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1,179 results for “Probe”
Anti-symmetric Compton scattering in LiNiPO$_4$: Towards a direct probe of the magneto-electric multipole moment
<p>Data files and photos related to publication: 'Anti-symmetric Compton scattering in LiNiPO$_4$: Towards a direct probe of the magneto-electric multipole moment'</p>
Atom probe tomography nomad-FAIR demonstrator dataset R76-30057-v01.epos.apth5
<p>This is the dataset of an atom probe tomography experiment which is provided open source for testing the possibility of implementing an open source encyclopedia for experimental materials science datasets, including techniques to begin with such as Scanning Transmission Electron Microscopy (STEM), Multidimensional Photo Emission Spectroscopy (MPES), and Atom Probe Tomography (APT) / Field Ion Microscopy (FIM).</p> <p><strong>This repository serves three aims:</strong></p> <p>1. The dataset is of scientific interest. Specifically, it captures the result of a cutting-edge APT experiment whose details are going to be reported in an upcoming publication by Shyam Katnagallu and coworkers.</p> <p>2. The dataset contributes to tests of an extension to "The NOMAD Laboratory" (https://nomad-coe.eu/): nomad-FAIR. Specifically, to test various aspects of an automatized metadata parsing and processing pipeline to enable the extraction of domain-specific JSON metadata files into a NOMAD-conformant JSON file, ultimately aiming for searchable and repurposable dataset documentation. This serves two purposes: on the one hand to contextualize each dataset within NOMAD. On the other hand to serve as a starting point to parse potential interesting content from the heavy data HDF5 file to reduce unnecessary file access.<br> The implementation of nomad-FAIR is coordinated by Markus Scheidgen.<br> The APT domain-specific parser is developed by Markus Kühbach.</p> <p>3. The dataset constitutes further a test of an open format specification for storing atom probe tomography data using the Hierarchical Data Format (HDF5). This is a recent initiative of the International Field Emission Society's (IFES) atom probe tomography technical committee. In this repository it is detailed an exemplar proposal of how to store acquisition-side relevant results and context of an APT experiment into a HDF5 file and complementary metadata files such as JSON. Implementation of this HDF5-based storage solution for APT data is lead by Markus Kühbach.</p> <p><strong>The organization of this repository with respect to above aims is as follows:</strong></p> <p>-The original EPOS file of the measured is contained in the compressed *.epos.tar.gz archive.</p> <p>-The *.apth5 file is a transcoded version of the EPOS file. Therein, x,y,z data columns are stripped.</p> <p>-The correspondingly named *.json file is the file which nomad-FAIR parses metadata from.</p> <p>-Other files constitute logs of the transcoding process.</p> <p><br> <strong>Funding:</strong><br> The work was partially supported by BiGmax, the Max Planck Society's Research Network on Big-Data-Driven Materials-Science.</p>
Atom probe tomography nomad-FAIR demonstrator dataset R76-31053-v01.epos.apth5
<p>This is the dataset of an atom probe tomography experiment which is provided open source for testing the possibility of implementing an open source encyclopedia for experimental materials science datasets, including techniques to begin with such as Scanning Transmission Electron Microscopy (STEM), Multidimensional Photo Emission Spectroscopy (MPES), and Atom Probe Tomography (APT) / Field Ion Microscopy (FIM).</p> <p><strong>This repository serves three aims:</strong></p> <p>1. The dataset is of scientific interest. Specifically, it captures the result of a cutting-edge APT experiment detailed in an upcoming paper by Ye Wei and coworkers.</p> <p>2. The dataset contributes to testing an extension of "The NOMAD Laboratory" (https://nomad-coe.eu/): nomad-FAIR. Specifically, to test various aspects of its automatized metadata parsing and processing pipeline to enable the extraction of domain-specific JSON metadata files into a NOMAD-conformant JSON file, ultimately aiming for searchable and repurposable dataset documentation. This serves two purposes: on the one hand to contextualize each dataset within NOMAD. On the other hand to serve as a starting point to parse potential interesting content from the heavy data HDF5 file to reduce unnecessary file access.<br> The implementation of nomad-FAIR is coordinated by Markus Scheidgen.<br> The APT domain-specific parser is developed by Markus Kühbach.</p> <p>2. The dataset constitutes further a test of an open format specification for storing atom probe tomography data using the Hierarchical Data Format (HDF5). This is a recent initiative of the International Field Emission Society's (IFES) atom probe tomography technical committee. In this repository it is detailed an exemplar proposal of how to store acquisition-side relevant results and context of an APT experiment into a HDF5 file and complementary metadata files such as JSON. Implementation of this HDF5-based storage solution for APT data is lead by Markus Kühbach.</p> <p><br> <strong>The organization of this repository with respect to above aims is as follows:</strong></p> <p>-The original EPOS file of the measured is contained in the compressed *.epos.tar.gz archive.</p> <p>-The *.apth5 file is a transcoded version of the EPOS file. Therein, x,y,z data columns are stripped.</p> <p>-The correspondingly named *.json file is the file which nomad-FAIR parses metadata from.</p> <p>-Other files constitute logs of the transcoding process.</p> <p><br> <strong>Funding:</strong><br> The work was partially supported by BiGmax, the Max Planck Society's Research Network on Big-Data-Driven Materials-Science.</p>
Dataset related to "Atomic Force Microscope with an Adjustable Probe Direction and Integrated Sensing and Actuation"
<p>These original measurement data relate to the publication: J. Schaude, T. Hausotte: Atomic Force Microscope with an Adjustable Probe Direction and Integrated Sensing and Actuation, Nanomanufacturing and Metrology 5, pp. 519-148, <a href="https://doi.org/10.1007/s41871-022-00143-9">https://doi.org/10.1007/s41871-022-00143-9</a>. Please refer to this open access publication for a detailed description of the measurement setup and procedure.</p> <p>All data are in ASCII-format. Each file contains six columns, where column one to three are the <em>x</em>, <em>y</em>, and <em>z</em>-coordinates of the positioning system, column four is the demodulated signal of the AFM (<em>R</em><sub>AFM</sub>) and columns five and six are the raw signals of the <em>z</em>-interferometer (<em>Q</em><sub>A</sub> and <em>Q</em><sub>B</sub>).</p> <p><strong>Content of the folders</strong></p> <p>10_Calibrations: Repeated calibration of the AFM against the <em>z</em>-interferometer of the NMM-1.</p> <p>20_Standstill-Measurements: Three standstill measurements for 90 s each.</p> <p>30_Long-Term-Precision: Standstill measurements for 15 s every 10 min for in sum 18 hours.</p> <p>40_Scans: Repeated closed-loop scans on a calibration grating.</p> <p>50_SINCOS: Repeated movement of the stage in z-direction for 2 µm with the cantilever being in free air just before the sample.</p> <p><strong>Acknowledgement</strong></p> <p>This project was funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) –TRR 285 -Project-ID 418701707, subproject C05</p>
Dataset for Fast Li-ion Storage and Dynamics in TiO2 Nanoparticle Clusters Probed by Smart Scanning Electrochemical Cell Microscopy
<p>This dataset provides the raw data to the manuscript </p> <p><strong>"Fast Li-ion Storage and Dynamics in TiO<sub>2</sub> Nanoparticle Clusters Probed by Smart Scanning Electrochemical Cell Microscopy"</strong> published in Angewandte Chemie International Edition.</p> <p>Specifically, the following measurements are provided:</p> <ul> <li>Powder XRD data for the commercial anatase TiO<sub>2</sub>.</li> <li>Cyclic voltammetry data from SECCM measurements.</li> <li>SEM images of the TiO<sub>2</sub> nanoparticles after SECCM tip landing and electrochemical measurement.</li> </ul>
Wideband acoustic transceiver data from probe attached to rosette on PolarFront 2022-05 cruise
<p><strong>PolarFront 2022-05 WBAT/Rosette</strong></p> <p>Proprietary echosounder files and mission plan from Kongsberg Maritime WBT tranceiver EKA, serial number 253119.</p> <p>Time coverage: 2022-05-20T04:32:12Z/2022-05-25-T12:30:06Z</p> <p>Size: 2.8GiB</p> <blockquote> <p><strong>Acoustic probe (WBAT)</strong><br> At some stations we deployed an acoustic probe composed of a Wideband Acoustic<br> Transceiver (WBAT; Kongsberg Maritime AS) mounted on the LOPC rosette frame and connected to<br> a sideward-looking 38 kHz split beam transducer (Model ES38-18DK; 36-45 kHz) and a sideward-<br> looking 333 kHz single beam transducer (Model ES333-7CDK-single; 280-380 kHz), both operated in<br> broadband mode split-beam wideband (Figure 1c). The ping rate was set to 1 second, the range to 50<br> m, the pulse length to 2,048 µs, and power to 225 W at 38kHz and 38 W at 333 kHz. The WBAT was<br> calibrated in January 2022. The time of the WBAT was synchronized with the LOPC-CTD to extract<br> the exact depth at each ping.</p> </blockquote> <p>For a list of probe stations, see M Daase (ed., 2022, table 4.1, p. 32).</p> <p><strong>References</strong></p> <p>Malin Daase (ed.) (2022). <a href="https://doi.org/10.5281/zenodo.7128746">PolarFront May 2022 Cruise Report</a>. Zenodo. https://doi.org/10.5281/zenodo.7128746</p>
Probing temperature-responsivity of microgels and its interplay with a solid surface by superresolution microscopy and numerical simulations
<p>This dataset supports the publication ' Probing temperature-responsivity of microgels and its interplay with a solid surface by super resolution microscopy and numerical simulations' published on ACS Nano. DOI: https://doi.org/10.1021/acsnano.2c07569</p>
Sustainable recovery of critical elements from seawater saltworks bitterns by integration of high selective sorbents and reactive precipitation and crystallisation: Developing the probe of concept with on-site produced chemicals and energy
<p>The availability of raw mineral resources containing elements included in the Critical Raw Materials (CRMs) list is a growing concern for the European Union. Sea mining has been identified as a promising secondary source. In particular, brines obtained in solar saltworks (bitterns) contain relevant amounts of valuable CRMs such as Mg(II), B(III), other alkaline/alkaline earth metals (Rb(I), Cs(I), Sr(II)) and transition/post-transition elements (Co(II), Ga(III), Ge(IV)). However, the low concentration of some of these elements (µg/L) requires an effort to develop recovery routes that are sustainable and economically feasible where the required chemicals and energy are produced on-site from the saltworks bitterns (i.e. HCl and NaOH). Even the conventional recovery processes such as ion exchange, sorption and precipitation, which have proved to be competitive for metals recovery, are challenged in the case of Trace Elements (TEs). This work studies the recovery of TEs included in the CRMs list from saltworks bitterns after ion exchange processes. First, batch crystallisation and reactive precipitation were tested for some target elements in single-component solutions: Sr(II), Co(II), Ga(III), Ge(IV) and B(III). Then, the experiments were carried out with multi-component synthetic solutions assuming different scenarios of bittern streams coming out a selective extraction stage using sorption and ion exchange processes. The targeted elements were recovered except for Ge(IV), where alternative routes need to be evaluated, as its precipitation involves the use of tannic acid or sulphide solutions that could not be produced from the bitterns. However, a further concentration step would be necessary to achieve element concentrations closer to the mineral phases saturation. Moreover, model simulations were performed using the PHREEQC program, which provided a good prediction of the experimental trends obtained in most cases.</p>
Correcting for probe wandering by precession path segmentation
<p>Scanning precession electron diffraction datasets and processing scripts used in the journal publication "<strong>Correcting for probe wandering by precession path segmentation</strong>".</p> <p>DOI link to publication: <a href="http://doi.org/10.1016/j.ultramic.2023.113715">https://doi.org/10.1016/j.ultramic.2023.113715</a></p> <p> </p> <p><strong>Prerequisites</strong></p> <p>To run the scripts necessary to process the data, the open source packages JupyterLab and HyperSpy need to be installed. These notebooks were created with these package versions:</p> <ul> <li>hyperspy 1.6.4</li> <li>jupyterlab 3.2.0</li> </ul> <p> </p> <p><strong>Data files</strong></p> <p>There are three data types:</p> <ul> <li>Scanning precession electron diffraction (SPED) datasets contain the .hspy extension. There are two SPED datasets acquired by precession path segmentation, and one regular dataset: <ul> <li><em>SPED_256x256_22x22_10186nm_NBD_a5_spot1nm_CL20cm_125msExp_3000msFB_subframing_x8_pivotoff_01.hspy</em> is a precession path segmentation dataset presented in figure 2 in the article.</li> <li><em>SPED_zoom1_256x256_12x12_5556nm_NBD_a5_spot1nm_CL20cm_10msExp_3000msFB_subframing_x8.hspy</em> is a precession path segmentation dataset presented in figures 1 and 3 in the article.</li> <li><em>SPED_zoom1_256x256_12x12_5556nm_NBD_a5_spot1nm_CL20cm_10msExp_300msFB.hspy</em> is a regular SPED dataset of the same region as the dataset just above (also containing "zoom1" in its name).</li> </ul> </li> <li>A series of diffraction patterns with de-rocking switched off can be found in the <em>eight_segments.npy</em> file. This dataset was recorded by Dr. Tina Bergh at Department of Chemical Engineering, Norwegian University of Science and Technology, and is meant to be used as an illustration of the precession segments used in figure 1 in the article.</li> <li>Virtual bright field images of the precession path segmented scans, before and after rigid correction in SmartAlign, can be found with the .png extension. The files starting with "pivot01..." are images from the precession path segmentation scan with an intentional pivot point misalignment, while the files starting with "small..." are from the well aligned scan. The files ending with "_reg" are regular, i.e., non-corrected compound VBF images, while the files ending with "_cor" are SmartAlign rigidly corrected VBF images.</li> </ul> <p> </p> <p><strong>Processing scripts</strong></p> <p>There are two processing scripts:</p> <ul> <li><em>p01_slicing_segments.ipynb</em> is used to process the precession path segmentation datasets, from slicing of the raw data to constructing virtual bright field images.</li> <li><em>p02_image_processing.ipynb</em> is used to create the images found in the article and for image analysis. The latter includes blur quantification and measuring edge sharpness.</li> </ul> <p> </p>
(new version data) Probing the atomically diffuse interfaces in core-shell nanoparticles in three dimensions
<p><strong>Deciphering the three-dimensional atomic structure of solid-solid interfaces in core-shell nanomaterials is the key to understand their remarkable catalytical, optical and electronic properties. Here, we probe the three-dimensional atomic structures of palladium-platinum core-shell nanoparticles at the single-atom level using atomic resolution electron tomography. We successfully quantify the rich structural variety of core-shell nanoparticles with heteroepitaxy in 3D at atomic resolution. Instead of forming an atomically-sharp boundary, the core-shell interface is atomically diffuse with an average thickness of 4.2 Å, irrespective of the particle's morphology or crystallographic texture. We observed dissolved free Pd and Pt single atoms and sub-nanometer clusters using cryogenic electron microscopy. The high concentration of Pd in the diffusive interface is highly related to the free Pd atoms dissolved from the Pd seeds. These results advance our understanding of core-shell structures at the fundamental level, providing potential strategies into precise nanomaterial manipulation and chemical property regulation.</strong></p> <p> </p> <p>The data and source codes for the paper "Probing the atomically diffuse interfaces in core-shell nanoparticles in three dimensions" are posted below.</p> <p><strong># Repositary Contents</strong></p> <p><strong>### 1. Experiment Data</strong></p> <p>Folder: [Measured_data](./1_Measured_data)</p> <p>This folder contains denoised and aligned ADF-STEM projections and corresponding finalized tilt angles for three Pd@Pt core-shell nanoparticles. Three particles are named PB (pentagonal bipyramid shaped), EPB (elongated pentagonal bipyramid shaped) and TO (truncated octahedron shaped), respectively.</p> <p><strong>### 2. Reconstructed 3D Volume</strong></p> <p>Folder: [Final_reconstruction_volume](./2_Final_reconstruction_volume)</p> <p>This folder contains 3D tomographic reconstruction volumes of three particles. For the source code of RESIRE algorithm used in these reconstructions, please see the [source code](https://github.com/AET-MetallicGlass/Supplementary-Data-Codes/tree/master/2_RESIRE_package) of Yao Yang's paper on github.</p> <p><strong>### 3. Atom Tracing and Classification</strong></p> <p>Folder: [Tracing_and_classification](./3_Tracing_and_classification)</p> <p>This folder contains the source code to trace and classify atoms in the 3D volume.</p> <p><strong>### 4. Experimental Atomic Models</strong></p> <p>Folder: [Final_coordinates](./4_Final_coordinates)</p> <p>This folder contains the final coordinates of three nanoparticles.</p> <p><strong>### 5. Analysis of core-shell interface and others</strong></p> <p>Folder: [Analysis_of_interface](./5_Analysis_of_interface)</p> <p>This folder contains the codes to analyse the pair distribution function (PDF), the core-shell interface, the local coordination structure (PTM), the displacement and strain map of three nanoparticles.</p>
Silica in Silico: a Molecular Dynamics Characterization of the Early Stages of Protein Embedding for Atom Probe Tomography
<p>The .zip archive contains the trajectories of all the simulations performed and analysed within the manuscript. The water molecules were removed for control systems.</p>
To design, or not to design? Comparison of beetle ultraconserved element probe set utility based on phylogenetic distance, breadth, and method of probe design
<p>This repository contains Materials and designed UCE probe sets for the manuscript entitled "To design or not to design? Comparison of beetle ultraconserved element probe set utility based on phylogenetic distance, breadth, and method of probe design".</p>
Data for 'Probing resonating valence bonds on a programmable germanium quantum simulator' by Chien-An Wang et al.
<p>Data and python scripts for 'Probing resonating valence bonds on a programmable germanium quantum simulator' by Chien-An Wang et <em>al</em>.</p> <p>Corresponding authors Corentin Déprez (C.C.Deprez@tudelft.nl) // Menno Veldhorst (M.Veldhorst@tudelft.nl)</p>
Crystallinity and perfection in ethylene vitrimers probed by combined calorimetry, scattering, and time-domain NMR
<p>This Dataset comprises the raw data contained in the figures of our journal article in <em>Frontiers in Soft Matter </em>(DOI: 10.3389/frsfm.2023.1208777)<em>. </em>We provide a preprint of the article for reference to the figures and their captions, necessary to use the data. For copyright details and licensing we refer to the original article and the publisher. Here is the abstract of the article:</p> <p>The kinetics of crystallization and crystal-crystal transformations in ethylene vitrimers are studied by time-domain NMR. These vitrimers previously exhibited polymorphic transition of crystal structures, which are shown here to be distinguishable by NMR via their dipolar line widths based upon different proton densities and fast internal motions. The conditions under which the polymorphs are formed and interconvert are identified via time-resolved NMR experiments, with a focus on recrystallization after full and partial melting. DSC experiments are used to clarify an unexpected superheating effect, which challenges the determination of actual melting points. We further identify a strong memory effect in isothermal (re)crystallization. Implications of the dynamic nature of the vitrimers in relation to the kinetics of crystallization are discussed. We find that internal perfecting of crystals, enabled by the vitrimeric exchange process, can have a large effect on the DSC-detected melting enthalpy without change in overall crystallinity.</p>
Dataset for "Computer vision assisted decomposition analysis of atom probe tomography data"
<p>Dataset for the article "Computer vision assisted decomposition analysis of atom probe tomography data". APT measurements were performed by Marcus Hans at Materials Chemistry (RWTH Aachen University) using a CAMECA LEAP 4000X HR. Training data was created by Janis A. Sälker.</p> <p>Content:</p> <p>- 13 (V,Al)N and 3 (Ti,Al)N APT reconstructions (.epos file format) and the corresponding range file (.rrng file format).</p> <p>- Training data (images & masks) for 9 labeled (V,Al)N APT samples (h5 file format). Image data with key "image" of shape (2, number_of_slices, 608, 192), where 2 corresponds to the V- and Al-contribution/channel and 608/192 to the height/width of the images. Masks/labels with key "label" of shape (number_of_slices, 608, 192)</p> <p> </p>
Data for: Probing visual sensitivity and attention in mice using reverse correlation
<p>Visual attention allows the brain to evoke behaviors based on the most important visual features. Mouse models offer immense potential to gain a circuit-level understanding of this phenomenon, yet, how mice distribute attention across features and locations is not well understood. Here, we describe a new approach to address this limitation, by training mice to detect weak vertical bars in a background of checkerboard noise while spatial cues manipulated their attention. By adapting a reverse correlation method from human studies, we linked behavioral decisions to stimulus features and locations. We show that mice voluntarily deploy attention to a small rostral region of the visual field. Within this region, mice attended to multiple features (orientation, spatial frequency, contrast) that indicated the presence of weak vertical bars. This attentional tuning grew with training, multiplicatively scaled behavioral sensitivity, approached that of an ideal observer, and resembled the effects of attention in humans. Taken together, we demonstrate that mice can simultaneously attend to multiple features and locations of a visual stimulus.</p>
Strain, Young's modulus, and structural transition of EuTiO3 thin films probed by micro-mechanical methods (Dataset)
<p>Datafiles of the Article "Strain, Young’s modulus, and structural transition of EuTiO3 thin films probed by micro-mechanical methods (Dataset)"</p>
Supplemental files to: Probe-based quantitative PCR and RPA-Cas12a molecular diagnostics for detection of the tomato pest Phthorimaea absoluta (Lepidoptera: Gelechiidae)
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A two-tier bioinformatic pipeline to develop probes for target capture of nuclear loci with applications in Melastomataceae
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Data for: Probing visual sensitivity and attention in mice using reverse correlation
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Allen Brain Atlas
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International Brain Laboratory public data
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OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.