Browse
Submit Data
Databases
API
Help

Dataset Information

31 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Experimentally obtained and computer-simulated X-ray asymmetric eight-beam pinhole topographs for a silicon crystal.

ABSTRACT: In this study, experimentally obtained eight-beam pinhole topographs for a silicon crystal using synchrotron X-rays were compared with computer-simulated images, and were found to be in good agreement. The experiment was performed with an asymmetric all-Laue geometry. However, the X-rays exited from both the bottom and side surfaces of the crystal. The simulations were performed using two different approaches: one was the integration of the n-beam Takagi-Taupin equation, and the second was the fast Fourier transformation of the X-ray amplitudes obtained by solving the eigenvalue problem of the n-beam Ewald-Laue theory as reported by Kohn & Khikhlukha [Acta Cryst. (2016), A72, 349-356] and Kohn [Acta Cryst. (2017), A73, 30-38].

SUBMITTER: Okitsu K

PROVIDER: S-EPMC6492489 | biostudies-literature | 2019 May

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Experimentally obtained and computer-simulated X-ray asymmetric eight-beam pinhole topographs for a silicon crystal.

Okitsu Kouhei K Imai Yasuhiko Y Yoda Yoshitaka Y Ueji Yoshinori Y

Acta crystallographica. Section A, Foundations and advances 20190430 Pt 3

In this study, experimentally obtained eight-beam pinhole topographs for a silicon crystal using synchrotron X-rays were compared with computer-simulated images, and were found to be in good agreement. The experiment was performed with an asymmetric all-Laue geometry. However, the X-rays exited from both the bottom and side surfaces of the crystal. The simulations were performed using two different approaches: one was the integration of the n-beam Takagi-Taupin equation, and the second was the f ...[more]

PMID: 31041903

Similar Datasets

Experimentally obtained and computer-simulated X-ray non-coplanar 18-beam pinhole topographs for a silicon crystal.

Project description:Non-coplanar 18-beam X-ray pinhole topographs for a silicon crystal were computer simulated by fast Fourier transforming the X-ray rocking amplitudes that were obtained by solving the n-beam (n = 18) Ewald-Laue dynamical theory (E-L&FFT method). They were in good agreement with the experimentally obtained images captured using synchrotron X-rays. From this result and further consideration based on it, it has been clarified that the X-ray diffraction intensities when n X-ray waves are simultaneously strong in the crystal can be computed for any n by using the E-L&FFT method.

| S-EPMC6492490 | biostudies-literature

Geometrical structure data of nanoporous carbon systems obtained from computer simulated pyrolysis.

Project description:This article contains data on nanoporous carbon materials coming from lignocellulosic components. Such data is directly related to the research paper "Insights into the design of carbon electrodes coming from lignocellulosic components pyrolysis with potential application in energy storage devices: A combined in silico and experimental study" [1]. In this work, the geometrical parameters of nanoporous carbon systems were found with Molecular Dynamics (MD) simulations at the ReaxFF level. The tridimensional structures of such carbon systems are given in Cartesian coordinates. They were computed at different heating rates, simulating the conditions observed in pyrolysis processes of Agave angustifolia leaves, which were carried out in a solar furnace. Nanoporous carbon systems are characterized with radial distribution functions (RDF) and ring distribution profiles.

| S-EPMC6454095 | biostudies-literature

Rhodium-catalyzed asymmetric synthesis of silicon-stereogenic silicon-bridged arylpyridinones.

Project description:A rhodium-catalyzed regio- and enantioselective synthesis of silicon-stereogenic silicon-bridged arylpyridinones has been developed through [2 + 2 + 2] cycloaddition of silicon-containing prochiral triynes with isocyanates. High yields and enantioselectivities have been achieved by employing an axially chiral monophosphine ligand, and this process could be applied to catalytic asymmetric synthesis of silicon-stereogenic chiral polymers for the first time. The reaction mechanism of the present catalysis has also been experimentally investigated to establish a reasonable catalytic cycle, advancing the mechanistic understanding of the rhodium-catalyzed pyridinone synthesis by [2 + 2 + 2] cycloaddition reactions.

| S-EPMC5975726 | biostudies-literature

Electron-Beam Manipulation of Silicon Dopants in Graphene.

Project description:The direct manipulation of individual atoms in materials using scanning probe microscopy has been a seminal achievement of nanotechnology. Recent advances in imaging resolution and sample stability have made scanning transmission electron microscopy a promising alternative for single-atom manipulation of covalently bound materials. Pioneering experiments using an atomically focused electron beam have demonstrated the directed movement of silicon atoms over a handful of sites within the graphene lattice. Here, we achieve a much greater degree of control, allowing us to precisely move silicon impurities along an extended path, circulating a single hexagon, or back and forth between the two graphene sublattices. Even with manual operation, our manipulation rate is already comparable to the state-of-the-art in any atomically precise technique. We further explore the influence of electron energy on the manipulation rate, supported by improved theoretical modeling taking into account the vibrations of atoms near the impurities, and implement feedback to detect manipulation events in real time. In addition to atomic-level engineering of its structure and properties, graphene also provides an excellent platform for refining the accuracy of quantitative models and for the development of automated manipulation.

| S-EPMC6089495 | biostudies-literature

Simulated sample heating from a nanofocused X-ray beam.

Project description:Recent developments in synchrotron brilliance and X-ray optics are pushing the flux density in nanofocusing experiments to unprecedented levels, which increases the risk of different types of radiation damage. The effect of X-ray induced sample heating has been investigated using time-resolved and steady-state three-dimensional finite-element modelling of representative nanostructures. Simulations of a semiconductor nanowire indicate that the heat generated by X-ray absorption is efficiently transported within the nanowire, and that the temperature becomes homogeneous after about 5?ns. The most important channel for heat loss is conduction to the substrate, where the heat transfer coefficient and the interfacial area are limiting the heat transport. While convective heat transfer to air is significant, the thermal radiation is negligible. The steady-state average temperature in the nanowire is 8?K above room temperature at the reference parameters. In the absence of heat transfer to the substrate, the temperature increase at the same flux reaches 55?K in air and far beyond the melting temperature in vacuum. Reducing the size of the X-ray focus at constant flux only increases the maximum temperature marginally. These results suggest that the key strategy for reducing the X-ray induced heating is to improve the heat transfer to the surrounding.

| S-EPMC5580787 | biostudies-literature

Morphological Response of Eight Quercus Species to Simulated Wind Load.

Project description:Leaf shape, including leaf size, leaf dissection index (LDI), and venation distribution, strongly impacts leaf physiology and the forces of momentum exerted on leaves or the canopy under windy conditions. Yet, little has been known about how leaf shape affects the morphological response of trees to wind load. We studied eight Quercus species, with different leaf shapes, to determine the morphological response to simulated wind load. Quercus trees with long elliptical leaves, were significantly affected by wind load (P< 0.05), as indicted by smaller specific leaf area (SLA), stem base diameter and stem height under windy conditions when compared to the control. The Quercus trees with leaves characterized by lanceolate or sinuous edges, showed positive morphological responses to wind load, such as bigger leaf thickness, larger stem diameter, allocation to root biomass, and smaller stem height (P< 0.05). These morphological responses to wind can reduce drag and increase the mechanical strength of the tree. Leaf dissection index (LDI), an important index of leaf shape, was correlated with morphological response to wind load (P< 0.05), including differences in SLA, in stem base diameter and in allocation to root biomass. These results suggest that trees with higher LDI, such as those with more and/or deeper lobes, are better adapted to wind load.

| S-EPMC5035066 | biostudies-literature

Versatile method for quantifying and analyzing morphological differences in experimentally obtained images.

Project description:Analyzing high-resolution images to gain insight into anatomical properties is an essential tool for investigation in many scientific fields. In plant biology, studying plant phenotypes from micrographs is often used to build hypotheses on gene function. In this report, we discuss a bespoke method for inspecting the significance in the differences between the morphologies of several plant mutants at cellular level. By examining a specific example in the literature, we will detail the approach previously used to quantify the effects of two gene families on the vascular development of hypocotyls in Arabidopsis thaliana. The method incorporates a MATLAB algorithm and statistical tools which can be modified and enhanced to tailor to different research questions in future studies.

| S-EPMC7012139 | biostudies-literature

Beam

Project description:Beam

| PRJEB60224 | ENA

Mechanism of Electron-Beam Manipulation of Single-Dopant Atoms in Silicon.

Project description:The precise positioning of dopant atoms within bulk crystal lattices could enable novel applications in areas including solid-state sensing and quantum computation. Established scanning probe techniques are capable tools for the manipulation of surface atoms, but at a disadvantage due to their need to bring a physical tip into contact with the sample. This has prompted interest in electron-beam techniques, followed by the first proof-of-principle experiment of bismuth dopant manipulation in crystalline silicon. Here, we use first-principles modeling to discover a novel indirect exchange mechanism that allows electron impacts to non-destructively move dopants with atomic precision within the silicon lattice. However, this mechanism only works for the two heaviest group V donors with split-vacancy configurations, Bi and Sb. We verify our model by directly imaging these configurations for Bi and by demonstrating that the promising nuclear spin qubit Sb can be manipulated using a focused electron beam.

| S-EPMC8327312 | biostudies-literature

Direct-Write Lithiation of Silicon Using a Focused Ion Beam of Li.

Project description:Electrochemical processes that govern the performance of lithium ion batteries involve numerous parallel reactions and interfacial phenomena that complicate the microscopic understanding of these systems. To study the behavior of ion transport and reaction in these applications, we report the use of a focused ion beam of Li+ to locally insert controlled quantities of lithium with high spatial resolution into electrochemically relevant materials in vacuo. To benchmark the technique, we present results on direct-write lithiation of 35 nm thick crystalline silicon membranes using a 2 keV beam of Li+ at doses up to 1018 cm-2 (104 nm-2). We confirm quantitative sub-?m control of lithium insertion and characterize the concomitant morphological, structural, and functional changes of the system using a combination of electron and scanning probe microscopy. We observe saturation of interstitial lithium in the silicon membrane at ?10% dopant number density and spillover of excess lithium onto the membrane's surface. The implanted Li+ is demonstrated to remain electrochemically active. This technique will enable controlled studies and improve understanding of Li+ ion interaction with local defect structures and interfaces in electrode and solid-electrolyte materials.

| S-EPMC6760045 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data