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Dynamic 3D X-ray micro-CT data of a tablet dissolution in a water-based gel with dynamic changes in the scanning geometry
<p><strong>Summary</strong></p> <p>This submission contains a dynamic tomographic X-ray data of a tablet dissolving in a water-based gel. The data is collected over a 5-minute period during which the sample is rotated rapidly as effervescent bubbles are formed and travelling to the surface of the gel.</p> <p>This is the second experiment detailed in Case Study 3 in [Coban 2020], and this submission can be treated as a follow up to [Coban&Lucka 2019]. </p> <p> </p> <p><strong>Apparatus</strong></p> <p>The dataset is acquired using the custom-built and highly flexible CT scanner, FleX-ray Laboratory, developed by TESCAN-XRE, located at CWI in Amsterdam. This apparatus consists of a cone-beam microfocus X-ray point source that projects polychromatic X-rays onto a 1944-by-1536 pixels, 14-bit, flat detector panel. Full details can be found in [Coban 2020].</p> <p> </p> <p><strong>Sample Information</strong></p> <p>The setup consists of a store-bought denture cleaning tablet, placed at the bottom of a clear cylindrical plastic container. These tablets are typically designed to be fast-dissolving, and produce small and compact channels of bubbles. We use a denture cleaning tablet in particular as the dissolution time in water varies from 3 to 5 minutes, meaning the bubbles are produced at a slower rate. In addition, we use a store-bought water-based gel instead of water to slow down the bubble displacement during the experiment.</p> <p> </p> <p><strong>Experimental Plan</strong></p> <p>This experiment is performed such that 150 projections are collected over 360 degrees, for a total of 166 rotations, with exposure time 12 ms for each projection. This means that in total the submission contains 25000 projections. This experiment took 5 minutes of acquisition time, during which we (at user's command) zoom in onto the bottom of the sample holder (i.e. where the tablet rests). We later (again, at user's command) shift the view (i.e. the tube and the detector) upwards to the top of the sample to observe foaming on the surface. Finally, before the end of the 5-minute acquisition period, we zoom out to the original magnification. Every time the geometry undergoes a major change such as zooming in (which would affect the reconstruction), the system creates a new data settings file with the new geometrical information, appended by the projection number, therefore marking the change. However, since there is no major change created by the vertical shift of the tube and detector (as in no change in geometry that would affect the reconstructed images), there is no new data settings file for this event. </p> <p>The spatial resolution for this data is 193μm at the beginning (or end) of the experiment, which at an arbitrary point changes to 76μm. For a smooth data transfer, each projection image is binned down to the size of 486px-by-384px. No centrifugal force effect was observed on the bubbles travelling during the scan or in our test runs at the given rotational speed.</p> <p>All raw data (i.e. with no corrections) is made available in .tif format.</p> <p> </p> <p><strong>List of Contents</strong></p> <p>The contents of the submission is given below.</p> <ul> <li><strong>scan_1</strong>: A 5-minute dynamic CT data folder containing <ul> <li>dark-field (or closed-shutter) image, <em>di000000.tif,</em></li> <li>pre flat-field (or open-shutter before acquisition) image, <em>io000000.tif</em>,</li> <li>post flat-field (or open-shutter after acquisition) image, <em>io000001.tif</em>,</li> <li>raw (unprocessed or uncorrected) projections, <em>scan_*.tif</em> (25000 projections in total),</li> <li><em>data settings XRE.txt</em>, a text file with scanner metadata (this is the final geometry info file),</li> <li><em>data settings XRE_5220.txt</em> (geometry info recorded after the zoom-in)</li> <li><em>data settings XRE__22610.txt</em> (geometry info recorded after the zoom-out, same as <em>data settings XRE.txt</em>)</li> </ul> </li> </ul> <p> </p> <p><strong>Additional Links</strong></p> <p>These datasets are produced by the <a href="https://www.cwi.nl/research/groups/computational-imaging">Computational Imaging group</a> at Centrum Wiskunde & Informatica (CI-CWI). For any relevant Python/MATLAB scripts for the FleX-ray datasets, we refer the reader to our group's <a href="http://github.com/cicwi">GitHub page</a>.</p> <p> </p> <p><strong>Contact Details</strong></p> <p>For more information or guidance in using these dataset, please get in touch with </p> <ul> <li>s.b.coban [at] cwi.nl</li> </ul> <p> </p> <p><strong>Acknowledgments</strong></p> <p>We thank Dr. Samuel McDonald and Prof. Philip Withers for the useful discussion, and Dr. Manuel Dierick for his advice in making this experiment possible.</p>
Dynamic 3D X-ray micro-CT data of a tablet dissolution in a water-based gel
<p><strong>Summary</strong></p> <p>This submission contains a dynamic tomographic X-ray data of a tablet dissolving in a water-based gel. The data is collected over a 5-minute period during which the sample is rotated rapidly as effervescent bubbles are formed and travelling to the surface of the gel.</p> <p>The data is made available as part of Case Study 3 in [Coban 2020].</p> <p> </p> <p><strong>Apparatus</strong></p> <p>The dataset is acquired using the custom-built and highly flexible CT scanner, FleX-ray Laboratory, developed by TESCAN-XRE, located at CWI in Amsterdam. This apparatus consists of a cone-beam microfocus X-ray point source that projects polychromatic X-rays onto a 1944-by-1536 pixels, 14-bit, flat detector panel. Full details can be found in [Coban 2020].</p> <p> </p> <p><strong>Sample Information</strong></p> <p>The setup consists of a store-bought denture cleaning tablet, placed at the bottom of a clear cylindrical plastic container. These tablets are typically designed to be fast-dissolving, and produce small and compact channels of bubbles. We use a denture cleaning tablet in particular as the dissolution time in water varies from 3 to 5 minutes, meaning the bubbles are produced at a slower rate. In addition, we use a store-bought water-based gel instead of water to slow down the bubble displacement during the experiment.</p> <p> </p> <p><strong>Experimental Plan</strong></p> <p> </p> <p>This experiment is performed such that 120 projections are collected over 360 degrees, for a total of 83 rotations, with exposure time 30 ms for each projection. This means that in total the submission contains 10000 projections. This took a total of 5 minutes of acquisition time, during which the tablet moved due to saturation but did not completely dissolve. The spatial resolution is 95μm, and the field of view was cropped to the boundaries of the sample holder (each projection image is of size 647px×768px). Our experimental setup allowed the collection of open and closed shutter (flat- and dark-field) images before decanting the gel onto the tablet. No centrifugal force effect was observed on the bubbles travelling during the scan or in our test runs at the given rotational speed.</p> <p>All raw data (i.e. no corrections) is made available in .tif format.</p> <p> </p> <p><strong>List of Contents</strong></p> <p>The contents of the submission is given below.</p> <ul> <li><strong>scan</strong>: A 5-minute dynamic CT data folder containing <ul> <li>dark-field (or closed-shutter) image, <em>di000000.tif,</em></li> <li>pre flat-field (or open-shutter before acquisition) image, <em>io000000.tif</em>,</li> <li>post flat-field (or open-shutter after acquisition) image, <em>io000001.tif</em>,</li> <li>raw (unprocessed or uncorrected) projections, <em>scan_*.tif</em> (10000 projections in total),</li> <li><em>data settings XRE.txt</em>, a text file with scanner metadata,</li> <li><em>script.txt</em> and <em>script_executed.txt</em> are the text files containing the list of commands the apparatus has executed.</li> </ul> </li> </ul> <p> </p> <p><strong>Additional Links</strong></p> <p>These datasets are produced by the <a href="https://www.cwi.nl/research/groups/computational-imaging">Computational Imaging group</a> at Centrum Wiskunde & Informatica (CI-CWI). For any relevant Python/MATLAB scripts for the FleX-ray datasets, we refer the reader to our group's <a href="http://github.com/cicwi">GitHub page</a>.</p> <p> </p> <p><strong>Contact Details</strong></p> <p>For more information or guidance in using these dataset, please get in touch with </p> <ul> <li>s.b.coban [at] cwi.nl</li> </ul> <p> </p> <p><strong>Acknowledgments</strong></p> <p>We thank Dr. Samuel McDonald and Prof. Philip Withers for the useful discussion, and Dr. Manuel Dierick for his advice in making this experiment possible.</p> <p> </p>
Dataset for Bright x-ray radiation from plasma bubbles in an evolving laser wakefield accelerator
<p>This dataset contains the raw data and analysis scripts for results presented in the paper. " Bright x-ray radiation from plasma bubbles in an evolving laser wakefield accelerator"</p>
FIGURES 10–12 in The first described fossil species of Litargus Erichson (Coleoptera: Mycetophagidae) from Eocene Baltic amber examined with X-ray microtomography, and new records of Crowsonium succinium Abdullah, 1964
FIGURES 10–12. Micro-CT rendering of Litargus (Litargosomus) dantiscensis sp. nov., holotype, No UCPUwB 260, habitus: 10—left lateral view; 11—right lateral view; 12—ventral reconstruction without legs. Scale bar represents 1.0 mm.
FIGURES 6–9 in The first described fossil species of Litargus Erichson (Coleoptera: Mycetophagidae) from Eocene Baltic amber examined with X-ray microtomography, and new records of Crowsonium succinium Abdullah, 1964
FIGURES 6–9. Micro-CT rendering of Litargus (Litargosomus) dantiscensis sp. nov., holotype, No UCPUwB 260, habitus: 6—dorsal view; 7—ventral view; 8—frontal view; 9—caudal view. Scale bar represents 1.0 mm.
FIGURES 13–15 in The first described fossil species of Litargus Erichson (Coleoptera: Mycetophagidae) from Eocene Baltic amber examined with X-ray microtomography, and new records of Crowsonium succinium Abdullah, 1964
FIGURES 13–15. Photomicrograph of Crowsonium succinium Abdullah, collection number AWI-066 [CVIA]: 13—habitus, dorsal view; 14—habitus, ventral view; 15—apical portion of aedeagus, dorsal view. Total body length is 2.5 mm. Not reproduced to the same scale.
FIGURES 4–5 in The first described fossil species of Litargus Erichson (Coleoptera: Mycetophagidae) from Eocene Baltic amber examined with X-ray microtomography, and new records of Crowsonium succinium Abdullah, 1964
FIGURES 4–5. Photomicrographs of Litargus (Litargosomus) dantiscensis sp. nov., holotype, No UCPUwB 260: 4—forebody in dorsal view; 5—details of elytra in ventral view showing punctation and setation. Abbreviations: a2–a11—antennomeres 2–11, respectively; ap—apical maxillary palpomere; cl—clypeus; e—compound eye; fcs—frontoclypeal suture; lab—labrum; bpi—basal pronotal impression. Scale bars represent 0.25 mm.
FIGURES 1–3 in The first described fossil species of Litargus Erichson (Coleoptera: Mycetophagidae) from Eocene Baltic amber examined with X-ray microtomography, and new records of Crowsonium succinium Abdullah, 1964
FIGURES 1–3. Photomicrographs of Litargus (Litargosomus) dantiscensis sp. nov., holotype, No UCPUwB 260: 1—habitus in dorsal view; 2—habitus in ventral view; 3—habitus in left lateral view (3). Scale bars represent 1.0 mm.
FIGURE 1 in The oldest fossil darkling beetle of the genus Neomida Latreille, 1829 (Coleoptera: Tenebrionidae) from Eocene Baltic amber examined with X-ray microtomography
FIGURE 1. Neomida groehni sp. nov., holotype, photomicrograph: A – habitus, latero-dorsal view; B – details of forebody, dorsal view; C – habitus, ventral view. Not reproduced to the same scale.
FIGURE 4 in The oldest fossil darkling beetle of the genus Neomida Latreille, 1829 (Coleoptera: Tenebrionidae) from Eocene Baltic amber examined with X-ray microtomography
FIGURE 4. Neomida groehni sp. nov., holotype, aedeagus, X-ray micro-CT rendering: A – ventral view; B – dorsal view; C – lateral view; D – apical piece. Abbreviations: ap – apical piece, bp – basal piece, ml – median lobe.
FIGURE 3 in The oldest fossil darkling beetle of the genus Neomida Latreille, 1829 (Coleoptera: Tenebrionidae) from Eocene Baltic amber examined with X-ray microtomography
FIGURE 3. Neomida groehni sp. nov., holotype, X-ray micro-CT rendering: A – details of forebody, dorso-lateral view, arrows show marginal epistomal tubercles; B – head, dorsal view, arrows show marginal epistomal tubercles; C – pro-mesothoracic junction, ventral view. Abbreviations: Pstr – prosternal process, MstrE – mesosternal Y-shaped elevation, MstrF – mesosternal intercoxal fovea, Mtrch - mesotrochantine. Not reproduced to the same scale.
FIGURE 2 in The oldest fossil darkling beetle of the genus Neomida Latreille, 1829 (Coleoptera: Tenebrionidae) from Eocene Baltic amber examined with X-ray microtomography
FIGURE 2. Neomida groehni sp. nov., holotype, habitus, X-ray micro-CT rendering: A – dorsal view; B – ventral view with legs; C – lateral view, without legs and antennae; D – the same, with legs an antennae; E – ventral view without legs and antennae; F – anterior view; G – caudal view. Scale bars represent 1 mm.
Noise study data for: Mechanisms of root-reinforcement in soils: an experimental methodology using four-dimensional X-ray computed tomography and digital volume correlation
<p>This dataset contains noise study data used in the paper: Mechanisms of root-reinforcement in soils: an experimental methodology using four-dimensional X-ray computed tomography and digital volume correlation. These include raw CT scans and processed digital volume correlation data.</p> <p>This dataset is part of another dataset which covers other aspects of the paper DOI: <a href="http://www.doi.org/10.5281/zenodo.3352268">10.5281/zenodo.3352268</a></p> <p>The structure of the dataset is as follows:</p> <ul> <li>Noise study CT raw volumes are contained in a zip file. There are four raw files corresponding to the four noise study steps. These files are 8-bit unsigned, dimensions are 1800 x 1800 x 1400 pixels. A txt file giving more details to the data is included. <ul> <li><strong>CT_Raw_data_Noise_Scans.zip</strong></li> </ul> </li> <li>Metadata files generated for each scan given details of scan parameters are found in the zip file: <ul> <li><strong>CT_Scan_Metadata.zip</strong></li> </ul> </li> <li>Tabulated digital volume data for the noise study scans are contained in the zip file. Tabulated data for each subset size is included in subfolders. A .txt file explains the structure of the tab separated .dat files, i.e. what each column of data represents, and what CT scan each of the four .dat files relate to. <ul> <li><strong>DVC_Noise_Study_Data.zip</strong></li> </ul> </li> </ul> <p> </p> <p> </p>
Mummified Cat Head (AB77a) X-ray microCT slice data
<p>Mummified Cat Head (AB77a) X-ray microCT slice data</p> <p> </p> <p>Acquired on a Nikon XTH225. Voxel size 78.1 microns.</p>
ds-uct-003: Endodontic Instruments: X-Ray micro-CT of five endodontic files.
<p><strong>Summary</strong>:<br> .X-Ray micro-computed tomography (micro-CT) of five endodontic files used for the primary shaping of root canals, endodontic reintervention and supplementary cleaning methods.<br> .The 3D image was generated with an X-Ray micro-CT Scanner version Xradia Versa 510 from Zeiss performed by A Pereira at the UFF micro-CT Facility.<br> .For use of these data, please remember to cite the DOI of the Zenodo repository and relevant papers.</p> <p><strong>Details</strong>:<br> .flat-us (1024) - Voxel size: 10.0 μm; Sample-source: 30 mm; Sample-detector: 176 mm; Optical magnification: 0.4X; Filter: LE#1; Beam energy: 80 kV; Power: 7 W; Exposure time: 1.0 sec; Projections: 1600.<br> .xp-finish (1024) - Voxel size: 15.2 μm; Sample-source: 31 mm; Sample-detector: 110 mm; Optical magnification: 0.4X; Filter: LE#1; Beam energy: 80 kV; Power: 7 W; Exposure time: 0.4 sec; Projections: 1600.<br> .m2-30 (1024) - Voxel size: 18.2 μm; Sample-source: 39.5 mm; Sample-detector: 110 mm; Optical magnification: 0.4X; Filter: LE#1; Beam energy: 80 kV; Power: 7 W; Exposure time: 1.0 sec; Projections: 1600.<br> .m2r-25 (1024) - Voxel size: 18.2 μm; Sample-source: 39.5 mm; Sample-detector: 110 mm; Optical magnification: 0.4X; Filter: LE#1; Beam energy: 80 kV; Power: 7 W; Exposure time: 1.0 sec; Projections: 1600.<br> .reciproc-r25 (1024) - Voxel size: 18.2 μm; Sample-source: 39.5 mm; Sample-detector: 110 mm; Optical magnification: 0.4X; Filter: LE#1; Beam energy: 80 kV; Power: 7 W; Exposure time: 0.8 sec; Projections: 1600.</p> <p><strong>Contents</strong>:<br> ._info_ds-uct-003.txt<br> .ds-uct-003_endodontic_instruments_10um_8bits_flat-us.zip<br> .ds-uct-003_endodontic_instruments_15um_8bits_xp-finish.zip<br> .ds-uct-003_endodontic_instruments_18um_8bits_m2-30.zip<br> .ds-uct-003_endodontic_instruments_18um_8bits_m2r-25.zip<br> .ds-uct-003_endodontic_instruments_18um_8bits_reciproc-r25.zip</p>
Supporting information for the paper: Constraints on recoil leader properties estimated from X-ray emission in aircraft triggered discharges
<p>Supporting information for the paper: Constraints on recoil leader properties estimated from X-ray emission in aircraft triggered discharges consisting of 18 data files, sorted by figure the data appears in. See 0_READ_ME for information about the individual files and variables.</p>
3d Virtual Patho-Histology of Lung Tissue from Covid19 Patients based on Phase Contrast X-ray Tomography
<p>X-ray phase contrast tomographys datasets of lung tissue from 6 Covid-19 patients (paraffin embedded unstained tissue), and one control tissue (healthy lung, in fixative solution). The data has been recorded as part of the Covid-19 Call for Proposals at DESY April 2020 at the GINIX instrument, beamline P10 of the PETRAIII storage ring at 8keV. Three different datasets are included in a single tar archive for each sample: (i) overview scan (up to 4mm cross section ) from stitching different tomograms, (ii) 1mm cylindrical punch, and (iii) cone-beam zoom tomogram recorded with waveguide illumination. </p> <p>voxel sizes: (i) 1.3µm, (ii) 650nm, (iii) 167nm. </p> <p>3 datasets per sample, raw format, voxel numbers given in Filename, single (32bit real)</p> <p> </p>
ds-uct-006: Serjania Corrugata: X-Ray micro-CT of a Serjania corrugata (Sapindaceae) stem sample.
<p><strong>Summary</strong>:<br> .X-Ray micro-computed tomography (micro-CT) of a Serjania corrugata (Sapindaceae) stem sample, including both raw projection data and the final reconstructions, for a sigle resolution (voxel sizes of 40 μm).<br> .The 3D image was generated with an X-Ray micro-CT Scanner version Xradia Versa 510 from Zeiss performed by A Pereira at the UFF micro-CT Facility.<br> .For use of these data, please remember to cite the DOI of the Zenodo repository and relevant papers.</p> <p><strong>Details</strong>:<br> .Tomo - Voxel size: 40 μm; Sample-source: 120 mm; Sample-detector: 86.78 mm; Optical magnification: 0.4X; Filter: LE#1; Beam energy: 40 kV; Power: 3 W; Exposure time: 10.0 sec; Projections: 1600.</p> <p><strong>Contents</strong>:<br> ._info_ds-uct-006.txt<br> .ds-uct-006_serjania_corrugata_40um_8bits.zip<br> .ds-uct-006_serjania_corrugata_40um_1600p.txrm<br> .ds-uct-006_serjania_corrugata_40um_1600p_Drift.txrm<br> .ds-uct-006_serjania_corrugata_40um_1600p_recon.txm</p>
Reproduction package for the paper "A strongly changing accretion morphology during the outburst decay of the neutron star X-ray binary 4U 1608-52"
<p>This is a basic reproduction package for the paper "A strongly changing accretion morphology during the outburst decay of the neutron star X-ray binary 4U 1608-52" by J. van den Eijnden et al. (2020). It provides reduced data sets, simulation scripts, X-ray spectral fits, and plotting scripts to allow the reproduction of the work performed in this paper. It also lists software used and data archives containing the public observational data. </p> <p>An open access version of the paper can be found at <a href="https://arxiv.org/abs/2002.04003">https://arxiv.org/abs/2002.04003</a>.</p>
Reproduction package for "X-ray study of the merging galaxy cluster Abell 3411-3412 with XMM-Newton and Suzaku"
<p>This is the reproduction package of the paper "X-ray study of the merging galaxy cluster Abell 3411-3412 with XMM-Newton and Suzaku" (arXiv:2007.15976). </p>
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