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60 results for “Tomographic imaging”
Snow equi-temperature metamorphism described by a phase-field model applicable on micro-tomographic images: prediction of microstructural and transport properties
<p>This dataset provides data described and used in the article submitted to Journal of Advances in Modeling Earth Systems "Snow equi-temperature metamorphism described by a phase-field model applicable on micro-tomographic images: prediction of microstructural and transport properties".</p> <p>It contains .csv files with different properties computed on outputs of the model Snow3D simulating equi-temperature metamorphism. This micro-scale model was used here with experimental micro-tomographic snow images as input and returns series of 3-D images of snow showing features of equi-temperature metamorphism at different time steps as output.</p> <p>In this dataset, you will find two types of files:</p> <p>- the microstructural properties (density, specific surface area, covariance lengths, mean curvature) computed on the simulated images at different time steps.</p> <p>- the transport properties (effective conductivity, normalizes effective vapor diffusion coefficient, permeability) of the simulated images at different time steps.</p> <p>Finally, metadata_simulations.csv gather the information relative to the simulations.</p>
Numerical refractive index correction for the stitching procedure in tomographic quantitative phase imaging – dataset
<p>Raw volumetric data used in the work "Numerical refractive index correction for the stitching procedure in tomographic quantitative phase imaging" (<a href="http://doi.org/10.1364/BOE.466403">doi.org/10.1364/BOE.466403</a>). The data is packaged using the FIJI BigStitcher into HDF5 file. The file is split into 89 parts in ZIP format. Additionally we provide XML file needed for opening the data with BigStitcher and the TXT file with the nominal locations of the volumes based on the readings from the X-Y translation stage. The volumes inside the HDF5 file are already registered for stitching using the BigStitcher pairwise registration and global optimization procedure. Using the BigStitcher option "Resave to TIFF" one can access the raw data that we processed in the work. The processing code which operates on TIFF files is available here: <a href="https://github.com/biopto/QPI-stitching-2D-3D">https://github.com/biopto/QPI-stitching-2D-3D</a>.</p>
Biomimetic robotic skin implemented with hydrogel-elastomer hybrids and tomographic imaging methods
<p>Human skin perceives physical stimuli applied to the body and mitigates the risk of physical interaction through its soft and resilient mechanical properties. Social robots would benefit from whole-body robotic skin (or tactile sensors) resembling human skin in realizing a safe, intuitive, and contact-rich interaction with humans. However, existing soft tactile sensors show several drawbacks (complex structure, poor scalability, and fragility), which limit their application in whole-body robotic skin. Here, we introduce biomimetic robotic skin based on hydrogel-elastomer hybrids and tomographic imaging. The developed skin consists of tough hydrogel and silicone elastomer forming a skin-inspired multilayer structure, achieving sufficient softness and resilience for protection. The sensor structure can also be easily repaired with adhesives even after severe damage (incision). For multimodal tactile sensation, electrodes and microphones are deployed in the sensor structure to measure local resistance changes and vibration due to touch. The ionic hydrogel layer is deformed due to an external force, and the resulting local conductivity changes are measured via electrodes. The microphones also detect the vibration generated from touch to determine the location and type of dynamic tactile stimuli. The measurement data are then converted into multimodal tactile information through tomographic imaging and deep neural networks. We further implement a sensorized cosmetic prosthesis, demonstrating that our design could be used to implement deformable or complex-shaped robotic skin.</p>
Instantaneous, three-dimensional velocity fields past a bio-prosthetic aortic valve measured in-vitro with tomographic particle image velocimetry.
<p>Each folder contains instantaneous, three-dimensional velocity vector data obtained in a simplified model of the aortic root with a distinct size and geometry (small, medium, large, and sinus-less). The specific geometry of each aortic root model is contained in the corresponding folder.</p> <p>The velocity data is structured in the following way: Two separate folders for velocity data in the "ascending aorta" domain (AAo) and in the "sinus of Valsalva" domain (SOV). Each domain contains velocity datasets for instances t=0.00, 0.03, 0.06, ..., 0.39 s (t000, t003, t006, ..., t039). Each velocity dataset contains N=16 phase-locked instantaneous 3D velocity fields.</p> <p>The data was acquired using tomographic particle image velocimetry and a custom built hydraulic setup capable of replicating normal physiological flow conditions in the human aorta (heart rate = 72 bpm, cardiac output = 4.8 l)</p> <p>Data format:</p> <p>- aortic root geometry: STL (the geometry is provided with respect to the reference frame of the velocity data)</p> <p>- velocity data: NPY (NumPy), shape= (N_nodes, 6), columns contain X, Y, Z, U, V, W data, where U, V, W are the X, Y, Z components of the instantaneous vector field</p>
Data support for: "CCPi-Regularisation Toolkit for computed tomographic image reconstruction with proximal splitting algorithms"
<p>Provided tomographic projection data supports the publication in SoftwareX journal "<strong>CCPi-Regularisation Toolkit for computed tomographic image reconstruction with proximal splitting algorithms</strong>" published in 2019.</p> <ul> <li><em>TomoSim_data1550671417.h5</em> - is a simulated 3D tomographic projection data with noise and artifacts. The simulation is implemented using <a href="https://github.com/dkazanc/TomoPhantom">TomoPhantom</a> software.</li> <li><em>DendrData_3D.h5 - </em>is a real dataset obtained at I13 branchline of Diamond Light Source. It features a selected time frame out of dynamically collected tomographic data. Data shows a <a href="https://www.sciencedirect.com/science/article/pii/S1359645418302994?via%3Dihub">dendritic grain growth in Mg alloys</a>.</li> </ul> <p>The scripts to replicate the results shown in the paper are available at the Github page of the project: <a href="https://github.com/vais-ral/CCPi-Regularisation-Toolkit">CCPi-Regularisation-Toolkit</a></p> <p> </p> <p> </p>
Oatmeal Data: Experimental cone-beam tomographic data for techniques to improve image resolution
<p><sub>This submission contains supplementary material to A.A. Hendriksen et al., (2019). Throughout the description, we mention this publication as the "referred paper". </sub></p> <p> </p> <p><strong>Description Summary</strong></p> <p>"Oatmeal Data" is a collection of experimental tomographic data of a plastic jar filled with store-bought mixed-size flake oatmeal. The dataset was collected to test methods specifically developed for improving image resolution in a reconstructed volume (primarily for machine learning).</p> <p>As well as the raw (unprocessed) tomographic data, this submission includes training and test data, weights and geometry parameters, and a text file (Makefile) to reproduce the results presented in the referred paper. The full list of contents is given below. </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 XRE NV and located at CWI. 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. </p> <p> </p> <p><strong>Sample Information</strong></p> <p>The sample consists of a thin-walled plastic far filled with store-bought mixed-sized oatmeal flakes. This sample was chosen due to its repeating/self-similar structure. This self-similarity is an important factor and is exploited in the algorithm for improving image resolution, presented in the referred paper.</p> <p> </p> <p><strong>Experimental Plan</strong></p> <p>Three experiments at two magnification levels were performed, which are denoted by <strong>Zoom1</strong> and <strong>Zoom4</strong>: <em>Zoom1</em> is the dataset collected with magnification factor of 1.09, with the plastic jar filled with oatmeal fully in view. <em>Zoom4 - centre</em> is the sample scanned at magnification of 4.38, with the field of view aligned with the centre of the same (i.e. the centre of the original view in Zoom1). <em>Zoom4 - top</em> is where the tube and the detector are positioned to show the top of the sample (surface level of the oatmeal flakes is visible at the top of the field of view).</p> <p>The datasets were collected over a 360° in circular and continuous motion with 2000 projections distributed evenly over the full circle. The upload includes the raw data collected following the experimental plan, which includes additional projections for normalization: one dark-field (closed shutter) and two (pre- and post-) flat-field (open shutter) images. Each dataset is packaged with the full list of data and scan settings files (in .txt format). These files contain the tube settings, scan geometry and full list of motor positions at the start of the scan. In addition, ASTRA geometry format file is included for each data in the geometries folder. </p> <p> </p> <p><strong>List of Contents</strong></p> <p>The contents of the submission (sorted into folders) is given below.</p> <ul> <li><strong>data</strong>: The raw (uncorrected) datasets (including dark and flat fields) for <ul> <li><em>Zoom1,</em></li> <li><em>Zoom4-centre,</em></li> <li><em>Zoom4-top.</em></li> </ul> </li> <li><em><strong>geometries</strong></em>: The set of parameters needed for the ASTRA forward and back projectors.</li> <li><em><strong>test</strong></em>: Test dataset compiled as detailed in the referred paper, or in <a href="https://ahendriksen.github.io/on_the_fly/readme.html">On-the-fly GitHub documentation.</a></li> <li><em><strong>train</strong></em>: Training dataset as detailed in the referred paper, or in <a href="https://ahendriksen.github.io/on_the_fly/readme.html">On-the-fly GitHub documentation.</a></li> <li><em><strong>weights</strong></em>: Weights as detailed in the referred paper, or in <a href="https://ahendriksen.github.io/on_the_fly/readme.html">On-the-fly GitHub documentation.</a></li> <li><em><strong>Makefile</strong></em>: File containing steps to reproduce results presented in the referred paper.</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 useful 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> <li>allard.hendriksen [at] cwi.nl</li> </ul> <p> </p>
Text-fig. 50. Scanning electron microscope (SEM) and synchrotron radiation X-ray tomographic microscopy (SRXTM) images of a flower and mature carpels of Reyanthus lusitanicus gen. et sp. nov.; Torres Vedras locality, Portugal. a) Holotype; multicarpellate flower showing numerous carpels surrounded by remains of the androecium and perianth; note the bract subtending the flower (arrowhead); b, c) Longitudinal sections perpendicular to section in (f) (b, SRXTM orthoslice xz0461) and (c, SRXTM cut voltex xz0540-0580) showing receptacle, carpels and remains of the androecium and perianth; note prominent cavities formed by the oil cells, subtending bract (arrow) and bract subtending fragmentary bud (arrowhead); d, e) Apical (d) and lateral (e) views of gynoecium showing laterally flattened carpels and dorsi-ventrally flattened stamen or staminode (* in e); f) Longitudinal section (SRXTM orthoslice yz0405) of gynoecium showing conical receptacle and carpels with densely spaced oil cells; g, h) Mature carpel of Reyanthus lusitanicus gen. et sp. nov. showing slightly curved form, rounded apex and base that tapers toward the attachment to the receptacle; i) Surface of carpel showing embedded oil cells; j) Transverse section through three carpels showing attachment of developing ovules near the ventral sutures and oil cells in the wall just below the surface (SRXTM cut voltex xy0770-0845). Specimens TV299-S136716 (holotype; a–f), TV299-S136717 (g–j). Scale bars 300 Μm (a–d, f–h), 150 Μm (e, j), 30 Μm (i). in The Early Cretaceous Mesofossil Flora Of Torres Vedras (Ne Of Forte Da Forca), Portugal: A Palaeofloristic Analysis Of An Early Angiosperm Community
Text-fig. 50. Scanning electron microscope (SEM) and synchrotron radiation X-ray tomographic microscopy (SRXTM) images of a flower and mature carpels of Reyanthus lusitanicus gen. et sp. nov.; Torres Vedras locality, Portugal. a) Holotype; multicarpellate flower showing numerous carpels surrounded by remains of the androecium and perianth; note the bract subtending the flower (arrowhead); b, c) Longitudinal sections perpendicular to section in (f) (b, SRXTM orthoslice xz0461) and (c, SRXTM cut voltex xz0540-0580) showing receptacle, carpels and remains of the androecium and perianth; note prominent cavities formed by the oil cells, subtending bract (arrow) and bract subtending fragmentary bud (arrowhead); d, e) Apical (d) and lateral (e) views of gynoecium showing laterally flattened carpels and dorsi-ventrally flattened stamen or staminode (* in e); f) Longitudinal section (SRXTM orthoslice yz0405) of gynoecium showing conical receptacle and carpels with densely spaced oil cells; g, h) Mature carpel of Reyanthus lusitanicus gen. et sp. nov. showing slightly curved form, rounded apex and base that tapers toward the attachment to the receptacle; i) Surface of carpel showing embedded oil cells; j) Transverse section through three carpels showing attachment of developing ovules near the ventral sutures and oil cells in the wall just below the surface (SRXTM cut voltex xy0770-0845). Specimens TV299-S136716 (holotype; a–f), TV299-S136717 (g–j). Scale bars 300 Μm (a–d, f–h), 150 Μm (e, j), 30 Μm (i).
Text-fig. 49. Scanning electron microscope (SEM) and synchrotron radiation X-ray tomographic microscopy (SRXTM) images of Vedresia elliptica gen. et sp. nov. (a–c) and a multicarpellate fruit of Choffaticarpus compactus gen. et sp. nov. and associated pollen (d–j); Torres Vedras locality, Portugal. a) Holotype; small fruit showing apical stigmatic region with attached pollen; b) Group of pollen grains from the stigmatic surface of the fruit in (a) showing the long colpus and reticulate tectum; c) Pollen grains from the stigmatic surface showing the long colpus and well developed reticulum, with smooth muri and short columellae in The Early Cretaceous Mesofossil Flora Of Torres Vedras (Ne Of Forte Da Forca), Portugal: A Palaeofloristic Analysis Of An Early Angiosperm Community
Text-fig. 49. Scanning electron microscope (SEM) and synchrotron radiation X-ray tomographic microscopy (SRXTM) images of Vedresia elliptica gen. et sp. nov. (a–c) and a multicarpellate fruit of Choffaticarpus compactus gen. et sp. nov. and associated pollen (d–j); Torres Vedras locality, Portugal. a) Holotype; small fruit showing apical stigmatic region with attached pollen; b) Group of pollen grains from the stigmatic surface of the fruit in (a) showing the long colpus and reticulate tectum; c) Pollen grains from the stigmatic surface showing the long colpus and well developed reticulum, with smooth muri and short columellae
Text-fig. 24. Scanning electron microscope (SEM) images (a, c, d) and synchrotron radiation X-ray tomographic microscopy (SRXTM) images (b, e) of fruits and seeds of Serialis antiqua (a, b) and Serialis parva (c–e); Torres Vedras locality, Portugal. a, b) Serialis antiqua lateral view of fruit showing smooth partly abraded fruit wall (a) and longitudinal section (b, SRXTM orthoslice yz0862) showing six closely adhering seeds, some of which are mature with well-preserved nutritive tissue; c–e) Serialis parva lateral view of fruit showing faint ribs (c), finely pitted seed surface with undulate anticlinal walls of the exotestal cells (d), and transverse section showing two closely adhering seeds (SRXTM orthoslice xy0913, e). Specimens, TV43-S174480 (a, b), TV43-S170076 (c), TV43-S170079 (d), TV43-S174477 (e). Scale bars 300 Μm (a–c, e), 50 Μm (d). in The Early Cretaceous Mesofossil Flora Of Torres Vedras (Ne Of Forte Da Forca), Portugal: A Palaeofloristic Analysis Of An Early Angiosperm Community
Text-fig. 24. Scanning electron microscope (SEM) images (a, c, d) and synchrotron radiation X-ray tomographic microscopy (SRXTM) images (b, e) of fruits and seeds of Serialis antiqua (a, b) and Serialis parva (c–e); Torres Vedras locality, Portugal. a, b) Serialis antiqua lateral view of fruit showing smooth partly abraded fruit wall (a) and longitudinal section (b, SRXTM orthoslice yz0862) showing six closely adhering seeds, some of which are mature with well-preserved nutritive tissue; c–e) Serialis parva lateral view of fruit showing faint ribs (c), finely pitted seed surface with undulate anticlinal walls of the exotestal cells (d), and transverse section showing two closely adhering seeds (SRXTM orthoslice xy0913, e). Specimens, TV43-S174480 (a, b), TV43-S170076 (c), TV43-S170079 (d), TV43-S174477 (e). Scale bars 300 Μm (a–c, e), 50 Μm (d).
Text-fig. 19. Scanning electron microscope (SEM; d, e) and synchrotron radiation X-ray tomographic microscopy (SRXTM; a–c) images of a seed of Kvacekispermum costatum sp. nov. (a–c) and Kvacekispermum sp. (d, e); Torres Vedras locality, Portugal. a, b) Isolated, abraded seeds showing densely spaced longitudinal ridges; c) Detail of abraded seed in (b) showing surface of endotesta with imprints of crystals; d) Isolated, abraded seed showing longitudinal ridges; e) Abraded seed surface showing surface of endotesta with imprints of crystals. Specimens, TV44-S174098 (holotype; a), TV38-S174099 (b, c), TV43-S174612 (d, e). Scale bars 300 Μm (a, b, d), 50 Μm (c, e). in The Early Cretaceous Mesofossil Flora Of Torres Vedras (Ne Of Forte Da Forca), Portugal: A Palaeofloristic Analysis Of An Early Angiosperm Community
Text-fig. 19. Scanning electron microscope (SEM; d, e) and synchrotron radiation X-ray tomographic microscopy (SRXTM; a–c) images of a seed of Kvacekispermum costatum sp. nov. (a–c) and Kvacekispermum sp. (d, e); Torres Vedras locality, Portugal. a, b) Isolated, abraded seeds showing densely spaced longitudinal ridges; c) Detail of abraded seed in (b) showing surface of endotesta with imprints of crystals; d) Isolated, abraded seed showing longitudinal ridges; e) Abraded seed surface showing surface of endotesta with imprints of crystals. Specimens, TV44-S174098 (holotype; a), TV38-S174099 (b, c), TV43-S174612 (d, e). Scale bars 300 Μm (a, b, d), 50 Μm (c, e).
Text-fig. 17. Scanning electron microscope (SEM) and synchrotron radiation X-ray tomographic microscopy (SRXTM) images of a fruit of Canrightia elongata sp. nov. (a–g) and isolated Canrightia-like seeds (h–j); Torres Vedras locality, Portugal. a–c) Holotype; fruit in lateral view showing four fused tepals at the base (c, upper arrowheads) and prominent cavities in the fruit wall formed by scattered oil bodies and possible subtending bract (c, lower arrowhead); d) Transverse section (SRXTM orthoslice xy1510) through the fruit showing three locules, one with the remains of the endothelium (top left, 1), the other two (2, 3) with remains of presumed endosperm tissue; note that the locule to the right (3) is crushed; e, f) Radial longitudinal (e; SRXTM orthoslice xz1212) in The Early Cretaceous Mesofossil Flora Of Torres Vedras (Ne Of Forte Da Forca), Portugal: A Palaeofloristic Analysis Of An Early Angiosperm Community
Text-fig. 17. Scanning electron microscope (SEM) and synchrotron radiation X-ray tomographic microscopy (SRXTM) images of a fruit of Canrightia elongata sp. nov. (a–g) and isolated Canrightia-like seeds (h–j); Torres Vedras locality, Portugal. a–c) Holotype; fruit in lateral view showing four fused tepals at the base (c, upper arrowheads) and prominent cavities in the fruit wall formed by scattered oil bodies and possible subtending bract (c, lower arrowhead); d) Transverse section (SRXTM orthoslice xy1510) through the fruit showing three locules, one with the remains of the endothelium (top left, 1), the other two (2, 3) with remains of presumed endosperm tissue; note that the locule to the right (3) is crushed; e, f) Radial longitudinal (e; SRXTM orthoslice xz1212)
Text-fig. 14. Scanning electron microscope (SEM) and synchrotron radiation X-ray tomographic microscopy (SRXTM) images of seeds of Gastonispermum antiquum sp. nov. (a–e) and possible fruits (f–h); Torres Vedras locality, Portugal. a–c) Lateral view of seeds (holotype figured in b) showing the hilar-micropylar area and the course of the raphe; note the close association of hilum (arrowhead) and micropyle; d) Detail of seed wall showing the undulating surface of the exotesta composed of cells with sinuous cell outlines; e) Longitudinal section (orthoslice xy0914) through the hilar-micropylar area showing the hilum (arrowhead), the thickening of the endotesta around the micropyle and the course of the raphe within the exotesta (arrow); f–h) Fruits containing in The Early Cretaceous Mesofossil Flora Of Torres Vedras (Ne Of Forte Da Forca), Portugal: A Palaeofloristic Analysis Of An Early Angiosperm Community
Text-fig. 14. Scanning electron microscope (SEM) and synchrotron radiation X-ray tomographic microscopy (SRXTM) images of seeds of Gastonispermum antiquum sp. nov. (a–e) and possible fruits (f–h); Torres Vedras locality, Portugal. a–c) Lateral view of seeds (holotype figured in b) showing the hilar-micropylar area and the course of the raphe; note the close association of hilum (arrowhead) and micropyle; d) Detail of seed wall showing the undulating surface of the exotesta composed of cells with sinuous cell outlines; e) Longitudinal section (orthoslice xy0914) through the hilar-micropylar area showing the hilum (arrowhead), the thickening of the endotesta around the micropyle and the course of the raphe within the exotesta (arrow); f–h) Fruits containing
Text-fig. 50. Scanning electron microscope (SEM, a, b) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c–f) images of "Foveolate seed sp. 2"; Catefica locality, Portugal. a, b) Lateral (a) and apical (b) views of seed showing the coarsely foveolate surface; note the truncate apex and the slightly depressed hilar-micropylar region; c) Longitudinal section (volume rendering cut between orthoslices xz0740 and xz0840) through the middle of seed showing the truncate apex with slightly depressed hilar-micropylar region and basal rounded chalazal region; note thick outer integument (oi) composed of an exotesta of thickwalled palisade-like cells and a thin inner integument (ii); d, e, f) Transverse (d, orthoslice xy0800) and longitudinal sections (e, orthoslice xz1100, f, orthoslice yz0800) through seed hilar-micropylar region, showing the exotesta comprised of the thick-walled palisade-like cells of the outer integument (oi), small, thin-walled meso- endotestal cells of the outer integument (arrows) and thin inner integument (ii). Specimen, Catefica 153-S172332 (a–f). Scale bars = 300 Μm (a–f). in The Early Cretaceous Mesofossil Flora Of Catefica, Portugal: Angiosperms
Text-fig. 50. Scanning electron microscope (SEM, a, b) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c–f) images of "Foveolate seed sp. 2"; Catefica locality, Portugal. a, b) Lateral (a) and apical (b) views of seed showing the coarsely foveolate surface; note the truncate apex and the slightly depressed hilar-micropylar region; c) Longitudinal section (volume rendering cut between orthoslices xz0740 and xz0840) through the middle of seed showing the truncate apex with slightly depressed hilar-micropylar region and basal rounded chalazal region; note thick outer integument (oi) composed of an exotesta of thickwalled palisade-like cells and a thin inner integument (ii); d, e, f) Transverse (d, orthoslice xy0800) and longitudinal sections (e, orthoslice xz1100, f, orthoslice yz0800) through seed hilar-micropylar region, showing the exotesta comprised of the thick-walled palisade-like cells of the outer integument (oi), small, thin-walled meso- endotestal cells of the outer integument (arrows) and thin inner integument (ii). Specimen, Catefica 153-S172332 (a–f). Scale bars = 300 Μm (a–f).
Text-fig. 49. Scanning electron microscope (SEM, a, b) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c–e) images of "Foveolate seed sp. 1"; Catefica locality, Portugal. a) Lateral view of seed showing foveolate surface; note the slightly pointed hilar-micropylar region with the preservation of a presumed secretion (arrow) from the micropyle; b) Detail of seed surface showing shallow pitting and very faint outlines of the undulate anticlinal walls of the exotestal cells; c) Longitudinal section (volume rendering cut between orthoslices yz0450 and yz0460) through the middle of the seed showing the slightly pointed hilarmicropylar region and the rounded chalazal region; note the thick exotesta of the outer integument composed of thick-walled palisade-like cells (oi); note partial preservation of large cells of the nutritive tissue (nu) and the smaller cells of the embryo (em) at the micropylar end of the seed; d, e) Longitudinal sections (d, orthoslice xz0750, e, orthoslice yz0485) through middle of the seed perpendicular to each other showing the hilar-micropylar region with the preservation of a presumed secretion from micropyle (e, arrow), thick palisade-like cells of outer integument (oi), larger cells of the nutritive tissue (nu) and remains of the smaller cells of the embryo (em). Specimen, Catefica 49-S172316 (a–e). Scale bars = 300 Μm (a, c–e), 50 Μm (b). in The Early Cretaceous Mesofossil Flora Of Catefica, Portugal: Angiosperms
Text-fig. 49. Scanning electron microscope (SEM, a, b) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c–e) images of "Foveolate seed sp. 1"; Catefica locality, Portugal. a) Lateral view of seed showing foveolate surface; note the slightly pointed hilar-micropylar region with the preservation of a presumed secretion (arrow) from the micropyle; b) Detail of seed surface showing shallow pitting and very faint outlines of the undulate anticlinal walls of the exotestal cells; c) Longitudinal section (volume rendering cut between orthoslices yz0450 and yz0460) through the middle of the seed showing the slightly pointed hilarmicropylar region and the rounded chalazal region; note the thick exotesta of the outer integument composed of thick-walled palisade-like cells (oi); note partial preservation of large cells of the nutritive tissue (nu) and the smaller cells of the embryo (em) at the micropylar end of the seed; d, e) Longitudinal sections (d, orthoslice xz0750, e, orthoslice yz0485) through middle of the seed perpendicular to each other showing the hilar-micropylar region with the preservation of a presumed secretion from micropyle (e, arrow), thick palisade-like cells of outer integument (oi), larger cells of the nutritive tissue (nu) and remains of the smaller cells of the embryo (em). Specimen, Catefica 49-S172316 (a–e). Scale bars = 300 Μm (a, c–e), 50 Μm (b).
Text-fig. 48. Scanning electron microscope (SEM, a, b, d–i) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c) images of "One-seeded fruit sp. 2" (a–c), "Unassigned, unnamed fruits" (d–f), Pazliopsis sp. (g, h) and "Follicular fruit with exotestal seeds" (i); Catefica locality, Portugal. a) Lateral view of fruit showing remains of tepals (te) and a single stamen (st); b) Detail of fruit surface showing short, scale-like, peltate trichomes (arrows); c) Transverse section (orthoslice xy0475) of fruit containing a single seed showing tepals (te) and fruit surface with peltate trichomes (arrow); note partial preservation of internal nutritive tissue; d) Fruit in lateral view showing the almost smooth epidermis with scattered openings; e) Detail of fruit surface from (d) showing the scattered openings in the epidermis interpreted as burst secretory cells (arrows); f) Dorsi-ventral view of tiny fruit with an irregular surface; g) Lateral view of exotestal seed assigned to cf. Pazliopsis sp.; h) Detail of fruit surface of seed in (g) showing faint facets of outer palisade layer with fine jigsaw-puzzle outlines of the anticlinal walls; i) Lateral view of fragmentary follicular fruit showing two exposed exotestal seeds. Specimens, Catefica 153-S174314 (a–c), Catefica 50-S170420 (d, e), Catefica 152-S174300 (f), Catefica 49-S172319 (g, h), Catefica MM158-P0272 (i). Scale bars = 300 Μm (a, c, d, f, g, i), 100 Μm (e), 50 Μm (b, h). in The Early Cretaceous Mesofossil Flora Of Catefica, Portugal: Angiosperms
Text-fig. 48. Scanning electron microscope (SEM, a, b, d–i) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c) images of "One-seeded fruit sp. 2" (a–c), "Unassigned, unnamed fruits" (d–f), Pazliopsis sp. (g, h) and "Follicular fruit with exotestal seeds" (i); Catefica locality, Portugal. a) Lateral view of fruit showing remains of tepals (te) and a single stamen (st); b) Detail of fruit surface showing short, scale-like, peltate trichomes (arrows); c) Transverse section (orthoslice xy0475) of fruit containing a single seed showing tepals (te) and fruit surface with peltate trichomes (arrow); note partial preservation of internal nutritive tissue; d) Fruit in lateral view showing the almost smooth epidermis with scattered openings; e) Detail of fruit surface from (d) showing the scattered openings in the epidermis interpreted as burst secretory cells (arrows); f) Dorsi-ventral view of tiny fruit with an irregular surface; g) Lateral view of exotestal seed assigned to cf. Pazliopsis sp.; h) Detail of fruit surface of seed in (g) showing faint facets of outer palisade layer with fine jigsaw-puzzle outlines of the anticlinal walls; i) Lateral view of fragmentary follicular fruit showing two exposed exotestal seeds. Specimens, Catefica 153-S174314 (a–c), Catefica 50-S170420 (d, e), Catefica 152-S174300 (f), Catefica 49-S172319 (g, h), Catefica MM158-P0272 (i). Scale bars = 300 Μm (a, c, d, f, g, i), 100 Μm (e), 50 Μm (b, h).
Text-fig. 47. Synchrotron radiation X-ray tomographic microscopy (SRXTM) images of "One-seeded fruit sp. 1"; Catefica locality, Portugal. a, b) Lateral view of fruits showing slightly sinuous ventral margin and the curved stalk; c, d) Longitudinal sections perpendicular to each other through the median part of fruit and its single seed (c, orthoslice yz0652, d, xz0739) showing the bitegmic seed closely adhering to the fruit wall (fw); the several cell layer thick outer integument (oi) and the membranous inner integument (ii); note the vascular bundle (vb) branching into a dorsal and lateral bundle near the base of the fruit; e) Transverse section (orthoslice xy0600) showing fruit wall (fw) and outer (oi) and inner (ii) integuments of the seed; f) Longitudinal section (orthoslice yz0871) through the micropylar region showing micropyle (mi) formed from membranous inner integument (ii). Specimens, Catefica 49-S174927 (a), Catefica 49-S174923 (b, f), Catefica 49-S174769 (c–e). Scale bars = 300 Μm (a–d), 100 Μm (e, f). in The Early Cretaceous Mesofossil Flora Of Catefica, Portugal: Angiosperms
Text-fig. 47. Synchrotron radiation X-ray tomographic microscopy (SRXTM) images of "One-seeded fruit sp. 1"; Catefica locality, Portugal. a, b) Lateral view of fruits showing slightly sinuous ventral margin and the curved stalk; c, d) Longitudinal sections perpendicular to each other through the median part of fruit and its single seed (c, orthoslice yz0652, d, xz0739) showing the bitegmic seed closely adhering to the fruit wall (fw); the several cell layer thick outer integument (oi) and the membranous inner integument (ii); note the vascular bundle (vb) branching into a dorsal and lateral bundle near the base of the fruit; e) Transverse section (orthoslice xy0600) showing fruit wall (fw) and outer (oi) and inner (ii) integuments of the seed; f) Longitudinal section (orthoslice yz0871) through the micropylar region showing micropyle (mi) formed from membranous inner integument (ii). Specimens, Catefica 49-S174927 (a), Catefica 49-S174923 (b, f), Catefica 49-S174769 (c–e). Scale bars = 300 Μm (a–d), 100 Μm (e, f).
Text-fig. 43. Synchrotron radiation X-ray tomographic microscopy SRXTM images of "Tricarpellate flower sp. 2"; Catefica locality, Portugal. a) Lateral view of floral structure (volume rendering) showing the apical projection of the carpels and the semiinferior organization; b) Apical view of floral structure (volume rendering) showing the triangular shape of the hypanthial rim, the tricarpellate ovary with a single apical style; note that one locule is fully developed while the other two are collapsed; note also slits of unknown nature in the corners of the triangular hypanthial rim (arrows); c) Transverse section (orthoslice xy0712) close to the floral apex showing the locule of the one fully developed carpel with ovules borne along ventral placentae; note amorphous substance (asterisk) associated with the developing ovules that fills part of the locule space; d) Longitudinal section (orthoslice xz0858) through the locule of the one fully developed carpel showing the semi-inferior organization and ovules arranged along the full length of the carpel; note amorphous substance (asterisk) associated with the developing ovules that fills part of the locule space; e) Tangential longitudinal section (orthoslice yz1019) through the one fully developed locule, showing the densely packed ovules and the amorphous substance (asterisk) with which they are associated. Specimen, Catefica 50-S174901 (a–e). Scale bars = 300 Μm (a–e). in The Early Cretaceous Mesofossil Flora Of Catefica, Portugal: Angiosperms
Text-fig. 43. Synchrotron radiation X-ray tomographic microscopy SRXTM images of "Tricarpellate flower sp. 2"; Catefica locality, Portugal. a) Lateral view of floral structure (volume rendering) showing the apical projection of the carpels and the semiinferior organization; b) Apical view of floral structure (volume rendering) showing the triangular shape of the hypanthial rim, the tricarpellate ovary with a single apical style; note that one locule is fully developed while the other two are collapsed; note also slits of unknown nature in the corners of the triangular hypanthial rim (arrows); c) Transverse section (orthoslice xy0712) close to the floral apex showing the locule of the one fully developed carpel with ovules borne along ventral placentae; note amorphous substance (asterisk) associated with the developing ovules that fills part of the locule space; d) Longitudinal section (orthoslice xz0858) through the locule of the one fully developed carpel showing the semi-inferior organization and ovules arranged along the full length of the carpel; note amorphous substance (asterisk) associated with the developing ovules that fills part of the locule space; e) Tangential longitudinal section (orthoslice yz1019) through the one fully developed locule, showing the densely packed ovules and the amorphous substance (asterisk) with which they are associated. Specimen, Catefica 50-S174901 (a–e). Scale bars = 300 Μm (a–e).
Text-fig. 42. Scanning electron microscope (SEM, a, b, e) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c, d, f–g) images of "Tricarpellate flower sp. 1"; Catefica locality, Portugal. a, b) Flower bud in two different lateral views showing semiinferior ovary and perianth; c) Longitudinal section (orthoslice yz0340) through flower bud in (a and b) showing the semi-inferior gynoecium and perigynous insertion of other floral parts; d) Volume rendering of flower bud with pedicel preserved; note the depression/split in one of the corner apparently separating two perianth lobes of the outer perianth whorl (t-o) and exposing one tepal of the inner whorl (t-i); e) Flower bud with pedicel preserved; note broad tepals of the outer whorl (t-o) and tepal of the inner whorl abraded exposing a broad stamen (st); f, g) Transverse sections through flower bud in (a and b) at two different levels above the insertion of the perianth (f, rec-file 1310; g, xy0280) showing the trimerous organization of the flower and the free, laterally flattened carpels; yellow indicates the two whorls of the androecium, each with three stamens. Specimens, Catefica 50-S171520 (a–c, f), Catefica 50-S174902 (d), Catefica MM154-P0271 (e), Catefica 49-S175354 (g). Scale bars = 300 Μm (a–e). in The Early Cretaceous Mesofossil Flora Of Catefica, Portugal: Angiosperms
Text-fig. 42. Scanning electron microscope (SEM, a, b, e) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c, d, f–g) images of "Tricarpellate flower sp. 1"; Catefica locality, Portugal. a, b) Flower bud in two different lateral views showing semiinferior ovary and perianth; c) Longitudinal section (orthoslice yz0340) through flower bud in (a and b) showing the semi-inferior gynoecium and perigynous insertion of other floral parts; d) Volume rendering of flower bud with pedicel preserved; note the depression/split in one of the corner apparently separating two perianth lobes of the outer perianth whorl (t-o) and exposing one tepal of the inner whorl (t-i); e) Flower bud with pedicel preserved; note broad tepals of the outer whorl (t-o) and tepal of the inner whorl abraded exposing a broad stamen (st); f, g) Transverse sections through flower bud in (a and b) at two different levels above the insertion of the perianth (f, rec-file 1310; g, xy0280) showing the trimerous organization of the flower and the free, laterally flattened carpels; yellow indicates the two whorls of the androecium, each with three stamens. Specimens, Catefica 50-S171520 (a–c, f), Catefica 50-S174902 (d), Catefica MM154-P0271 (e), Catefica 49-S175354 (g). Scale bars = 300 Μm (a–e).
Text-fig. 44. Scanning electron microscope (SEM, a, b) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c, d) images of "Hexacarpellate flower". a) Lateral view of flower showing epigynous organization with remains of tepals inserted at top of the hypanthium; b) Detail of apical part of flower showing laminar structures (arrows) that may be stamen bases, adhering to, or fused with, the tepals; c) Longitudinal section (orthoslice yz0540) of flower through the median plane showing the epigynous organization and central axis with ovules (arrows); d) Transverse section (orthoslice xy1250) through the ovary of the flower showing the hexagonal outline, the six locules and ovules (arrows) borne near the center of the gynoecium. Specimen, Catefica 153-S174313 (a–d). Scale bars = 300 Μm (a, c), 100 Μm (b, d). in The Early Cretaceous Mesofossil Flora Of Catefica, Portugal: Angiosperms
Text-fig. 44. Scanning electron microscope (SEM, a, b) and synchrotron radiation X-ray tomographic microscopy (SRXTM, c, d) images of "Hexacarpellate flower". a) Lateral view of flower showing epigynous organization with remains of tepals inserted at top of the hypanthium; b) Detail of apical part of flower showing laminar structures (arrows) that may be stamen bases, adhering to, or fused with, the tepals; c) Longitudinal section (orthoslice yz0540) of flower through the median plane showing the epigynous organization and central axis with ovules (arrows); d) Transverse section (orthoslice xy1250) through the ovary of the flower showing the hexagonal outline, the six locules and ovules (arrows) borne near the center of the gynoecium. Specimen, Catefica 153-S174313 (a–d). Scale bars = 300 Μm (a, c), 100 Μm (b, d).
Text-fig. 7. Scanning electron microscope (SEM, a–c, e, f) and synchrotron radiation X-ray tomographic microscopy (SRXTM, d) images of fruits and pollen grains of Hedyflora crystallifera; Catefica locality, Portugal. a, b) Lateral view of fruits showing the remains of apical tepals and remains of the hypanthium, which is thicker on the edges of the fruit in (b) (arrows); c) Detail of hypanthium surface between the thickenings on the edges of the fruit showing polygonal cells with a central papilla; d) Transverse section (orthoslice xy0600) of fruit and seed showing the finely crystalliferous endotesta (arrowhead) and sclerified outer tegmen (asterisk); e) Distal view of pollen grain from surface of fruit showing the poorly defined tetrachotomocolpate aperture (daggers indicating the four arms of the aperture) and semi-tectate, reticulate tectum; f) Detail of pollen wall showing narrow muri with indistinctly beaded surface ornamentation of minute verrucae in poorly defined rows and supported by long columellae. Specimens, Catefica 49-S172313 (a), Catefica 49-S153159 (b), Catefica 49-S172324 (c), Catefica 49-S172325 (d), Catefica 50-S170453 (e, f). Scale bars = 300 Μm (a, b), 100 Μm (d), 50 Μm (c), 6 Μm (e), 1.5 Μm (f). in The Early Cretaceous Mesofossil Flora Of Catefica, Portugal: Angiosperms
Text-fig. 7. Scanning electron microscope (SEM, a–c, e, f) and synchrotron radiation X-ray tomographic microscopy (SRXTM, d) images of fruits and pollen grains of Hedyflora crystallifera; Catefica locality, Portugal. a, b) Lateral view of fruits showing the remains of apical tepals and remains of the hypanthium, which is thicker on the edges of the fruit in (b) (arrows); c) Detail of hypanthium surface between the thickenings on the edges of the fruit showing polygonal cells with a central papilla; d) Transverse section (orthoslice xy0600) of fruit and seed showing the finely crystalliferous endotesta (arrowhead) and sclerified outer tegmen (asterisk); e) Distal view of pollen grain from surface of fruit showing the poorly defined tetrachotomocolpate aperture (daggers indicating the four arms of the aperture) and semi-tectate, reticulate tectum; f) Detail of pollen wall showing narrow muri with indistinctly beaded surface ornamentation of minute verrucae in poorly defined rows and supported by long columellae. Specimens, Catefica 49-S172313 (a), Catefica 49-S153159 (b), Catefica 49-S172324 (c), Catefica 49-S172325 (d), Catefica 50-S170453 (e, f). Scale bars = 300 Μm (a, b), 100 Μm (d), 50 Μm (c), 6 Μm (e), 1.5 Μm (f).
ScienceDex guides
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
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.