Ab-Initio Simulation Laboratory

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In this study, the 13-atom cluster structures of alkaline metals, alkaline-earth metals, boron group metals, carbon group metals, and 3d, 4d, and 5d transition metals in the periodic table are investigated by density functional theory with three kinds of exchange-correlation (XC) functionals: (i) local-density approximation (LDA); (ii) generalized gradient approximation (GGA) with Perdew-Wang 91; and (iii) generalized gradient approximation with Perdew-Burke-Ernzerhof. The dependence on pseudopotentials (PPs) with and without semicore electrons is also examined. The relative energies of five selected high-symmetry three-dimensional and four low-symmetry layer-type isomers for each element of interest are calculated and studied. Among the 44 metallic 13-atom clusters, our results show that the two GGA XC functionals have a great consistency; LDA and GGA results also reveal a great consistency, apart from the Cr, Mn, Fe, Co, Ni, and Rh 13-atom clusters, for which the results show a significant difference. Meanwhile, for most of the elements, the calculations with and without semicore PPs also produce consistent results, except for Cr, Mo, and V, which require a careful treatment of semicore states in the PPs.

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The presence of sulfur atoms on the Pd(100) surface is known to hinder the dissociative adsorption of hydrogen. Using density-functional theory and the full-potential linear augmented plane-wave method, we investigate the potential energy surface (PES) of the dissociative adsorption of H-2 On the sulfur covered Pd(100) surface. The PES is changed significantly compared to the dissociation on the clean Pd(100) surface, particularly for hydrogen close to the S atoms. While the hydrogen dissociation at the clean Pd(100) surface is nonactivated, for the (2 x 2) sulfur adlayer (coverage Theta (S) = 0.25) the dissociation of H-2 is inhibited by energy barriers. Their heights strongly depend on the distance between the hydrogen and sulfur atoms leading to a highly corrugated PES. The largest barriers are in the vicinity of the sulfur atoms due to the strong repulsion between sulfur and hydrogen. Still the hydrogen dissociation on the (2x2) sulfur covered Pd(100) surface is exothermic. Thus the poisoning effect of sulfur adatoms for H-2 dissociation at low sulfur coverage (Theta(S) less than or equal to 0.25) is mainly governed by the formation of energy barriers, not by blocking of the adsorption sites. For the c(2 x 2) sulfur adlayer (Theta(S)= 0.5), the PES for hydrogen dissociation is purely repulsive. This is due to the fact that for all different possible adsorption geometries the hydrogen molecules come too close.to the sulfur adatoms before the dissociation is completed.

The 13-atom metal clusters of fcc elements (Al, Rh, Ir, Ni, Pd, Pt, Cu, Ag, Au) were studied by density functional theory calculations. The global minima were searched for by the ab initio random structure searching method. In addition to some new lowest-energy structures for Pd13 and Au13, we found that the effective coordination numbers of the lowest-energy clusters would increase with the ratio of the dimer-to-bulk bond length. This correlation, together with the electronic structures of the lowest-energy clusters, divides the 13-atom clusters of these fcc elements into two groups (except for Au13, which prefers a two-dimensional structure due to the relativistic effect). Compact-like clusters that are composed exclusively of triangular motifs are preferred for elements without d-electrons (Al) or with (nearly) filled d-band electrons (Ni, Pd, Cu, Ag). Non-compact clusters composed mainly of square motifs connected by some triangular motifs (Rh, Ir, Pt) are favored for elements with unfilled d-band electrons.

The adsorption and desorption of stilbene on Ag/Ge(111)-(root 3 x root 3)R30 degrees (Ag/Ge(111)-root 3) were investigated using low-energy electron diffraction (LEED), scanning tunneling microscopy (STM), temperature-programmed desorption (TPD), and density functional theory (I)FT). Both trans- and cis-stilbenes form a (2 x 1) overlayer structure on Ag/Ge(111)-root 3 at a coverage of similar to 1 ML. The STM images show parallel strips with three equivalent directions, indicating a self-ordered molecular structure. At a coverage of less than I ML, the TPD of cis-stilbene shows only one peak, attributed to submonolayer desorption. The TPD peaks are indistinguishable for desorption of trans-stilbene from the surface submonolayer and multilayer. This is due to the simultaneous desorption and/or thinning of adsorbed multilayers during the TPD process, as determined from the STM analysis of adsorbed trans-stilbene structures before and after annealing. The TPD traces fit the half-order kinetics for molecular desorption of stilbene from Ag/Ge(111)-root 3 with desorption energies of 20.1 (cis-) and 21.3 kcal/mol (trans-), which are comparable with the calculated values using the DFT method. A plausible explanation for the stilbene desorption process on Ag/Ge(111)-root 3 is proposed and discussed.

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Real-time in situ x-ray studies of continuous Pb deposition on Si(111)-(7x7) at 180 K reveal an unusual growth behavior. A wetting layer forms first to cover the entire surface. Then islands of a fairly uniform height of about five monolayers form on top of the wetting layer and grow to fill the surface. The growth then switches to a layer-by-layer mode upon further deposition. This behavior of alternating layer and island growth can be attributed to spontaneous quantum phase separation based on a first-principles calculation of the system energy.

We have calculated the multiple-scattering x-ray photoemission spectroscopy angular profiles of hcp Co(0001). Layer-by-layer emission contributions are presented, and the focusing directions are identified. Angular transformation of the pattern is performed to obtain real-space images of the nearest-neighbor atoms above the emitters.

Using scanning-tunneling microscopy and first-principles total-energy calculations, we have considered the structural properties of the so-called doped clusters formed by depositing additional 0.05 monolayer of In onto the 4x3-periodicity magic-cluster array in the In/Si(100) system. Low-temperature STM observations have revealed that most of the doped clusters have an asymmetric shape. According to the total-energy calculations, these clusters have plausibly Si6In8 composition. In such a cluster, one of the In atoms is mobile and can hop between four equivalent sites within a cluster. The hopping between sites, located in the different 2ax3a halves of the cluster, is characterized by the barrier of about 0.7 eV, and this hopping becomes frozen at 55 K. In contrast, the hopping between the neighboring sites within the same cluster half persists up to very low temperatures, as the barrier height here is an order of magnitude lower. Due to the above structural properties, the doped asymmetric Si6In8 cluster can be treated as a promising switch, logic gate, or memory cell of the atomic-scale size.

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Atomic structures of the reconstructed Si(113) surfaces were studied by using Kikuchi electron holography (KEH). Three-dimensional images show clearly the characteristics of the puckering model for both Si(113)(3x2) and (3x1) surfaces. The KEH results support the puckering model. Based on bur studies, the tetramers are puckering alternatively in the (3x2) surface. Whereas in (3X1) structures, there are two domains, within each of them, tetramers buckled uniformly, but the overall directions are opposite. When doped with H atoms on a (3x2) surface, the asymmetric tetramers change into symmetric form. [S0163-1829(99)51116-8].

We propose all the diffraction patterns can be directly transformed to provide three-dimensional atomic structures for the system studied. Depending on the scattering process, either the holography or Patterson transform scheme is used. For diffraction patterns which are generated from a localized emitter source or dominated by an inelastic-scattering feature like core-level photoelectron or low-energy Kikuchi electron, holography transform is needed. On the other hand, for diffraction patterns which were dominated by elastic-scattering, like grazing-incidence X-ray diffraction, electron correlated thermal diffuse scattering or low-energy electron diffraction curves, Patterson transform is needed. To prove our point, high-fidelity and artifact-free three-dimensional atomic structures obtained by transform of low-energy Kikuchi electron patterns and low-energy electron diffraction curves are presented. The future of these direct methods by transforming diffraction patterns will be discussed. (C) 2001 Elsevier Science Ltd. All rights reserved.

The work function of atomically uniform Ag films grown on Fe(100) is measured as a function of film thickness. It shows layer-resolved variations as a result of quantum confinement of the valence electrons. A first-principles calculation reproduces the observed variations except for very thin films (one and two monolayers), and the differences can be attributed, in part, to strain effects caused by the lattice mismatch between Ag and Fe. These results illustrate the close interaction between interface effects and surface properties.

Depositing particles randomly on a 1D lattice is expected to result in an equal number of particle pairs separated by even or odd lattice units. Unexpectedly, the even-odd symmetry is broken in the self-selection of distances between indium magic-number clusters on a Si(100)-2 x 1 reconstructed surface. Cluster pairs separated by even units are less abundant because they are linked by silicon atomic chains carrying topological solitons, which induce local strain and create localized electronic states with higher energy. Our findings reveal a unique particle-particle interaction mediated by the presence or absence of topological solitons on alternate lattices.

Using density functional calculations, we demonstrate a catalytic reaction path with activation barriers of less than 0.5 eV for CO oxidation on the neutral and unsupported icosahedral nanoclusters of Au(55), Ag(55), and Au(25)Ag(30). Both CO and O(2) adsorb more strongly on these clusters than on the corresponding bulk surfaces. The reaction path consists of an intermediate involving OOCO complex through which the coadsorption energy of CO and O(2) on these clusters is expected to play an important role in the reaction. Based on the studies for the Au and Ag nanoclusters, a model alloy nanocluster of Au(25)Ag(30) was designed to provide a larger coadsorption energy for CO and O2 and was anticipated to be a better catalyst for CO oxidation from energetic analysis. (C) 2008 American Institute of Physics.

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We have observed simple oscillations in three-dimensional (3D) patterns of electron thermal diffuse scattering (separated from electron-electron energy loss) measured on a Si(001) surface. We interpret these oscillations as coherent interference within a small cluster of atoms in which vibrational correlation within the nearest neighbors (NN) is dominant. A 3D Patterson function analysis of the oscillation reveals the atomic structure of the Si(001) surface consisting of NN pairs including dimers. This finding provides a promising new clue to determine the structures of bulk and the surface of solids.

Experimentally, self-organized Ag planar clusters have been observed on the periodic template found on the Pb quantum islands, which are grown on the Si(111) surface. These planar clusters register a remarkable abundance variation at some specific atomic numbers and possess enhanced stability. They are thus denoted as two-dimensional magic Ag nanoclusters (or nanopucks). In this work, detailed calculations based on ab initio density functional theory are made to illuminate how the size and shape effects related to electronic confinement influence the sequence of these two-dimensional Ag nanostructures. The simulation results demonstrate that the evolution of a sequence of planar magic Ag clusters is strongly correlated with their electronic structures. Meanwhile, the role of substrate in the formation of magic Ag clusters is also examined. The symmetry and size of the periodic pattern on the substrate have helped to build up the distinguishable geometric structures in experiment. Further analysis of the related electronic and geometrical properties of these clusters not only explains the occurrence and sequence of the magic numbers but also helps to elucidate the mechanism of their formation.

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We present first-principles calculations that provide a detailed diffusion picture of an adsorbed Si atom on the Si(111)-(7x7) surface. Several diffusion paths for the adsorbed Si atom are established by mapping out the total energy as a function of its positions on the surface. For diffusion between the faulted and unfaulted halves, the energy barriers range from 0.96 to 1.21 eV, while remarkable low-energy barriers from 0.3 to 0.7 eV are discovered within the faulted and unfaulted regions.

Scanning tunneling microscopy (STM) observations of the close-packed C60 fullerene arrays on Si(111)
R3xR3-Ag surface have revealed the presence of dim C60 molecules which constitute 9–12% of all fullerenes. The dim C60 fullerenes reside  1.6 A lower than the bright (“normal”) C60.While the brightC60 are in continuous rotation, the dim C60 are fixed in one of the single orientations, indicating a more tight bonding to the surface. At room temperature (RT), the dynamic switching from bright to dim C60 and vice versa has been detected. Switching slows down with decreasing temperature and becomes completely frozen at 110 K, which implies that the switching is a thermally driven process. RT deposition of  0.1 monolayer of Ag onto C60 array eliminates completely the dim C60 molecules. Experimental results can be understood if one assumes that formation of the dim C60 is associated with disintegration of Ag trimer on Si(111)R3xR3- Ag surface under a given C60 fullerene.

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We demonstrate a direct surface structural tool with high resolution of approximately 1 angstrom in all directions by direct Fourier transformation of measured Kikuchi patterns using a multiple-energy phase-summing method. In this method, with an integral over continuous energy spectra in each direction, both the forward- and backward-scattering oscillations are selected for Fourier transformation by varying the energy range and size of the grid. High-fidelity and artifact-free three-dimensional images of Ag atoms for (100) and (111) single-crystal surfaces are obtained.

A multiple-energy phase-summing method is applied to diffuse low-energy electron diffraction intensity spectra to obtain three-dimensional images of surface atoms. In this demonstration, calculated DLEED intensity spectra from a multiple scattering method are directly inverted to produce high-fidelity 3D images of near-neighbor atoms measured from an adatom. No prior knowledge of adsorption site, bond length, bond angle, or type of atom is needed. The images are essentially free from artifacts and have a spatial resolution of approximately 1 angstrom when viewed along any cut-plane. These results demonstrate that holographic DLEED has the potential of being an accurate and direct structural tool for low-density disordered adsorption systems.

A simple oscillatory intensity variation in medium-energy electron diffraction found recently [Abukawa ei al., Phys. Rev. Lett. 82, 335 (1999)] was termed correlated thermal diffuse scattering (CTDS). The potential of CTDS as a direct surface structural tool has been fully explored for the Si(001)2 X 1 surface at 300 K in a very-grazing-incidence condition. Nearly 2 pi solid-angle, three-dimensional (3D) CTDS patterns were measured for an energy range of 500-2000 eV. The 3D Patterson functions obtained by Fourier inversion of the measured CTDS patterns clearly revealed the building blocks of the Si(001)2 X 1 surface, i.e., the bond orientations and lengths of the buckled Si dimers, within an accuracy of 1 degrees and 0.1 Angstrom, respectively.

We report the first atomically resolved images of ordered Au trimers on Si(111)root 3X root 3R30 degrees-Au using wave-front reconstruction of scanned-energy glancing-angle Kikuchi electron spectra. Each Au image has a resolution (full width at half magnitude) of less than 1 Angstrom. The images indicate that Au trimers art ordered and nonrotated within the surface plane and with respect to the second-layer Si plane providing direct evidence of the conjugate honeycomb-chained-trimer model for the Au-root 3 system.

More than 50 symmetry-inequivalent emitter-scatterer (E-S) pairs were observed for the Si(111)-(7 x 7) surface using Kikchi electron holography (KEH) with various incident/detection configurations. For different configurations, the E-S pairs in the backscattering direction are preferentially enhanced. Thus, one can obtain detailed structural information by changing the incident/detection direction, which will be helpful in sorting out the correct surface structure model.

We demonstrate that two-dimensionally resolved diffuse low-energy electron diffraction intensities can be measured with sufficient accuracy and at multiple energies to allow direct inversion for a low coverage (5%) disordered K/Ni(100) surface. The data inversion reveals three-dimensional coordinates of atoms with atom images whose full width at half maximum is less than 1 angstrom in all spatial directions. By varying the angle of incidence, first layer and second layer near-neighbor Ni atoms are separately imaged. This is the first demonstration of multiple-energy internal-source electron holography using measured elastically backscattered electrons.

A Patterson-like scheme is proposed for direct inversion of the conventional low-energy electron diffraction (LEED) intensity versus energy I(E) curves, which is in contrast with the previously suggested holographic scheme. Using the Si(111)-(7 X 7) and Si(113)-(3 X 2) surfaces as examples, high quality three-dimensional images, with a resolution better than 0.5 Angstrom, of both surface atoms and bulk atoms are obtained from the direct Patterson inversion of LEED-I(E) curves with the integral-energy phase-summing method.

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We have studied the properties of quantum well states in supported Ag(100) films on the Fe substrate by first-principles density-functional calculations. The energies of these quantum well states as a function of thickness N are examined in terms of the characteristic phase shift of the electronic wave function at the interface. These energy-dependent phase shifts are determined numerically for both the film-substrate and film-vacuum interfaces. It is also found that the substrate has a major effect on film stability, enhancing the stability of the N=5 film and reversing that of the N=2 film.

Direct inversion of measured Kikuchi and simulated photoelectron diffraction patterns shows clear images of the neighboring atoms within the range of the electron mean free path. More than ten nearby atoms are obtained for the Ag(100), Si(100) and (2X1) Na/Si(100) systems by the integral-energy phase-summing method. The key point in removing artifacts is a correct role of background subtraction. When this is achieved, the three-dimensional images are essentially high fidelity and artifact free. This demonstrates that electron-emission holography can be used as a direct local structural probe.

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Electrical conduction mechanism in ultrathin Pb (111) films formed on the Si(111)root 3x root 3-Pb surface has been investigated by means of in situ conductivity measurements, angle-resolved photoemission spectroscopy, and first-principles calculations. To investigate the origin of the bilayer oscillation observed in the present conductivity measurement, we perform some simulations based on the calculated band structure. They reveal that the density of states near the Fermi level cannot explain the bilayer oscillation, therefore, exclusively assigning it to the relaxation time. Surface roughness during the bilayer film growth seems to play a crucial role in the bilayer oscillation of the relaxation time.