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406 results for “micro-CT”
Dataset of High-Resolution Micro-CT Imaging of Tumor Invasion and Metastasis in a Murine Esophageal Cancer PDX Model
<p>This dataset features high-resolution micro-CT imaging data capturing the progression of tumor invasion and metastasis in an orthotopic patient-derived xenograft (PDX) model of esophageal cancer. Using contrast-enhanced micro-CT, we visualized detailed patterns of tumor invasion, including budding, multicellular streaming, and expansive growth, across multiple abdominal organs such as the stomach, pancreas, liver, and spleen. The dataset includes two specimens, highlighting both the primary tumor site and extensive metastases throughout the abdominal cavity. Our imaging preserved the native tissue architecture, providing a unique three-dimensional view of tumor-host interactions. This collection offers valuable insights for researchers studying the dynamics of esophageal cancer invasion and metastasis. Detailed descriptions of the micro-CT scanning parameters, image analysis, and sample preparation are provided within the dataset archive.</p>
Confocal and micro-CT data of Glyphonotum hsiaoi, holotype, NIGP200729
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices and X-ray microtomography (micro-CT) slices for the holotype of <em>Glyphonotum hsiaoi</em> (NIGP200729) from mid-Cretaceous Burmese amber. This dataset is associated with the publication "An enigmatic Cretaceous beetle in Kachin amber with tentative affinities to Pythidae (Coleoptera: Tenebrionoidea)" (DOI:10.1002/ece3.70615).<br> <br>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 561 nm (DPSS 561-10) laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.<br> <br>Micro-CT data were obtained with a Zeiss Xradia 520 Versa 3D X-ray microscope. Scanning parameters were as follows: isotropic voxel size, 2.6143 μm; power, 3 W; acceleration voltage, 40 kV; exposure time, 4 s; projections, 3001. The TIFF stack is provided.</p>
A fifteen-tile tomographic micro-CT dataset of a panel painting "Cadmus sowing dragon's teeth" 2/3
<p><strong>Summary</strong><br> This submission contains a fifteen-tile tomographic dataset of a panel painting and 15 postprocessed images used for dendrochronological measurements (see related datasets).The data is made available as part of [Domínguez-Delmás et al., 2021].</p> <p><strong>Apparatus</strong><br> 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].<br> <br> <strong>Sample Information</strong><br> The sample is panel painting Cadmus Sowing dragon's teeth. H 26.2cm x w 42.3cm [Rijksmuseum inventory number SK-A-4051, https://www.rijksmuseum.nl/en/collection/SK-A-4051]. It was mounted on a foam base on the rotation stage, see [Domínguez-Delmás et al., 2021] for images.</p> <p><br> <strong>Experimental Plan</strong><br> The data in this submission was collected to facilitate measurements of the tree rings (dendrochronological research) in a cross-section. The panel was mounted in such a way that the desired cross section would be obtained in the vertical direction. A section of a few cm wide along the entire height was imaged slightly off centre of the painting, to avoid metal nails that had showed up in several projections. In total 15 tiled CT scans were collected, moving source and detector vertically by the same distance. Each tile consisted of 1600 projections, each an average of 2 projections with 300ms acquisition time. We used tube settings 70 kV, 70 mA and a 0.1 cm thickness copper filter. Dark-field (closed-shutter), and 2 flat-field (open-shutter) images were taken for each tile after the acquisition with 100 averaged images of 300 ms acquisition time. Reconstructed image resolution was 37 µm.<br> All raw data (i.e. no corrections) is made available in .tif format. Postprocessing steps are described in the supplementary material of [Domínguez-Delmás et al., 2021].<br> <br> <strong>List of Contents</strong><br> The content of the submission is divided in three datasets, with in total 16 subfolders: Images, containing the 15 postprocessed images used for dendrochronological measurements and Tile1-Tile15, each containing the data from one of the tiled scans.<br> Each data folder contains:</p> <ul> <li>dark-field (or closed-shutter) image, di000000.tif,</li> <li>flat-field (or open-shutter) image after acquisition, io000000.tif,</li> <li>raw (unprocessed or uncorrected) projections, scan_*.tif,</li> <li>data settings XRE.txt, a text file with scanner metadata,</li> <li>metadata.toml, a text file with a summary of the scanner metadata</li> </ul> <p><strong>Additional Links</strong><br> These datasets are produced by the Computational Imaging group 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 GitHub page.</p> <p><strong>Contact Details</strong><br> For more information or guidance in using these datasets, please get in touch with</p> <ul> <li>bossema [at] cwi.nl</li> </ul> <p> <br> <strong>Acknowledgments</strong><br> We thank Petria Noble for providing us with the opportunity to scan this interesting object. We thank Erma Hermens , Moorea Hall-Aquitania and Marta Domínguez Delmás for bringing the object and research questions to our attention and inviting our collaboration on this research project.<br> The authors would like to acknowledge the funding from the Netherlands Organisation for Scientific Research (NWO), project numbers 341-60-001, 639.073.506 and 628.007.033 and Netherlands Institute for Conservation, Art and Science (NICAS).</p>
A fifteen-tile tomographic micro-CT dataset of a panel painting "Cadmus sowing dragon's teeth" 1/3
<p><strong>Summary</strong><br> This submission contains a fifteen-tile tomographic dataset of a panel painting and 15 postprocessed images used for dendrochronological measurements (see related datasets).The data is made available as part of [Domínguez-Delmás et al., 2021].</p> <p><strong>Apparatus</strong><br> 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].<br> <br> <strong>Sample Information</strong><br> The sample is panel painting Cadmus Sowing dragon's teeth. H 26.2cm x w 42.3cm [Rijksmuseum inventory number SK-A-4051, https://www.rijksmuseum.nl/en/collection/SK-A-4051]. It was mounted on a foam base on the rotation stage, see [Domínguez-Delmás et al., 2021] for images.</p> <p><br> <strong>Experimental Plan</strong><br> The data in this submission was collected to facilitate measurements of the tree rings (dendrochronological research) in a cross-section. The panel was mounted in such a way that the desired cross section would be obtained in the vertical direction. A section of a few cm wide along the entire height was imaged slightly off centre of the painting, to avoid metal nails that had showed up in several projections. In total 15 tiled CT scans were collected, moving source and detector vertically by the same distance. Each tile consisted of 1600 projections, each an average of 2 projections with 300ms acquisition time. We used tube settings 70 kV, 70 mA and a 0.1 cm thickness copper filter. Dark-field (closed-shutter), and 2 flat-field (open-shutter) images were taken for each tile after the acquisition with 100 averaged images of 300 ms acquisition time. Reconstructed image resolution was 37 µm.<br> All raw data (i.e. no corrections) is made available in .tif format. Postprocessing steps are described in the supplementary material of [Domínguez-Delmás et al., 2021].<br> <br> <strong>List of Contents</strong><br> The content of the submission is divided in three datasets, with in total 16 subfolders: Images, containing the 15 postprocessed images used for dendrochronological measurements and Tile1-Tile15, each containing the data from one of the tiled scans.<br> Each data folder contains:</p> <ul> <li>dark-field (or closed-shutter) image, di000000.tif,</li> <li>flat-field (or open-shutter) image after acquisition, io000000.tif,</li> <li>raw (unprocessed or uncorrected) projections, scan_*.tif,</li> <li>data settings XRE.txt, a text file with scanner metadata,</li> <li>metadata.toml, a text file with a summary of the scanner metadata</li> </ul> <p><strong>Additional Links</strong><br> These datasets are produced by the Computational Imaging group 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 GitHub page.</p> <p><strong>Contact Details</strong><br> For more information or guidance in using these datasets, please get in touch with</p> <ul> <li>bossema [at] cwi.nl</li> </ul> <p> <br> <strong>Acknowledgments</strong><br> We thank Petria Noble for providing us with the opportunity to scan this interesting object. We thank Erma Hermens , Moorea Hall-Aquitania and Marta Domínguez Delmás for bringing the object and research questions to our attention and inviting our collaboration on this research project.<br> The authors would like to acknowledge the funding from the Netherlands Organisation for Scientific Research (NWO), project numbers 341-60-001, 639.073.506 and 628.007.033 and Netherlands Institute for Conservation, Art and Science (NICAS).</p>
A fifteen-tile tomographic micro-CT dataset of a panel painting "Cadmus sowing dragon's teeth" 3/3
<p><strong>Summary</strong><br> This submission contains a fifteen-tile tomographic dataset of a panel painting and 15 postprocessed images used for dendrochronological measurements (see related datasets).The data is made available as part of [Domínguez-Delmás et al., 2021].</p> <p><strong>Apparatus</strong><br> 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].<br> <br> <strong>Sample Information</strong><br> The sample is panel painting Cadmus Sowing dragon's teeth. H 26.2cm x w 42.3cm [Rijksmuseum inventory number SK-A-4051, https://www.rijksmuseum.nl/en/collection/SK-A-4051]. It was mounted on a foam base on the rotation stage, see [Domínguez-Delmás et al., 2021] for images.</p> <p><br> <strong>Experimental Plan</strong><br> The data in this submission was collected to facilitate measurements of the tree rings (dendrochronological research) in a cross-section. The panel was mounted in such a way that the desired cross section would be obtained in the vertical direction. A section of a few cm wide along the entire height was imaged slightly off centre of the painting, to avoid metal nails that had showed up in several projections. In total 15 tiled CT scans were collected, moving source and detector vertically by the same distance. Each tile consisted of 1600 projections, each an average of 2 projections with 300ms acquisition time. We used tube settings 70 kV, 70 mA and a 0.1 cm thickness copper filter. Dark-field (closed-shutter), and 2 flat-field (open-shutter) images were taken for each tile after the acquisition with 100 averaged images of 300 ms acquisition time. Reconstructed image resolution was 37 µm.<br> All raw data (i.e. no corrections) is made available in .tif format. Postprocessing steps are described in the supplementary material of [Domínguez-Delmás et al., 2021].<br> <br> <strong>List of Contents</strong><br> The content of the submission is divided in three datasets, with in total 16 subfolders: Images, containing the 15 postprocessed images used for dendrochronological measurements and Tile1-Tile15, each containing the data from one of the tiled scans.<br> Each data folder contains:</p> <ul> <li>dark-field (or closed-shutter) image, di000000.tif,</li> <li>flat-field (or open-shutter) image after acquisition, io000000.tif,</li> <li>raw (unprocessed or uncorrected) projections, scan_*.tif,</li> <li>data settings XRE.txt, a text file with scanner metadata,</li> <li>metadata.toml, a text file with a summary of the scanner metadata</li> </ul> <p><strong>Additional Links</strong><br> These datasets are produced by the Computational Imaging group 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 GitHub page.</p> <p><strong>Contact Details</strong><br> For more information or guidance in using these datasets, please get in touch with</p> <ul> <li>bossema [at] cwi.nl</li> </ul> <p> <br> <strong>Acknowledgments</strong><br> We thank Petria Noble for providing us with the opportunity to scan this interesting object. We thank Erma Hermens , Moorea Hall-Aquitania and Marta Domínguez Delmás for bringing the object and research questions to our attention and inviting our collaboration on this research project.<br> The authors would like to acknowledge the funding from the Netherlands Organisation for Scientific Research (NWO), project numbers 341-60-001, 639.073.506 and 628.007.033 and Netherlands Institute for Conservation, Art and Science (NICAS).</p>
Confocal and micro-CT data of Microtrogossita qizhihaoi, holotype, NIGP173910
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices and X-ray microtomography (micro-CT) slices for the holotype of <em>Microtrogossita qizhihaoi</em> (NIGP173910) from mid-Cretaceous Burmese amber. Additional confocal data for <em>Burmacateres longicoxa</em> (NIGP173911, NIGP173912) are also provided. This dataset is associated with the publication "An exquisitely preserved tiny bark-gnawing beetle (Coleoptera: Trogossitidae) from mid-Cretaceous Burmese amber and the phylogeny of Trogossitidae" (DOI:10.1111/jzs.12515).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using 488 nm Argon laser excitation line. Both original CZI files and exported TIFF stacks are provided.</p> <p>Micro-CT data were obtained with a Zeiss Xradia 520 Versa 3D X-ray microscope. Scanning parameters were as follows: isotropic voxel size, 2.4165 μm; power, 4 W; acceleration voltage, 50 kV; exposure time, 1.5 s; projections, 3001. The TIFF stack is provided.</p>
Micro-CT analysis of Katian radiolarians from the Malongulli Formation, New South Wales, Australia, and implications for skeletogenesis
<p><span>A diverse and well-preserved radiolarian assemblage from the Malongulli Formation, New South Wales, Australia contains 13 species representing ten genera and six families. One new genus: <em>Wiradjuri</em> n. gen. is introduced to accommodate pre-Devonian single-shelled entactiniid taxa and one new species: <em>Secuicollacta</em> <em>malongulliensis</em> n. sp. is recorded together with some previously described forms. The micro-structure of the 'rotasphaerid structure/primary unit' and the 'ectopic spicule' are investigated to validate their roles as fundamental units in the Secuicollactidae together with comprehensive documentation of the previously enigmatic <em>Pseudorotasphaera</em> internal skeleton.</span></p> <p><span>The results of this investigation suggest that, among all radiolarian genera that survived the </span>Late Ordovician Mass Extinction <span>event (LOME) and transitioned into the Silurian, <em>Secuicollacta</em>, <em>Haplotaeniatum</em>, and <em>Palaeoephippium</em> maintained stable body plans during the transition and were more successfully established. The selective advantages these lineages had during the LOME, were most likely spontaneous outcomes of the mode of structural development involving sequential skeletogenesis and a tendency to evolve towards simpler body plans. </span></p>
Cribra orbitalia in micro-CT
<p>The question answered by this project was how the morphological structure of a diploë changes according to the different degrees of CO expression. The basic technique was micro-CT scanning, which is one of the most accurate methods for analyzing the morphometry of anatomical objects, especially those of small dimensions.<br> A total of eleven superior surface eye orbits of children’s skeletons were used. On two of them, no changes typical for CO were observed. Four orbits had porosities less than 1 cm2 in area. On five superior surfaces of the orbits, porosities occupying an area greater than 1 cm2 were observed. The samples were scanned by a Bruker SkyScan 1172, and then the volumetric projections obtained in this way were reconstructed. In the next step, six parameters characterizing the structure of the spongy bone were measured, i.e., the number of trabeculae (Tb.N), the distance between the trabeculae (Tb.Sp), the thickness of the trabecular bone (Tb.Th), bone volume (BV/TV), bone surface area to volume ratio (BS/BV), and bone density (BS/TV).</p>
A qualitative assessment of calcification across species and sexes of European Bufo toads using the micro-CT technique
<p><span>Micro-computed tomography </span><span>is a powerful tool towards the detailed reconstruction of internal and external morphology, in particular for ossified and other dense tissues. Here, we document and compare the amount of calcification in the skin of the head and the parotoids (the external skin glands) in males and females of the common and spined toads, <em>Bufo</em> <em>bufo</em> and <em>B. spinosus</em>. In some anurans including <em>Bufo</em> species, a specific acellular calcified tissue layer (the Eberth-Katschenko layer) within the dermis has been documented. Using micro-CT scan and standard histological techniques, we detected additional calcium deposits located in the dermal layer stratum spongiosum, above the Eberth-Katschenko layer. The data show that the level of calcification and the presence of the additional calcium deposits is size- and sex-related, increasing in the order from <em>B. bufo</em> males, <em>B. spinosus</em> males, <em>B. bufo</em> females to <em>B. spinosus</em> females. The least variable are <em>B. spinosus</em> females that have dense additional calcium deposits in parotoids, dorsal and ventral skin, as armour protecting their heads. Three-dimensional volume renderings and cross-sectional slices obtained by micro-CT scan used in this study indicate that this approach is a promising technique for further studies on <em>Bufo</em> skin anatomy and geographic variation in skin calcification.</span></p>
Confocal and micro-CT data of Notocupes sp., BA202101
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices and X-ray microtomography (micro-CT) slices for the specimen of <em>Notocupes</em> sp. (BA202101) from mid-Cretaceous Burmese amber. This dataset is associated with the publication "New species of <em>Notocupes </em>from the Middle Jurassic Daohugou beds, with discussion on the circumscription of the genus" (DOI:10.11646/palaeoentomology.6.4.11).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 488 nm Argon laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p> <p>Micro-CT data were obtained with a Zeiss Xradia 520 Versa 3D X-ray microscope. Scanning parameters were as follows: isotropic voxel size, 14.096 μm; power, 3 W; acceleration voltage, 40 kV; exposure time, 4 s; projections, 2001. The TIFF stack is provided.</p>
Confocal and micro-CT data of Notocupes denticollis, holotype, STJ311
<p>This dataset contains the raw confocal laser scanning microscopy (CLSM) slices and X-ray microtomography (micro-CT) slices for the holotype of <em>Notocupes denticollis</em> (STJ311) from mid-Cretaceous Burmese amber. This dataset is associated with the publication "New species of <em>Notocupes </em>from the Middle Jurassic Daohugou beds, with discussion on the circumscription of the genus" (DOI:10.11646/palaeoentomology.6.4.11).</p> <p>Confocal images were obtained with a Zeiss LSM710 confocal laser scanning microscope, using the 488 nm Argon laser excitation line. The original CZI files are provided, which could be opened by the ZEISS ZEN software.</p> <p>Micro-CT data were obtained with a Zeiss Xradia 520 Versa 3D X-ray microscope. Scanning parameters were as follows: isotropic voxel size, 16.916 μm; power, 4 W; acceleration voltage, 50 kV; exposure time, 2 s; projections, 2001. The TIFF stack is provided.</p>
Automated segmentation of insect anatomy from micro-CT images using deep learning
<div>Three-dimensional (3D) imaging, such as micro-computed tomography (micro-CT), is increasingly being used by organismal biologists for precise and comprehensive anatomical characterization. However, the segmentation of anatomical structures remains a bottleneck in research, often requiring tedious manual work. Here, we propose a pipeline for the fully-automated segmentation of anatomical structures in micro-CT images utilizing state-of-the-art deep learning methods, selecting the ant brain as a test case. We implemented the U-Net architecture for 2D image segmentation for our convolutional neural network (CNN), combined with pixel-island detection. For training and validation of the network, we assembled a dataset of semi-manually segmented brain images of 76 ant species. The trained network predicted the brain area in ant images fast and accurately; its performance tested on validation sets showed good agreement between the prediction and the target, scoring 80% Intersection over Union (IoU) and 90% Dice Coefficient (F1) accuracy. While manual segmentation usually takes many hours for each brain, the trained network takes only a few minutes. Furthermore, our network is generalizable for segmenting the whole neural system in full-body scans, and works in tests on distantly related and morphologically divergent insects (e.g., fruit flies). The latter suggests that methods like the one presented here generally apply across diverse taxa. Our method makes the construction of segmented maps and the morphological quantification of different species more efficient and scalable to large datasets, a step toward a big data approach to organismal anatomy.</div>
Micro-CT tomographic data set of 38 mummy labels from the BNU in Strasbourg (2/2)
<p><strong>Summary</strong></p> <p>This submission contains a tomographic dataset of 38 mummy labels from the BNU in Strasbourg used to perceive the anatomical identification possibilities of the woods used for mummy labels and to carry out ring width measurements. The data will be made available as part of [Blondel et al., 2024].</p> <p><strong>Apparatus</strong></p> <p>The dataset is acquired using the EasyTom 150/160 X-ray tomograph (RX Solutions). This tomograph is equipped with a sealed X-ray generator with a compact tube and an interchangeable-plane sensor fitted with a CsI scintillator. The CT scanner parameters for the session carried out on the mummy labels were set at 90 Kv with an intensity of 195 mA for an acquisition resolution varying between 11 and 42 µm with 2016 projections (that is about 20 images on average per projection) with a frame rate of 12,5 and a temperature of 28°C. Each image was then reconstructed by filtered retroprojection using the XAct software (RX Solutions).</p> <p><strong>Information on placing mummy labels in the tomograph</strong></p> <p>The installation of the mummy labels was the same for all the different labels, some of which varied in size. They were attached to a plastic clamping vice-type support covered in expanded foam to prevent the labels from being marked during clamping, before being placed on the tomograph's rotating platform.</p> <p><strong>Issues relating to the data collected</strong></p> <p>The data collected for this study were carried out to perceive the possibilities of anatomical identification from tomographic images in the transverse plane. The tangential and radial planes were not of sufficiently high resolution due to the dimensions of the mummy labels, see details in [Blondel et al., 2024]. The other objective was to use tomographic imagery to facilitate the acquisition of ring widths in the transverse plane of mummy labels. The mummy labels were not tomographed in their entirety. Only the central part, a few centimetres high, was tomographed to maximise resolution. The number of projections and the resolution per label are specified in table form in [Blondel et al., 2024], as they vary according to the width and thickness of the mummy labels. All raw tomography image data (i.e. without corrections) are available in .tif format. The post-processing steps are described in the methodology of [Blondel et al., 2024].</p> <p><strong>List of Contents</strong></p> <p>The content of the submission is divided into 38 data sets corresponding to the 38 mummy labels. Each set is labelled with the inventory number of the BNU mummy label and its resolution. Each set contains:<br>- all the images of the transverse plane in .tif format, the number of projections of which varies from one label to another depending on the resolution of the acquisitions, see details in [Blondel et al., 2024].<br>- The .xls file containing a summary of the scanner metadata for each of the mummy labels.<br>- The three images processed in the transverse plane for each label, including those used to measure ring width for the 7 labels for which ring width measurement was possible, as presented in [Blondel et al., 2024].<br>- Colour photographs of the front and back of each tomographed mummy label including those on which ring width measurements were taken on their surface, unless otherwise stated<a title="" href="#_ftn1" name="_ftnref1">[1]</a>. All these photographs are marked: Coll._et_photogr._BNU_Strasbourg_OpenLicence, accompanied by the inventory number.</p> <p><strong>Acknowledgments</strong></p> <p>We would also like to thank engineers Damien Favier and Antoine Egele from the Charles Sadron Institute for their work on the tomographic acquisitions carried out on the 38 mummy labels.</p> <div><br> <div> <p><a title="" href="#_ftnref1" name="_ftn1">[1]</a> The photographs of the front and back of mummy label HO255 are not available, as they are currently being studied.</p> </div> </div>
Dataset: Segmentation of cortical bone, trabecular bone, and medullary pores from micro-CT images using 2D and 3D deep learning models
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Micro-CT data of two early Cambrian cnidarian fossils from China
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A qualitative assessment of calcification across species and sexes of European Bufo toads using the micro-CT technique
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Micro-CT analysis of Katian radiolarians from the Malongulli Formation, New South Wales, Australia, and implications for skeletogenesis
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Automated segmentation of insect anatomy from micro-CT images using deep learning
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3D micro-CT image of cichlid fish samples for genetic analysis
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A single- and two-tile tomographic micro-CT data of the terracotta sculpture "the Torso"
<p><strong>Summary</strong></p> <p>This submission contains two (<em><strong>single-tile</strong></em> and <strong><em>two-tile</em></strong>) tomographic dataset of the terracotta object, the "Torso". This data was collected as part of a larger project including a series of similar terracotta objects (of various body parts), more information can be found in [Scholten 2014].</p> <p>The data is made available as part of Case Study 1 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 sample is a terracotta object from the series of various body parts collection by the sculptor Johan Gregor van der Schardt. The sample in particular is called "Torso", which is a hollow clay statue, originally believed to have been created using two moulds of clay put together.</p> <p>The sample was mounted in a bed of foam, and secured with 2 thin plastic sticks through the legs of the statue. This was done to dampen any vibrations from the rotation while the statue is mounted upright. See Figure 4 in [Coban 2020] for photos of the sample in mount.<br> </p> <p><strong>Experimental Plan</strong></p> <p>The data in this submission was collected via the technique of explorative imaging, in which data is collected upon discussion with the expert and any intermediate reconstruction results. The experiments included in this upload first starts off with a single tile, binned acquisition. The sample is then zoomed in and data is collected in two halves (two detector tiles) to capture details in higher resolution. More information on this process is given in Section 3.1 in [Coban 2020].</p> <p>For both experiments, the sample is rotated 360° in circular and continuous motion, with a dark-field (closed-shutter), and 2 flat-field (open-shutter) images taken before and after the acquisition. For the first experiment, <em><strong>single-tile</strong></em>, we collected 1200 projections at 136 micron resolution (size of each pixel on detector plane). For the second experiment, the object was moved closed to the source, and the data was collected in two tiles (spatial tiles in detector space). Each tiled-data folder contains 2001 projections at 50 spatial resolution.</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>single-tile</strong>: A "low" resolution scan, taken to answer the initial question.</li> <li><strong>two-tiles:</strong> A higher resolution scan for studying the finer details such as toolmarks on the interior of the statue; contains <strong><em>t1</em></strong> and <strong><em>t2</em></strong> for tile 1 (top) and tile 2 (bottom) respectively.</li> </ul> <p>Each data folder contains</p> <ul> <li>dark-field (or closed-shutter) image, <em>di0000.tif,</em></li> <li>pre flat-field (or open-shutter before acqusition) image, <em>io0000.tif</em>,</li> <li>post flat-field (or open-shutter after acqusition) image, <em>io0001.tif</em>,</li> <li>raw (unprocessed or uncorrected) projections, <em>scan_*.tif</em>,</li> <li><em>data settings XRE.txt</em>, a text file with scanner metadata,</li> <li><em>scan settings.txt</em>, a text file with scanner metadata in more human readeable format, and</li> <li><em>data settings XRE.ini</em>, a snapshot text file of basic geometry information at the start of a scan.</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> <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 Isabelle Garachon of Rijksmuseum for providing this extra-ordinary sample.</p>
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