves, and molecular orbital energies for relevant phosphine-ligated Au n clusters (n = 2-70), as well as selected experimental X-ray structures from the Cambridge Structural Database. In addition, we validate DFTB simulated far-IR spectra for several phosphine- and thiolate-ligated gold clusters against experimental and DFT spectra. The transferability of the parameter set is evaluated using DFT and DFTB potential energy surfaces resulting from the chemisorption of a PH3 molecule on the gold (111) surface. To demonstrate the potential of the DFTB method for quantum chemical simulations of metalloid gold clusters that are challenging for traditional DFT calculations, we report the predicted molecular geometry, electronic structure, ligand binding energy, and IR spectrum of Au108S24(PPh3)16.
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Affiliation(s)
- Van Quan Vuong
- Bredesen Center for Interdisciplinary Research and Graduate Education, University of Tennessee Knoxville TN USA
| | | | - Bálint Aradi
- Bremen Center for Computational Materials Science, University of Bremen Bremen Germany
| | - Bobby G Sumpter
- Center for Nanophase Materials Sciences, Oak Ridge National Laboratory Oak Ridge TN USA
- Computational Sciences and Engineering Division, Oak Ridge National Laboratory Oak Ridge TN USA
| | - Gregory F Metha
- Department of Chemistry, The University of Adelaide South Australia 5005 Australia
| | - Stephan Irle
- Bredesen Center for Interdisciplinary Research and Graduate Education, University of Tennessee Knoxville TN USA
- Computational Sciences and Engineering Division, Oak Ridge National Laboratory Oak Ridge TN USA
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17
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Stöhr M, Medrano Sandonas L, Tkatchenko A. Accurate Many-Body Repulsive Potentials for Density-Functional Tight Binding from Deep Tensor Neural Networks. J Phys Chem Lett 2020; 11:6835-6843. [PMID: 32787209 DOI: 10.1021/acs.jpclett.0c01307] [Citation(s) in RCA: 43] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
We combine density-functional tight binding (DFTB) with deep tensor neural networks (DTNN) to maximize the strengths of both approaches in predicting structural, energetic, and vibrational molecular properties. The DTNN is used to construct a nonlinear model for the localized many-body interatomic repulsive energy, which so far has been treated in an atom-pairwise manner in DFTB. Substantially improving upon standard DFTB and DTNN, the resulting DFTB-NNrep model yields accurate predictions of atomization and isomerization energies, equilibrium geometries, vibrational frequencies, and dihedral rotation profiles for a large variety of organic molecules compared to the hybrid DFT-PBE0 functional. Our results highlight the potential of combining semiempirical electronic-structure methods with physically motivated machine learning approaches for predicting localized many-body interactions. We conclude by discussing future advancements of the DFTB-NNrep approach that could enable chemically accurate electronic-structure calculations for systems with tens of thousands of atoms.
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Affiliation(s)
- Martin Stöhr
- Department of Physics and Materials Science, University of Luxembourg, L-1511 Luxembourg, Luxembourg
| | - Leonardo Medrano Sandonas
- Department of Physics and Materials Science, University of Luxembourg, L-1511 Luxembourg, Luxembourg
| | - Alexandre Tkatchenko
- Department of Physics and Materials Science, University of Luxembourg, L-1511 Luxembourg, Luxembourg
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18
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Uratani H, Nakai H. Simulating the Coupled Structural-Electronic Dynamics of Photoexcited Lead Iodide Perovskites. J Phys Chem Lett 2020; 11:4448-4455. [PMID: 32418430 DOI: 10.1021/acs.jpclett.0c01028] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Motivated by the optoelectronic applications of lead halide perovskites (LHPs), researchers have paid considerable attention to their photoexcited-state dynamics, where the coupling between the electronic and nuclear dynamics is pronounced. Here, we present simulations of the photoexcited-state dynamics of representative lead iodide perovskites, CsPbI3 and MAPbI3 (MA = CH3NH3), by adopting nonadiabatic molecular dynamics combined with the linear-response time-dependent density-functional tight-binding (LR-TD-DFTB) method, an efficient excited-state calculation framework. In the calculations, the electronic wave function and the nuclear coordinates were propagated in a mutually dependent manner. The results suggest that the excited LHPs undergo exciton dissociation, hot carrier cooling, and polaron formation on similar time scales. In particular, the decay of the carrier energy is attributed to not only the relaxation toward the band edge but also the change in orbital energy originating from the structural deformation, highlighting the importance of coupling between the electronic and nuclear degrees of freedom.
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Affiliation(s)
- Hiroki Uratani
- Department of Chemistry and Biochemistry, School of Advanced Science and Engineering, Waseda University, 3-4-1, Okubo, Shinjuku-ku, Tokyo 169-8555, Japan
| | - Hiromi Nakai
- Department of Chemistry and Biochemistry, School of Advanced Science and Engineering, Waseda University, 3-4-1, Okubo, Shinjuku-ku, Tokyo 169-8555, Japan
- Waseda Research Institute for Science and Engineering (WISE), 3-4-1 Okubo, Shinjuku-ku, Tokyo 169-8555, Japan
- Elements Strategy Initiative for Catalysts and Batteries (ESICB), Kyoto University, Katsura, Kyoto 615-8245, Japan
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19
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Manzhos S. Machine learning for the solution of the Schrödinger equation. MACHINE LEARNING-SCIENCE AND TECHNOLOGY 2020. [DOI: 10.1088/2632-2153/ab7d30] [Citation(s) in RCA: 36] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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20
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Sakti A, Chou CP, Nakai H. Density-Functional Tight-Binding Study of Carbonaceous Species Diffusion on the (100)-γ-Al 2O 3 Surface. ACS OMEGA 2020; 5:6862-6871. [PMID: 32258922 PMCID: PMC7114690 DOI: 10.1021/acsomega.0c00203] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/15/2020] [Accepted: 03/05/2020] [Indexed: 05/17/2023]
Abstract
Carbonaceous or oxy-carbon species are intermediates formed during C x H y combustion on a Pt n /Al2O3 catalyst, which contain carbon, hydrogen, and oxygen atoms. The accumulation of the carbonaceous species, arguably, leads to catalytic deactivation; therefore, their removal is of importance. As the diffusion process is occasionally the rate-determining step in the growth of carbonaceous species, the present study aims to reveal the diffusion mechanisms. The free energy barriers of acetate, formate, and methoxy diffusion on the (100)-γ-Al2O3 surface were evaluated through extensive metadynamics simulations at the density-functional tight-binding level. The present work deduces that each adopted carbonaceous species exhibits different diffusion mechanisms and supports experimental evidence that the acetate species exhibits the slowest diffusivity among the adopted carbonaceous species.
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Affiliation(s)
- Aditya
W. Sakti
- Element
Strategy Initiative for Catalysts and Batteries (ESICB), Kyoto University, Kyotodaigaku-Katsura, Kyoto 615-8520, Japan
- Waseda
Research Institute for Science and Engineering (WISE), Waseda University, Tokyo 169-8555, Japan
| | - Chien-Pin Chou
- Waseda
Research Institute for Science and Engineering (WISE), Waseda University, Tokyo 169-8555, Japan
| | - Hiromi Nakai
- Element
Strategy Initiative for Catalysts and Batteries (ESICB), Kyoto University, Kyotodaigaku-Katsura, Kyoto 615-8520, Japan
- Waseda
Research Institute for Science and Engineering (WISE), Waseda University, Tokyo 169-8555, Japan
- Department
of Chemistry and Biochemistry, School of Advanced Science and Engineering, Waseda University, Tokyo 169-8555, Japan
- E-mail: . Phone: +81 3-5286-3452. Fax: +81 3-3205-2504
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21
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Panosetti C, Engelmann A, Nemec L, Reuter K, Margraf JT. Learning to Use the Force: Fitting Repulsive Potentials in Density-Functional Tight-Binding with Gaussian Process Regression. J Chem Theory Comput 2020; 16:2181-2191. [DOI: 10.1021/acs.jctc.9b00975] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Chiara Panosetti
- Chair for Theoretical Chemistry, Technical University of Munich, Lichtenbergstr. 4, D-85747 Garching, Germany
| | - Artur Engelmann
- Chair for Theoretical Chemistry, Technical University of Munich, Lichtenbergstr. 4, D-85747 Garching, Germany
| | - Lydia Nemec
- Chair for Theoretical Chemistry, Technical University of Munich, Lichtenbergstr. 4, D-85747 Garching, Germany
| | - Karsten Reuter
- Chair for Theoretical Chemistry, Technical University of Munich, Lichtenbergstr. 4, D-85747 Garching, Germany
| | - Johannes T. Margraf
- Chair for Theoretical Chemistry, Technical University of Munich, Lichtenbergstr. 4, D-85747 Garching, Germany
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22
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Aguirre NF, Morgenstern A, Cawkwell MJ, Batista ER, Yang P. Development of Density Functional Tight-Binding Parameters Using Relative Energy Fitting and Particle Swarm Optimization. J Chem Theory Comput 2020; 16:1469-1481. [DOI: 10.1021/acs.jctc.9b00880] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Néstor F. Aguirre
- Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - Amanda Morgenstern
- Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - M. J. Cawkwell
- Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - Enrique R. Batista
- Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - Ping Yang
- Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
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23
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Spiegelman F, Tarrat N, Cuny J, Dontot L, Posenitskiy E, Martí C, Simon A, Rapacioli M. Density-functional tight-binding: basic concepts and applications to molecules and clusters. ADVANCES IN PHYSICS: X 2020; 5:1710252. [PMID: 33154977 PMCID: PMC7116320 DOI: 10.1080/23746149.2019.1710252] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2019] [Accepted: 12/19/2019] [Indexed: 06/10/2023] Open
Abstract
The scope of this article is to present an overview of the Density Functional based Tight Binding (DFTB) method and its applications. The paper introduces the basics of DFTB and its standard formulation up to second order. It also addresses methodological developments such as third order expansion, inclusion of non-covalent interactions, schemes to solve the self-interaction error, implementation of long-range short-range separation, treatment of excited states via the time-dependent DFTB scheme, inclusion of DFTB in hybrid high-level/low level schemes (DFT/DFTB or DFTB/MM), fragment decomposition of large systems, large scale potential energy landscape exploration with molecular dynamics in ground or excited states, non-adiabatic dynamics. A number of applications are reviewed, focusing on -(i)- the variety of systems that have been studied such as small molecules, large molecules and biomolecules, bare orfunctionalized clusters, supported or embedded systems, and -(ii)- properties and processes, such as vibrational spectroscopy, collisions, fragmentation, thermodynamics or non-adiabatic dynamics. Finally outlines and perspectives are given.
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Affiliation(s)
- Fernand Spiegelman
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS)and CNRS, Toulouse, France
| | - Nathalie Tarrat
- CEMES, Université de Toulouse (UPS), CNRS, UPR8011, Toulouse, Toulouse, France
| | - Jérôme Cuny
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS)and CNRS, Toulouse, France
| | - Leo Dontot
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS)and CNRS, Toulouse, France
| | - Evgeny Posenitskiy
- Laboratoire Collisions Agrégats et Réactivité LCAR/IRSAMC, UMR5589, Université de Toulouse (UPS) and CNRS, Toulouse, France
| | - Carles Martí
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS)and CNRS, Toulouse, France
- Laboratoire de Chimie, UMR5182, Ecole Normale Supérieure de Lyon, Université de Lyon and CNRS, Lyon, France
| | - Aude Simon
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS)and CNRS, Toulouse, France
| | - Mathias Rapacioli
- Laboratoire de Chimie et Physique Quantiques LCPQ/IRSAMC, UMR5626, Université de Toulouse (UPS)and CNRS, Toulouse, France
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24
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Sakti AW, Nishimura Y, Nakai H. Recent advances in quantum‐mechanical molecular dynamics simulations of proton transfer mechanism in various water‐based environments. WIRES COMPUTATIONAL MOLECULAR SCIENCE 2020. [DOI: 10.1002/wcms.1419] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Aditya W. Sakti
- Element Strategy Initiative for Catalysts and Batteries (ESICB) Kyoto University Kyoto Japan
| | - Yoshifumi Nishimura
- Waseda Research Institute for Science and Engineering (WISE) Waseda University Tokyo Japan
| | - Hiromi Nakai
- Element Strategy Initiative for Catalysts and Batteries (ESICB) Kyoto University Kyoto Japan
- Waseda Research Institute for Science and Engineering (WISE) Waseda University Tokyo Japan
- Department of Chemistry and Biochemistry, School of Advanced Science and Engineering Waseda University Tokyo Japan
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25
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Uratani H, Chou CP, Nakai H. Quantum mechanical molecular dynamics simulations of polaron formation in methylammonium lead iodide perovskite. Phys Chem Chem Phys 2020; 22:97-106. [DOI: 10.1039/c9cp04739e] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Polaron formation in a halide perovskite is analyzed via nanometre-scale quantum mechanical molecular dynamics simulations.
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Affiliation(s)
- Hiroki Uratani
- Department of Chemistry and Biochemistry
- School of Advanced Science and Engineering
- Waseda University
- Shinjuku-ku
- Japan
| | - Chien-Pin Chou
- Waseda Research Institute for Science and Engineering (WISE)
- Tokyo 169-8555
- Japan
| | - Hiromi Nakai
- Department of Chemistry and Biochemistry
- School of Advanced Science and Engineering
- Waseda University
- Shinjuku-ku
- Japan
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26
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Podeszwa R, Jankiewicz W, Krzuś M, Witek HA. Correcting long-range electrostatics in DFTB. J Chem Phys 2019; 150:234110. [DOI: 10.1063/1.5099694] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Affiliation(s)
- Rafał Podeszwa
- Institute of Chemistry, University of Silesia, Szkolna 9, 41-006 Katowice, Poland
| | - Wojciech Jankiewicz
- Institute of Chemistry, University of Silesia, Szkolna 9, 41-006 Katowice, Poland
| | - Magdalena Krzuś
- Institute of Chemistry, University of Silesia, Szkolna 9, 41-006 Katowice, Poland
- Faculty of Chemistry, Jagiellonian University, Gronostajowa 2, 30-387 Kraków, Poland
| | - Henryk A. Witek
- Department of Applied Chemistry and Institute of Molecular Science, National Chiao Tung University, 1001 University Rd., Hsinchu 30010, Taiwan
- Center for Emergent Functional Matter Science, National Chiao Tung University, 1001 University Rd., Hsinchu 30010, Taiwan
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27
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Chou CP, Sakti AW, Nishimura Y, Nakai H. Development of Divide-and-Conquer Density-Functional Tight-Binding Method for Theoretical Research on Li-Ion Battery. CHEM REC 2019; 19:746-757. [PMID: 30462370 DOI: 10.1002/tcr.201800141] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2018] [Revised: 10/25/2018] [Accepted: 10/26/2018] [Indexed: 01/24/2023]
Abstract
The density-functional tight-binding (DFTB) method is one of the useful quantum chemical methods, which provides a good balance between accuracy and computational efficiency. In this account, we reviewed the basis of the DFTB method, the linear-scaling divide-and-conquer (DC) technique, as well as the parameterization process. We also provide some refinement, modifications, and extension of the existing parameters that can be applicable for lithium-ion battery systems. The diffusion constants of common electrolyte molecules and LiTFSA salt in solution have been estimated using DC-DFTB molecular dynamics simulation with our new parameters. The resulting diffusion constants have good agreement to the experimental diffusion constants.
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Affiliation(s)
- Chien-Pin Chou
- Waseda Research Institute for Science and Engineering (WISE), Waseda University, Tokyo, 169-8555, Japan
| | - Aditya Wibawa Sakti
- Element Strategy Initiative for Catalysts and Batteries (ESICB), Kyoto University, Kyotodaigaku-Katsura, Kyoto, 615-8520, Japan
| | - Yoshifumi Nishimura
- Waseda Research Institute for Science and Engineering (WISE), Waseda University, Tokyo, 169-8555, Japan
| | - Hiromi Nakai
- Waseda Research Institute for Science and Engineering (WISE), Waseda University, Tokyo, 169-8555, Japan.,Element Strategy Initiative for Catalysts and Batteries (ESICB), Kyoto University, Kyotodaigaku-Katsura, Kyoto, 615-8520, Japan.,Department of Chemistry and Biochemistry, School of Advanced Science and Enigineering, Waseda University, Tokyo, 169-8555, Japan
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28
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Cawkwell MJ, Perriot R. Transferable density functional tight binding for carbon, hydrogen, nitrogen, and oxygen: Application to shock compression. J Chem Phys 2019; 150:024107. [DOI: 10.1063/1.5063385] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Affiliation(s)
- M. J. Cawkwell
- Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
| | - R. Perriot
- Theoretical Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA
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29
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Li H, Collins C, Tanha M, Gordon GJ, Yaron DJ. A Density Functional Tight Binding Layer for Deep Learning of Chemical Hamiltonians. J Chem Theory Comput 2018; 14:5764-5776. [PMID: 30351008 DOI: 10.1021/acs.jctc.8b00873] [Citation(s) in RCA: 53] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Current neural networks for predictions of molecular properties use quantum chemistry only as a source of training data. This paper explores models that use quantum chemistry as an integral part of the prediction process. This is done by implementing self-consistent-charge Density-Functional-Tight-Binding (DFTB) theory as a layer for use in deep learning models. The DFTB layer takes, as input, Hamiltonian matrix elements generated from earlier layers and produces, as output, electronic properties from self-consistent field solutions of the corresponding DFTB Hamiltonian. Backpropagation enables efficient training of the model to target electronic properties. Two types of input to the DFTB layer are explored, splines and feed-forward neural networks. Because overfitting can cause models trained on smaller molecules to perform poorly on larger molecules, regularizations are applied that penalize nonmonotonic behavior and deviation of the Hamiltonian matrix elements from those of the published DFTB model used to initialize the model. The approach is evaluated on 15 700 hydrocarbons by comparing the root-mean-square error in energy and dipole moment, on test molecules with eight heavy atoms, to the error from the initial DFTB model. When trained on molecules with up to seven heavy atoms, the spline model reduces the test error in energy by 60% and in dipole moments by 42%. The neural network model performs somewhat better, with error reductions of 67% and 59%, respectively. Training on molecules with up to four heavy atoms reduces performance, with both the spline and neural net models reducing the test error in energy by about 53% and in dipole by about 25%.
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Cuny J, Tarrat N, Spiegelman F, Huguenot A, Rapacioli M. Density-functional tight-binding approach for metal clusters, nanoparticles, surfaces and bulk: application to silver and gold. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2018; 30:303001. [PMID: 29916820 DOI: 10.1088/1361-648x/aacd6c] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Density-functional based tight-binding (DFTB) is an efficient quantum mechanical method that can describe a variety of systems, going from organic and inorganic compounds to metallic and hybrid materials. The present topical review addresses the ability and performance of DFTB to investigate energetic, structural, spectroscopic and dynamical properties of gold and silver materials. After a brief overview of the theoretical basis of DFTB, its parametrization and its transferability, we report its past and recent applications to gold and silver systems, including small clusters, nanoparticles, bulk and surfaces, bare and interacting with various organic and inorganic compounds. The range of applications covered by those studies goes from plasmonics and molecular electronics, to energy conversion and surface chemistry. Finally, perspectives of DFTB in the field of gold and silver surfaces and NPs are outlined.
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Affiliation(s)
- Jérôme Cuny
- Laboratoire de Chimie et Physique Quantiques (LCPQ), Université de Toulouse III [UPS] and CNRS, 118 Route de Narbonne, F-31062 Toulouse, France
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Furman D, Carmeli B, Zeiri Y, Kosloff R. Enhanced Particle Swarm Optimization Algorithm: Efficient Training of ReaxFF Reactive Force Fields. J Chem Theory Comput 2018; 14:3100-3112. [PMID: 29727570 DOI: 10.1021/acs.jctc.7b01272] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Particle swarm optimization (PSO) is a powerful metaheuristic population-based global optimization algorithm. However, when it is applied to nonseparable objective functions, its performance on multimodal landscapes is significantly degraded. Here we show that a significant improvement in the search quality and efficiency on multimodal functions can be achieved by enhancing the basic rotation-invariant PSO algorithm with isotropic Gaussian mutation operators. The new algorithm demonstrates superior performance across several nonlinear, multimodal benchmark functions compared with the rotation-invariant PSO algorithm and the well-established simulated annealing and sequential one-parameter parabolic interpolation methods. A search for the optimal set of parameters for the dispersion interaction model in the ReaxFF- lg reactive force field was carried out with respect to accurate DFT-TS calculations. The resulting optimized force field accurately describes the equations of state of several high-energy molecular crystals where such interactions are of crucial importance. The improved algorithm also presents better performance compared to a genetic algorithm optimization method in the optimization of the parameters of a ReaxFF- lg correction model. The computational framework is implemented in a stand-alone C++ code that allows the straightforward development of ReaxFF reactive force fields.
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Affiliation(s)
- David Furman
- Fritz Haber Research Center for Molecular Dynamics, Institute of Chemistry , Hebrew University of Jerusalem , Jerusalem 91904 , Israel.,Division of Chemistry , NRCN , P.O. Box 9001, Beer-Sheva 84190 , Israel
| | - Benny Carmeli
- Division of Chemistry , NRCN , P.O. Box 9001, Beer-Sheva 84190 , Israel
| | - Yehuda Zeiri
- Department of Biomedical Engineering , Ben Gurion University , Beer-Sheva 94105 , Israel
| | - Ronnie Kosloff
- Fritz Haber Research Center for Molecular Dynamics, Institute of Chemistry , Hebrew University of Jerusalem , Jerusalem 91904 , Israel
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Huran AW, Steigemann C, Frauenheim T, Aradi B, Marques MAL. Efficient Automatized Density-Functional Tight-Binding Parametrizations: Application to Group IV Elements. J Chem Theory Comput 2018; 14:2947-2954. [DOI: 10.1021/acs.jctc.7b01269] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Ahmad W. Huran
- Institut für Physik, Martin-Luther-Universität Halle-Wittenberg, D-06120 Halle (Saale), Germany
| | - Conrad Steigemann
- Institut für Physik, Martin-Luther-Universität Halle-Wittenberg, D-06120 Halle (Saale), Germany
| | | | - Bálint Aradi
- BCCMS, University of Bremen, 28359 Bremen, Germany
| | - Miguel A. L. Marques
- Institut für Physik, Martin-Luther-Universität Halle-Wittenberg, D-06120 Halle (Saale), Germany
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Van den Bossche M, Grönbeck H, Hammer B. Tight-Binding Approximation-Enhanced Global Optimization. J Chem Theory Comput 2018; 14:2797-2807. [DOI: 10.1021/acs.jctc.8b00039] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Maxime Van den Bossche
- Department of Chemistry, Brown University, Providence, Rhode Island 02912, United States
- Science Institute and Faculty of Physical Sciences, University of Iceland, 107 Reykjavík, Iceland
| | - Henrik Grönbeck
- Department of Physics and Competence Centre for Catalysis, Chalmers University of Technology, 412 58 Göteborg, Sweden
| | - Bjørk Hammer
- Department of Physics and Astronomy, Aarhus University, DK-8000 Aarhus, Denmark
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Kranz JJ, Kubillus M, Ramakrishnan R, von Lilienfeld OA, Elstner M. Generalized Density-Functional Tight-Binding Repulsive Potentials from Unsupervised Machine Learning. J Chem Theory Comput 2018; 14:2341-2352. [DOI: 10.1021/acs.jctc.7b00933] [Citation(s) in RCA: 34] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
| | | | - Raghunathan Ramakrishnan
- Institute of Physical Chemistry and National Center for Computational Design and Discovery of Novel Materials (MARVEL), Department of Chemistry, University of Basel, Klingelbergstrasse 80, CH-4056 Basel, Switzerland
| | - O. Anatole von Lilienfeld
- Institute of Physical Chemistry and National Center for Computational Design and Discovery of Novel Materials (MARVEL), Department of Chemistry, University of Basel, Klingelbergstrasse 80, CH-4056 Basel, Switzerland
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Okoshi M, Chou CP, Nakai H. Theoretical Analysis of Carrier Ion Diffusion in Superconcentrated Electrolyte Solutions for Sodium-Ion Batteries. J Phys Chem B 2018; 122:2600-2609. [DOI: 10.1021/acs.jpcb.7b10589] [Citation(s) in RCA: 52] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Masaki Okoshi
- Department of Chemistry and Biochemistry, Waseda University, Tokyo 169-8555, Japan
- Elements Strategy Initiative for Catalysts & Batteries (ESICB), Kyoto University, Kyoto 615-8245, Japan
| | - Chien-Pin Chou
- Research Institute for Science and Engineering (RISE), Waseda University, Tokyo 169-8555, Japan
| | - Hiromi Nakai
- Department of Chemistry and Biochemistry, Waseda University, Tokyo 169-8555, Japan
- Elements Strategy Initiative for Catalysts & Batteries (ESICB), Kyoto University, Kyoto 615-8245, Japan
- Research Institute for Science and Engineering (RISE), Waseda University, Tokyo 169-8555, Japan
- CREST, Japan Science and Technology Agency, Saitama 332-0012, Japan
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Krishnapriyan A, Yang P, Niklasson AMN, Cawkwell MJ. Numerical Optimization of Density Functional Tight Binding Models: Application to Molecules Containing Carbon, Hydrogen, Nitrogen, and Oxygen. J Chem Theory Comput 2017; 13:6191-6200. [DOI: 10.1021/acs.jctc.7b00762] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- A. Krishnapriyan
- Department
of Materials Science and Engineering, Stanford University, Stanford, California 94305, United States
- Theoretical
Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - P. Yang
- Theoretical
Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - A. M. N. Niklasson
- Theoretical
Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
| | - M. J. Cawkwell
- Theoretical
Division, Los Alamos National Laboratory, Los Alamos, New Mexico 87545, United States
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Surakhot Y, Laszlo V, Chitpakdee C, Promarak V, Sudyoadsuk T, Kungwan N, Kowalczyk T, Irle S, Jungsuttiwong S. Theoretical rationalization for reduced charge recombination in bulky carbazole-based sensitizers in solar cells. J Comput Chem 2017; 38:901-909. [PMID: 28192642 DOI: 10.1002/jcc.24751] [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: 10/13/2016] [Revised: 12/12/2016] [Accepted: 12/31/2016] [Indexed: 11/09/2022]
Abstract
The search for greater efficiency in organic dye-sensitized solar cells (DSCs) and in their perovskite cousins is greatly aided by a more complete understanding of the spectral and morphological properties of the photoactive layer. This investigation resolves a discrepancy in the observed photoconversion efficiency (PCE) of two closely related DSCs based on carbazole-containing D-π-A organic sensitizers. Detailed theoretical characterization of the absorption spectra, dye adsorption on TiO2 , and electronic couplings for charge separation and recombination permit a systematic determination of the origin of the difference in PCE. Although the two dyes produce similar spectral features, ground- and excited-state density functional theory (DFT) simulations reveal that the dye with the bulkier donor group adsorbs more strongly to TiO2 , experiences limited π-π aggregation, and is more resistant to loss of excitation energy via charge recombination on the dye. The effects of conformational flexibility on absorption spectra and on the electronic coupling between the bright exciton and charge-transfer states are revealed to be substantial and are characterized through density-functional tight-binding (DFTB) molecular dynamics sampling. These simulations offer a mechanistic explanation for the superior open-circuit voltage and short-circuit current of the bulky-donor dye sensitizer and provide theoretical justification of an important design feature for the pursuit of greater photocurrent efficiency in DSCs. © 2017 Wiley Periodicals, Inc.
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Affiliation(s)
- Yaowarat Surakhot
- Center for Organic Electronic and Alternative Energy, Department of Chemistry and Center for Innovation in Chemistry, Faculty of Science, Ubon Ratchathani University, Ubon Ratchathani, 34190, Thailand
| | - Viktor Laszlo
- Department of Chemistry, Advanced Materials Science and Engineering Center, and Institute for Energy Studies, Western Washington University, Bellingham, Washington, 98225
| | - Chirawat Chitpakdee
- National Nanotechnology Center, National Science and Technology Development Agency, Klong Luang, Pathumthani, 12120, Thailand
| | - Vinich Promarak
- School of Molecular Science and Engineering, Vidyasirimedhi Institute of Science and Technology, Wangchan, Rayong, 21210, Thailand
| | - Taweesak Sudyoadsuk
- School of Molecular Science and Engineering, Vidyasirimedhi Institute of Science and Technology, Wangchan, Rayong, 21210, Thailand
| | - Nawee Kungwan
- Department of Chemistry, Faculty of Science, Chiang Mai University, Chiang Mai, 50200, Thailand
| | - Tim Kowalczyk
- Department of Chemistry, Advanced Materials Science and Engineering Center, and Institute for Energy Studies, Western Washington University, Bellingham, Washington, 98225
| | - Stephan Irle
- Department of Chemistry, Graduate School of Science, Nagoya University, Institute of Transformational Biomolecules (WPI-ITbM) and, Nagoya, 464-8602, Japan
| | - Siriporn Jungsuttiwong
- Center for Organic Electronic and Alternative Energy, Department of Chemistry and Center for Innovation in Chemistry, Faculty of Science, Ubon Ratchathani University, Ubon Ratchathani, 34190, Thailand
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Mengshan L, Liang L, Xingyuan H, Hesheng L, Bingsheng C, Lixin G, Yan W. Prediction of supercritical carbon dioxide solubility in polymers based on hybrid artificial intelligence method integrated with the diffusion theory. RSC Adv 2017. [DOI: 10.1039/c7ra09531g] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
A solubility prediction model based on a hybrid artificial intelligence method integrated with diffusion theory is proposed.
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Affiliation(s)
- Li Mengshan
- College of Physics and Electronic Information
- Gannan Normal University
- Ganzhou
- China
- College of Mechanical and Electric Engineering
| | - Liu Liang
- College of Physics and Electronic Information
- Gannan Normal University
- Ganzhou
- China
| | - Huang Xingyuan
- College of Mechanical and Electric Engineering
- Nanchang University
- Nanchang
- China
| | - Liu Hesheng
- College of Mechanical and Electric Engineering
- Nanchang University
- Nanchang
- China
| | - Chen Bingsheng
- College of Physics and Electronic Information
- Gannan Normal University
- Ganzhou
- China
| | - Guan Lixin
- College of Physics and Electronic Information
- Gannan Normal University
- Ganzhou
- China
| | - Wu Yan
- College of Physics and Electronic Information
- Gannan Normal University
- Ganzhou
- China
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Cui Q, Hernandez R, Mason SE, Frauenheim T, Pedersen JA, Geiger F. Sustainable Nanotechnology: Opportunities and Challenges for Theoretical/Computational Studies. J Phys Chem B 2016; 120:7297-306. [PMID: 27388532 DOI: 10.1021/acs.jpcb.6b03976] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
Abstract
For assistance in the design of the next generation of nanomaterials that are functional and have minimal health and safety concerns, it is imperative to establish causality, rather than correlations, in how properties of nanomaterials determine biological and environmental outcomes. Due to the vast design space available and the complexity of nano/bio interfaces, theoretical and computational studies are expected to play a major role in this context. In this minireview, we highlight opportunities and pressing challenges for theoretical and computational chemistry approaches to explore the relevant physicochemical processes that span broad length and time scales. We focus discussions on a bottom-up framework that relies on the determination of correct intermolecular forces, accurate molecular dynamics, and coarse-graining procedures to systematically bridge the scales, although top-down approaches are also effective at providing insights for many problems such as the effects of nanoparticles on biological membranes.
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Affiliation(s)
- Qiang Cui
- Department of Chemistry and Theoretical Chemistry Institute, University of Wisconsin-Madison , 1101 University Avenue, Madison, Wisconsin 53706, United States
| | - Rigoberto Hernandez
- Department of Chemistry, Johns Hopkins University , Baltimore, Maryland 21218, United States
| | - Sara E Mason
- Department of Chemistry, University of Iowa , E331 Chemistry Building, Iowa City, Iowa 52242-1294, United States
| | - Thomas Frauenheim
- Bremen Center for Computational Materials Science, Univ of Bremen , D-28359 Bremen, Germany
| | - Joel A Pedersen
- Departments of Soil Science, Civil & Environmental Engineering, and Chemistry, University of Wisconsin-Madison , 1525 Observatory Drive, Madison, Wisconsin 53706, United States
| | - Franz Geiger
- Department of Chemistry, Northwestern University , 2145 Sheridan Road, Evanston, Illinois 60201, United States
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