Intuitive human interface to a scanning tunnelling microscope: observation of parity oscillations for a single atomic chain

Sumit Tewari, Jacob Bakermans, Christian Wagner, Federica Galli and Jan M. van Ruitenbeek

Beilstein J. Nanotechnol. 2019, 10, 337–348. https://doi.org/10.3762/bjnano.10.33

Supporting Information

Supporting Information includes derivation of the force expression given in the main text. A schematic flowchart of the simulation execution is also provided. A detailed discussion about the geometric method for determining the positions of the background substrate atoms is given as well. The plot showing the effect of using the cut-off radii and look-up tables in the simulation is also provided. Conductance and trajectory data recorded during experiments are shown as 3D plots. A full sequence of the manipulation shown in the simulation is also available as a video file.

Supporting Information File 1: Additional data.
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Supporting Information File 2: Simulation step 1.
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Supporting Information File 3: Simulation step 2.
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Cite the Following Article

Intuitive human interface to a scanning tunnelling microscope: observation of parity oscillations for a single atomic chain

Sumit Tewari, Jacob Bakermans, Christian Wagner, Federica Galli and Jan M. van Ruitenbeek

Beilstein J. Nanotechnol. 2019, 10, 337–348. https://doi.org/10.3762/bjnano.10.33

How to Cite

Tewari, S.; Bakermans, J.; Wagner, C.; Galli, F.; van Ruitenbeek, J. M. Beilstein J. Nanotechnol. 2019, 10, 337–348. doi:10.3762/bjnano.10.33

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TY  - JOUR
A1  - Tewari, Sumit
A1  - Bakermans, Jacob
A1  - Wagner, Christian
A1  - Galli, Federica
A1  - van Ruitenbeek, Jan M.
T1  - Intuitive human interface to a scanning tunnelling microscope: observation of parity oscillations for a single atomic chain
JF  - Beilstein Journal of Nanotechnology
PY  - 2019///
VL  - 10
SP  - 337
EP  - 348
SN  - 2190-4286
DO  - 10.3762/bjnano.10.33
PB  - Beilstein-Institut
JA  - Beilstein J. Nanotechnol.
UR  - https://doi.org/10.3762/bjnano.10.33
KW  - adatom imaging
KW  - mechanical annealing
KW  - scanning tunnelling microscopy (STM)
KW  - STM tip
KW  - tip apex
N2  - 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.
ER  -

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Scholarly Works

Scheidt, J.; Diener, A.; Maiworm, M.; Müller, K.-R.; Findeisen, R.; Driessens, K.; Tautz, F. S.; Wagner, C. Concept for the Real-Time Monitoring of Molecular Configurations during Manipulation with a Scanning Probe Microscope. The journal of physical chemistry. C, Nanomaterials and interfaces 2023, 127, 13817–13836. doi:10.1021/acs.jpcc.3c02072
Dednam, W.; Tewari, S.; Lombardi, E. B.; Palacios, J. J.; van Ruitenbeek, J. M.; Sabater, C. Dynamic bonding influenced by the proximity of adatoms to one atom high step edges. Physical Review B 2022, 106. doi:10.1103/physrevb.106.125418
van Vreumingen, D.; Tewari, S.; Verbeek, F. J.; van Ruitenbeek, J. M. Micromachines - Towards Controlled Single-Molecule Manipulation Using “Real-Time” Molecular Dynamics Simulation: A GPU Implementation. Micromachines 2018, 9, 270. doi:10.3390/mi9060270

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