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30 results for “3D histology”
Fig. 2 a –d in 3D-microanatomy and histology of the hydrothermal vent gastropod Lurifax vitreus Warén & Bouchet, 2001 (Heterobranchia: Orbitestellidae) and comparisons with Ectobranchia
Fig. 2 a –d Mantle cavity development to posterior. a 3Dreconstruction of mantle cavity and surrounding organs. b Anterior part of mantle cavity. c middle part of mantle cavity. d posterior part of mantle cavity. at atrium. cf Ventral ciliated fold, cr dorsal ciliated ridge, e eye, gd gonoduct (for separation of the different gland epithelia see Fig. 4), ge granular epithelium, k kidney, mc mantle cavity, oe oesophagus, pc pericard, ph pharynx, pmg pigmented mantle gland, ppg posterior pedal gland, r radula, re rectum, sg salivary glands, st stomach, ve ventricle, vn visceral nerve
3D MRE-Based Evaluation of Meningioma Mechanical Properties and Histological Features
ClinicalTrials.gov study NCT06955208. IPD Sharing: NO. Countries: 1. Publications: 3.
Data from: Computational 3D histological phenotyping of whole zebrafish by X-ray histotomography
Organismal phenotypes frequently involve multiple organ systems. Histology is a powerful way to detect cellular and tissue phenotypes, but is largely descriptive and subjective. To determine how synchrotron-based X-ray micro-tomography (micro-CT) can yield 3-dimensional whole-organism images suitable for quantitative histological phenotyping, we scanned whole zebrafish, a small vertebrate model with diverse tissues, at ~1 micron voxel resolutions. Using micro-CT optimized for cellular characterization (histo-tomography), brain nuclei can be computationally segmented and assigned to brain regions. Shape and volume can be computed for populations of nuclei, motor neurons and red blood cells. Computed cell density revealed striking individual phenotypic variation. Unlike histology, histo-tomography allows the detection of phenotypes that require millimeter scale context in multiple planes. We expect the computational and visual insights into 3D tissue architecture provided by histo-tomography to be useful for reference atlases, hypothesis generation, comprehensive organismal screens, and diagnostics.
Data from: Computational 3D histological phenotyping of whole zebrafish by X-ray histotomography
Open the record for dataset details and reuse information.
Correlation of FAZA PET Hypoxia Imaging To 3D Histology in Oral Tongue Cancer
ClinicalTrials.gov study NCT03181035. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Fig. 6 in Comparative 3D microanatomy and histology of the eyes and central nervous systems in coleoid cephalopod hatchlings
Fig. 6 Comparative histology of the central nervous system I (transversal sections at the level of optic commissure). a Sepia officinalis (Richardson), b Rossia macrosoma (Azan), c Sepietta obscura (Trichrome de Masson), d Idiosepius notoides (Richardson), e Loligo vulgaris (Richardson), f Octopus vulgaris (Azan). Labels: bpvc= connectivum brachiopallioviscerale, dbl=dorsal basal lobe, doc=dorsal optic commissure, es=esophagus, mbl=median basal lobe, pdc= peduncle commissure, pdl= peduncle lobe, pl =pedal lobe, psd=posterior salivary duct, spc= suprapedal commissure, voc= ventral optic commissure, ys= yolk sac
Fig. 5 in Comparative 3D microanatomy and histology of the eyes and central nervous systems in coleoid cephalopod hatchlings
Fig. 5 Comparative histology of the optic lobes with plexiform layers (transversal sections). a Sepia officinalis (Richardson), b Rossia macrosoma (Azan), c Sepietta obscura (Azan), d surface renderings of the spongious medulla neuropils (violet) surrounded by outer plexiform layers (purpur, cut); in Loligo an additional inner plexiform layer (pink) is visible; in I. notoides the neuropils were not reconstructed due to poor
Fig. 16 in Comparative 3D microanatomy and histology of the eyes and central nervous systems in coleoid cephalopod hatchlings
Fig. 16 Octopus vulgaris hatchling: histology of the head region (transversal sections; Azan staining; see also interactive supplementary figure 6). a Overview with selected planes BH (3D reconstruction; left side view). b Brachial crown, yolk sac. c Buccal mass, anterior portion of the eyes. d Midline of eyes, radula. e Central lobus opticus just behind the eyes, anterior funnel. f Lobus opticus with optic commissure, statocysts. g Palliovisceral lobes, statocysts. h Stellate ganglion, posterior salivary glands, digestive gland. Labels: a 1–4=arms 1–4, bm=buccal mass, dbl=dorsal basal lobe, dg=digestive gland, es=esophagus, ey=eye, fu=funnel, le=lens, mbl=median basal lobe, nas=superior antorbital nerve, np=pallial nerve, ol=optic lobe (medullar core), opl=outer plexiform layer, pbrl=posterior brachial lobe, pdc=peduncle commissure, pdl=peduncle lobe, pl= pedal lobe, psd=posterior salivary duct, psg=posterior salivary gland, pvl=palliovisceral lobe, ra=radula, rc=radula cartilage, re=retina, sg=stellate ganglion, sfl=superior frontal lobe, srg= subradular ganglion, st=statocyst, voc=ventral optic commissure, vtl=vertical lobe, ys=yolk sac
Fig. 3 a –h in 3D-microanatomy and histology of the hydrothermal vent gastropod Lurifax vitreus Warén & Bouchet, 2001 (Heterobranchia: Orbitestellidae) and comparisons with Ectobranchia
Fig. 3 a –h Histological images of L. vitreus. a Heart and kidney. b Jaw. c Pharyngeal buccal complex. d Oesophageal complex. e Rhogocyte und surrounding calcium cells. f Stomach. g Right statocyst with several statocones, posterior pedal gland ducts and left pedal ganglion. h Dorsal mantle cavity with ciliated ridge (dorsal to the right). at Atrium, Ca calcium cells, cr dorsal ciliated ridge, CPl/ CPl' right/left cerebropleural ganglia, gd gonoduct, ge granular epithelium, j jaw, k kidney, mc mantle cavity, oe oesophagus, P pedal ganglion, pc pericard, pcd pericardioduct, ph pharynx, ppd posterior pedal gland duct, ppg posterior pedal gland, rh rhogocyte, sg salivary glands, sgd salivary gland duct, st stomach, sta statocyst, ste stomach epithelia, stt stomach tooth. Bars a, c, d 100 μm; b, f –h 50 μm, e 20 μm
Tomographic datasets for '3d virtual histology of human cerebellum by x-ray phase-contrast tomography'
<p>Tomographic datasets for '3d virtual histology of human cerebellum by x-ray phase-contrast tomography' by M. Töpperwien et al. (PNAS 2018). Reconstructed volumes of both the measurements at the GINIX endstation at PETRAIII (DESY@Hamburg) and the laboratory setup are given. The datasets are saved as .raw in single-precision floating-point format and the size of each dataset is indicated in the filename. Note that in both cases the datasets are those used for the automatic segmentation via the Spherical Hough transform, meaning that for the GINIX dataset the volume was resampled by a factor of 2 and the individual slices were subsequently filtered with a Gaussian with a standard deviation of 0.3 pixels whereas for the laboratory data, the volume was reconstructed at full resolution, followed by a lowpass filtering step.</p> <p>Additionally, the output of the segmentation workflow is given as .dat files, specifying the determined cell positions and radii for both datasets.</p>
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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.