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Bürkle M, Perera U, Gimbert F, Nakamura H, Kawata M, Asai Y. Deep-Learning Approach to First-Principles Transport Simulations. PHYSICAL REVIEW LETTERS 2021; 126:177701. [PMID: 33988436 DOI: 10.1103/physrevlett.126.177701] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/19/2020] [Accepted: 03/18/2021] [Indexed: 06/12/2023]
Abstract
Large-scale first-principles transport calculations, while essential for device modeling, remain computationally demanding. To overcome this bottle neck, we combine first-principles transport calculations with machine learning-based nonlinear regression. We calculate the electronic conductance through first-principles based nonequilibrium Green's function techniques for small systems and map the transport properties onto local properties using local descriptors. We show that using the local descriptor as input features for deep learning-based nonlinear regression allows us to build a robust neural network that can predict the conductance of large systems beyond that of the current state-of-the-art first-principles calculation algorithms. Our protocol is applied to alkali metal nanowires, i.e., potassium, which have unique geometrical and electronic properties and hence nontrivial transport properties. We demonstrate that within our approach we can achieve qualitative agreement with experiment at a fraction of the computational effort as compared to the direct calculation of the transport properties using conventional first-principles methods.
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Affiliation(s)
- Marius Bürkle
- National Institute of Advanced Industrial Science and Technology (AIST), Central 2, Umezono 1-1-1, Tsukuba 305-8568, Japan
| | - Umesha Perera
- National Institute of Advanced Industrial Science and Technology (AIST), Central 2, Umezono 1-1-1, Tsukuba 305-8568, Japan
| | - Florian Gimbert
- National Institute of Advanced Industrial Science and Technology (AIST), Central 2, Umezono 1-1-1, Tsukuba 305-8568, Japan
| | - Hisao Nakamura
- National Institute of Advanced Industrial Science and Technology (AIST), Central 2, Umezono 1-1-1, Tsukuba 305-8568, Japan
| | - Masaaki Kawata
- National Institute of Advanced Industrial Science and Technology (AIST), Central 2, Umezono 1-1-1, Tsukuba 305-8568, Japan
| | - Yoshihiro Asai
- National Institute of Advanced Industrial Science and Technology (AIST), Central 2, Umezono 1-1-1, Tsukuba 305-8568, Japan
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Dokukin SA, Kolesnikov SV, Saletsky AM. Molecular dynamics simulation of the formation of Cu-Pt nanocontacts in the mechanically controlled break junction experiments. Phys Chem Chem Phys 2020; 22:16136-16142. [PMID: 32638767 DOI: 10.1039/d0cp02903c] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The formation of the Cu-Pt nanocontacts has been investigated by means of classical molecular dynamics simulations. The simulations of the mechanically controlled break junction experiment have been performed in wide ranges of temperatures (0-300 K) and at relative Pt concentrations (0-20%). The structure of the breaking area has been studied 2 ns before the final breaking of the nanocontacts. The length of the breaking area increases with the increase of the temperature and decreases with the increase of the relative Pt concentration. The structure of the breaking area has been investigated by means of the radial distribution function method. The breaking area usually has one of the following structures: (i) a bulk-like structure, (ii) a structure consisting of centered icosahedrons rotated 90°, or (iii) an icosahedral structure composed of pentagonal rings. The structure of the breaking area is almost independent of the temperature and the stretching direction due to the strong Cu-Pt interaction.
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Affiliation(s)
- S A Dokukin
- Faculty of Physics, Lomonosov Moscow State University, Moscow 119991, Russian Federation. and A. M. Obukhov Institute of Atmospheric Physics, Russian Academy of Sciences, Pyzhevsky Per., 3, 119017, Moscow, Russia
| | - S V Kolesnikov
- Faculty of Physics, Lomonosov Moscow State University, Moscow 119991, Russian Federation.
| | - A M Saletsky
- Faculty of Physics, Lomonosov Moscow State University, Moscow 119991, Russian Federation.
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Tewari S, Bakermans J, Wagner C, Galli F, van Ruitenbeek JM. Intuitive human interface to a scanning tunnelling microscope: observation of parity oscillations for a single atomic chain. BEILSTEIN JOURNAL OF NANOTECHNOLOGY 2019; 10:337-348. [PMID: 30800573 PMCID: PMC6369976 DOI: 10.3762/bjnano.10.33] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/28/2018] [Accepted: 01/18/2019] [Indexed: 06/09/2023]
Abstract
A new way to control individual molecules and monoatomic chains is devised by preparing a human-machine augmented system in which the operator and the machine are connected by a real-time simulation. Here, a 3D motion control system is integrated with an ultra-high vacuum (UHV) low-temperature scanning tunnelling microscope (STM). Moreover, we coupled a real-time molecular dynamics (MD) simulation to the motion control system that provides a continuous visual feedback to the operator during atomic manipulation. This allows the operator to become a part of the experiment and to make any adaptable tip trajectory that could be useful for atomic manipulation in three dimensions. The strength of this system is demonstrated by preparing and lifting a monoatomic chain of gold atoms from a Au(111) surface in a well-controlled manner. We have demonstrated the existence of Fabry-Pérot-type electronic oscillations in such a monoatomic chain of gold atoms and determined its phase, which was difficult to ascertain previously. We also show here a new geometric procedure to infer the adatom positions and therefore information about the substrate atoms, which are not easily visible on clean metallic surfaces such as gold. This method enables a new controlled atom manipulation technique, which we will refer to as point contact pushing (PCP) technique.
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Affiliation(s)
- Sumit Tewari
- Huygens-Kamerlingh Onnes Laboratory, Leiden University, Niels Bohrweg 2, 2333 CA Leiden, Netherlands
- current address: Department of Materials, University of Oxford, OX1 3PH, Oxford, United Kingdom
| | - Jacob Bakermans
- Huygens-Kamerlingh Onnes Laboratory, Leiden University, Niels Bohrweg 2, 2333 CA Leiden, Netherlands
- current address: Nuffield Department of Clinical Neuroscience, University of Oxford, OX3 9DU, Oxford, United Kingdom
| | - Christian Wagner
- Huygens-Kamerlingh Onnes Laboratory, Leiden University, Niels Bohrweg 2, 2333 CA Leiden, Netherlands
- Peter Grünberg Institut (PGI-3) Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Federica Galli
- Huygens-Kamerlingh Onnes Laboratory, Leiden University, Niels Bohrweg 2, 2333 CA Leiden, Netherlands
| | - Jan M van Ruitenbeek
- Huygens-Kamerlingh Onnes Laboratory, Leiden University, Niels Bohrweg 2, 2333 CA Leiden, Netherlands
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Requist R, Baruselli PP, Smogunov A, Fabrizio M, Modesti S, Tosatti E. Metallic, magnetic and molecular nanocontacts. NATURE NANOTECHNOLOGY 2016; 11:499-508. [PMID: 27272139 DOI: 10.1038/nnano.2016.55] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Accepted: 03/08/2016] [Indexed: 06/06/2023]
Abstract
Scanning tunnelling microscopy and break-junction experiments realize metallic and molecular nanocontacts that act as ideal one-dimensional channels between macroscopic electrodes. Emergent nanoscale phenomena typical of these systems encompass structural, mechanical, electronic, transport, and magnetic properties. This Review focuses on the theoretical explanation of some of these properties obtained with the help of first-principles methods. By tracing parallel theoretical and experimental developments from the discovery of nanowire formation and conductance quantization in gold nanowires to recent observations of emergent magnetism and Kondo correlations, we exemplify the main concepts and ingredients needed to bring together ab initio calculations and physical observations. It can be anticipated that diode, sensor, spin-valve and spin-filter functionalities relevant for spintronics and molecular electronics applications will benefit from the physical understanding thus obtained.
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Affiliation(s)
- Ryan Requist
- International School for Advanced Studies (SISSA), Via Bonomea 265, Trieste 34136, Italy
- Max Planck Institute of Microstructure Physics, Weinberg 2, 06114 Halle, Germany
| | - Pier Paolo Baruselli
- International School for Advanced Studies (SISSA), Via Bonomea 265, Trieste 34136, Italy
- Institut für Theoretische Physik, Technische Universität Dresden, 01062 Dresden, Germany
- Democritos Simulation Center, Istituto Officina dei Materiali, Consiglio Nazionale delle Ricerche, Via Bonomea 265, Trieste 34136, Italy
| | - Alexander Smogunov
- Service de Physique de l'Etat Condensé (SPEC), CEA, CNRS, Université Paris-Saclay, CEA Saclay 91191 Gif-sur-Yvette Cedex, France
| | - Michele Fabrizio
- International School for Advanced Studies (SISSA), Via Bonomea 265, Trieste 34136, Italy
- Democritos Simulation Center, Istituto Officina dei Materiali, Consiglio Nazionale delle Ricerche, Via Bonomea 265, Trieste 34136, Italy
| | - Silvio Modesti
- Physics Department, University of Trieste, Via Valerio 2, Trieste 34127, Italy
- TASC Laboratory, Istituto Officina dei Materiali, Consiglio Nazionale delle Ricerche, s.s. 14 km 163.5, Trieste 34149, Italy
| | - Erio Tosatti
- International School for Advanced Studies (SISSA), Via Bonomea 265, Trieste 34136, Italy
- Democritos Simulation Center, Istituto Officina dei Materiali, Consiglio Nazionale delle Ricerche, Via Bonomea 265, Trieste 34136, Italy
- International Centre for Theoretical Physics (ICTP), Strada Costiera 11, Trieste 34151, Italy
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Guo S, Hihath J, Tao N. Breakdown of atomic-sized metallic contacts measured on nanosecond scale. NANO LETTERS 2011; 11:927-33. [PMID: 21294524 DOI: 10.1021/nl1026748] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/13/2023]
Abstract
We report on a study of atomic-sized metallic contacts on a time scale of nanoseconds using a combined DC and AC circuit. The approach leads to a time resolution 3-4 orders of magnitude faster than the measurements carried out to date, making it possible to observe fast transient conductance-switching events associated with the breakdown, re-formation, and atomic scale structural rearrangements of the contact. The study bridges the wide gap in the time scales between the molecular dynamic simulations and real world experiments, and the method may be applied to study nano- and subnanosecond processes in other nanoscale devices, such as molecular junctions.
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Affiliation(s)
- Shaoyin Guo
- Center for Bioelectronics and Biosensors, Biodesign Institute, Arizona State University, Tempe, Arizona 85287, United States
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Interface dynamics and mechanisms of nanoindented alkanethiol self-assembled monolayers using molecular simulations. J Colloid Interface Sci 2010; 345:19-26. [DOI: 10.1016/j.jcis.2010.01.052] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2009] [Revised: 12/30/2009] [Accepted: 01/19/2010] [Indexed: 11/23/2022]
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Todorov TN, Hoekstra J, Sutton AP. Current-induced forces in atomic-scale conductors. ACTA ACUST UNITED AC 2009. [DOI: 10.1080/13642810008208601] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- T. N. Todorov
- a Department of Materials , University of Oxford , Parks Road, Oxford OX1 3PH, UK
- b School of Mathematics and Physics, The Queen's University of Belfast , Belfast BT7 INN, UK E-mail:
| | - J. Hoekstra
- a Department of Materials , University of Oxford , Parks Road, Oxford OX1 3PH, UK
| | - A. P. Sutton
- a Department of Materials , University of Oxford , Parks Road, Oxford OX1 3PH, UK
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Liu Y, Wang F, Zhao J, Jiang L, Kiguchi M, Murakoshi K. Theoretical investigation on the influence of temperature and crystallographic orientation on the breaking behavior of copper nanowire. Phys Chem Chem Phys 2009; 11:6514-9. [PMID: 19809684 DOI: 10.1039/b902795e] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this paper, molecular dynamics simulations have been conducted to study the mechanical stretching of copper nanowires which will finally lead to the formation of suspended liner atomic chains. A total of 2700 samples have been investigated to achieve a comprehensive understanding of the influence of temperature and orientation on the formation of linear atomic chains. Our results prove that linear atomic chains do exist for [100], [111] and [110] crystallographic directions. Stretching along the [111] direction exhibits a higher probability in forming the two-atom contact than that along the [110] and [100] directions. However, for longer linear atomic chains, there emerges a reversed trend. In addition, increasing temperature may decrease the formation probability for stretching along [111] and [110] directions, but this influence is less obvious for that along the [100] direction.
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Affiliation(s)
- Yunhong Liu
- Key Laboratory of Analytical Chemistry for Life Science (Ministry of Education), School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, China 210008
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Tsutsui M, Taniguchi M, Kawai T. Atomistic mechanics and formation mechanism of metal-molecule-metal junctions. NANO LETTERS 2009; 9:2433-2439. [PMID: 19507890 DOI: 10.1021/nl901142s] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
The present Letter reports a quantitative analysis of contact mechanics in metal-molecule-metal junctions at a single atom/molecule level through investigating their lifetime at cryogenic temperature. We elucidated that the force breaking mechanism of atomic/molecular junctions is stretching speed dependent, attributed to suppression of contact structure relaxation processes at high strain rate conditions. We also provide solid evidence that strain exerted in the preformation stage of molecular junctions poses extra strain energy that accelerates their eventual fracture. Nonetheless, we find that single-molecule junctions subjected to mechanical stretching at 0.6 pm/s can be held for approximately 100 s on average at 77 K and for a much prolonged period when freezing the elongation after forming the molecular junctions by virtue of moderate thermal destabilizations, the fluctuation-free condition of which provides optimal experimental platform for performing reliable measurements of single molecule electron transport properties.
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Affiliation(s)
- Makusu Tsutsui
- The Institute of Scientific and Industrial Research, Osaka University, Ibaraki, Osaka 567-0047, Japan
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Pu Q, Leng Y, Tsetseris L, Park HS, Pantelides ST, Cummings PT. Molecular dynamics simulations of stretched gold nanowires: The relative utility of different semiempirical potentials. J Chem Phys 2007; 126:144707. [PMID: 17444732 DOI: 10.1063/1.2717162] [Citation(s) in RCA: 51] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The mechanical elongation of a finite gold nanowire has been studied by molecular dynamics simulations using different semiempirical potentials for transition metals. These potentials have been widely used to study the mechanical properties of finite metal clusters. Combining with density functional theory calculations along several atomic-configuration trajectories predicted by different semiempirical potentials, the authors conclude that the second-moment approximation of the tight-binding scheme (TB-SMA) potential is the most suitable one to describe the energetics of finite Au clusters. They find that for the selected geometries of Au wires studied in this work, the ductile elongation of Au nanowires along the [001] direction predicted by the TB-SMA potential is largely independent of temperature in the range of 0.01-298 K. The elongation leads to the formation of monatomic chains, as has been observed experimentally. The calculated force-versus-elongation curve is remarkably consistent with available experimental results.
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Affiliation(s)
- Qing Pu
- Department of Chemical Engineering, Vanderbilt University, Nashville, Tennessee 37235, USA
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Bürki J, Goldstein RE, Stafford CA. Quantum necking in stressed metallic nanowires. PHYSICAL REVIEW LETTERS 2003; 91:254501. [PMID: 14754119 DOI: 10.1103/physrevlett.91.254501] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/06/2002] [Revised: 07/14/2003] [Indexed: 05/24/2023]
Abstract
When a macroscopic metallic wire is subject to tensile stress, it necks down smoothly as it elongates. We show that nanowires with radii comparable to the Fermi wavelength display remarkably different behavior. Using concepts from fluid dynamics, a partial differential equation for nanowire shape evolution is derived from a semiclassical energy functional that includes electron-shell effects. A rich dynamics involving movement and interaction of kinks connecting locally stable radii is found, and a new class of universal equilibrium shapes is predicted.
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Affiliation(s)
- J Bürki
- Department of Physics, University of Arizona, Tucson, Arizona 85721, USA
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Wang B, Yin S, Wang G, Buldum A, Zhao J. Novel structures and properties of gold nanowires. PHYSICAL REVIEW LETTERS 2001; 86:2046-2049. [PMID: 11289851 DOI: 10.1103/physrevlett.86.2046] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2000] [Indexed: 05/23/2023]
Abstract
The structures of free-standing gold nanowires are studied by using molecular-dynamics-based genetic algorithm simulations. Helical and multiwalled cylindrical structures are found for the thinner nanowires, while bulk-like fcc structures eventually form in the thicker nanowires up to 3 nm in diameter. This noncrystalline-crystalline transition starts from the core region of nanowires. The vibrational, electronic, and transport properties of nanowires are investigated based on the optimal structures. Bulklike behaviors are found for the vibrational and electronic properties of the nanowires with fcc crystalline structure. The conductance of nanowires generally increases with wire diameter and depends on the wire structure.
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Affiliation(s)
- B Wang
- National Laboratory of Solid State Microstructures, Nanjung University, Nanjing, China
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