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264 results for “3D Reconstruction”
FIG. 1 in Between Vanuatu tides: 3D anatomical reconstruction of a new brackish water acochlidian gastropod from Espiritu Santo
FIG. 1. — Habitat, external morphology and general anatomy of Pseudunela espiritusanta n. sp.: A, type locality when tide is just coming in; B, habitat of P. espiritusanta n. sp.: underside of rocks embedded in coarse sand (arrowhead points to exact place where specimens were found); C, 3D reconstruction, position of internal organs: green, central nervous system; blue/lilac, digestive system; yellow, circulatory and excretory systems; red/brownish, reproductive system; D, photograph of living specimen. Abbreviations: cns, central nervous system; dg, digestive gland; f, foot; k, kidney; lt, labial tentacle; ov, ovotestis; pr, prostate; rh, rhinophore; sgl, salivary gland; sp, spicule; vd, vas deferens; vh, visceral hump. Scale bars: C, 500 μm; D, 1 mm.
FIG. 3. — 3D in Between Vanuatu tides: 3D anatomical reconstruction of a new brackish water acochlidian gastropod from Espiritu Santo
FIG. 3. — 3D reconstruction of the central nervous system and digestive system of Pseudunela espiritusanta n. sp.: A, cns, dorsolateral left view; B, cns without cerebral nerves, right view; C, cns and digestive system, right view; D, spicules surrounding cns and buccal mass, right view. Abbreviations: a, anus; bg, buccal ganglion; cg, cerebral ganglion; cns, central nervous system; dg, digestive gland; ey, eye; gog, gastro-oesophageal ganglion; i, intestine; ltn, labial tentacle nerve; oe, oesophagus; og, optic ganglion; on, optic nerve; osg, osphradial ganglion; ot, oral tube; pag, parietal ganglion; pg, pedal ganglion; ph, pharynx; plg, pleural ganglion; pn, pedal nerve; r, radula; rhg, rhinophoral ganglion; rhn, rhinophoral nerve; sgl, salivary gland; sp, spicule; st, statocyst; subg, subintestinal ganglion; supg, supraintestinal ganglion; vg, visceral ganglion; vn, visceral nerve. Scale bars: A, B, 100 μm; C, D, 300 μm.
FIG. 8 in Between Vanuatu tides: 3D anatomical reconstruction of a new brackish water acochlidian gastropod from Espiritu Santo
FIG. 8. — Transverse histological sections of Pseudunela espiritusanta n. sp.: A, oral tube gland, anterior pedal gland; B, transition kidneynephroduct;C, renopericardial duct;D, heart,arrow points to valve;arrowheads point to epicardial cells of unknown function. Abbreviations: ao, aorta; apg, anterior pedal gland; i, intestine; k, kidney; kn, narrow lumen of kidney; kw, wide lumen of kidney; nd, nephroduct; ot, oral tube; otg, oral tube gland; rpd, renopericardioduct; sp, spicule cavity; v, ventricle. Scale bars: A, C, 100 μm; B, 25 μm; D, 50 μm.
FIG. 2 in Between Vanuatu tides: 3D anatomical reconstruction of a new brackish water acochlidian gastropod from Espiritu Santo
FIG. 2. — Central nervous system of Pseudunela espiritusanta n. sp. (schematic,dorsal view).Abbreviations: bg, buccal ganglion; cg, cerebral ganglion; ey, eye; gog, gastro-oesophageal ganglion; hn, Hancock's nerve; ltn, labial tentacle nerve; oe, nerve innervating oesophagus; og, optic ganglion; on, optic nerve; osg, osphradial ganglion; pag, parietal ganglion; pg, pedal ganglion; plg, pleural ganglion; rhg, rhinophoral ganglion; rhn, rhinophoral nerve; rn, radula nerve; sgl, nerve innervating salivary gland; st, statocyst; subg, subintestinal ganglion; supg, supraintestinal ganglion; vg, visceral ganglion; vn, visceral nerve. Not to scale.
Text-fig. 1. Stutzeliastrobus bohemicus (BAYER) J.KVAČEK, No. NM-F 2746, Harcov, lectotype. a – surface view of ovuliferous cone photograph, scale bar 10 mm, b – microCT isosurface of ovuliferous cone, scale bar 10 mm, c – microCT longitudinal section of ovuliferous cone with segmented seeds, scale bar 10 mm, d – microCT longitudinal section of ovuliferous cone in yellow, seeds in red, e – 3D visualised bract-scale complex bearing three seeds, adaxial view, scale bar 2.5mm, f – 3D visualised bract-scale complex bearing two seeds, lateral view (incomplete reconstruction of the scale visualises the front seed), scale bar 2.5mm. in Stutzeliastrobus Bohemicus Comb. Nov. - Basal Cupressaceae Conifer From The Cenomanian Of The Bohemian Cretaceous Basin, Central Europe
Text-fig. 1. Stutzeliastrobus bohemicus (BAYER) J.KVAČEK, No. NM-F 2746, Harcov, lectotype. a – surface view of ovuliferous cone photograph, scale bar 10 mm, b – microCT isosurface of ovuliferous cone, scale bar 10 mm, c – microCT longitudinal section of ovuliferous cone with segmented seeds, scale bar 10 mm, d – microCT longitudinal section of ovuliferous cone in yellow, seeds in red, e – 3D visualised bract-scale complex bearing three seeds, adaxial view, scale bar 2.5mm, f – 3D visualised bract-scale complex bearing two seeds, lateral view (incomplete reconstruction of the scale visualises the front seed), scale bar 2.5mm.
3D reconstructions of semi-transparent submerged objects: Nanomia, Cystisoma, and validation object
<p>These data were used to support the conclusions published in the article titled, "New method for rapid 3D reconstruction of semi-transparent underwater animals and structures", accepted for publication in Integrative Organismal Biology on May 9th, 2023.</p> <p>It focuses on three physical objects, two of which were live animals, collected under permit in the Monterey Bay NAtional MArine Sanctuary:</p> <ul> <li>A siphonophore of the species <em>Nanomia bijuga</em></li> <li>An amphipod of the family <em>Cystisoma</em></li> <li>A thin-walled plastic cylinder, for validation purposes.</li> </ul> <p>For each of these objects, we provide the original .cine file, as recorded by the Phantom 640S highspeed camera, and the derived high-quality .mov video file. We exported video frames as image stacks, included as ZIP files in this repository. We chose to either extract the red or green channel, or a balanced luminance value of each frame. Background subtraction was performed in some cases, by applying a minimum filter or median filter with a certain Z (time axis) extent, and subtracting this from the original frames. Furthermore, additional smoothing was performed in some cases as indicated by the filenames, in the form of a median filter with an X-by-Y-by-Z extent.</p> <p>3D Slicer software was used for segmentation, and bundled .mrb files are included, which have been tested with 3D Slicer version 5.0.3. Derived .STL or .PLY model files are included as well.</p>
Fig. 11. Confocal laser scanning 3D reconstructions. A in Living on the edge - first survey of loriciferans along the Atacama Trench
Fig. 11. Confocal laser scanning 3D reconstructions. A. Pliciloricus leocaudatus, ventral view, paratype (NHMD 100760). B. Pliciloricus aff. ukupachaensis collected off Oregon, US west coast, lateral view (NHMD 225904).
low Cerro Gordo; StL 2, Cerro Gordo sandstone; StL 3, between Cerro Gordo and Chunchullo; StL 4, Chunchullo sandstone; StL 5, bed set between Chunchullo and Tatacoa; StL 6, Tatacoa sandstone; StL 7, bed set below Cerbatana conglomerate; StL 8, Cerbatana conglomerate; StL 9, Monkey beds; StL 10, bed set above Monkey beds; StL 12, bed set above Fish bed; StL 14, bed set below La Venta red beds; StL 15, La Venta red beds; StL 16, bed set between La Venta red beds and El Cardón red beds; StL 17, El Cardón red beds; StL 18, San Francisco sandstone; StL 19, Polonia red beds; D, reconstruction of the head of Neodolodus colombianus based on the 3D model of the almost complete skull of the specimen VPPLT 1696. Abbreviations: Fm, Formation; St m, Stratigraphic meter. Reconstruction of N. colombianus made by Tatsuya Shimura. in New remains of Neotropical bunodont litopterns and the systematics of Megadolodinae (Mammalia: Litopterna)
low Cerro Gordo; StL 2, Cerro Gordo sandstone; StL 3, between Cerro Gordo and Chunchullo; StL 4, Chunchullo sandstone; StL 5, bed set between Chunchullo and Tatacoa; StL 6, Tatacoa sandstone; StL 7, bed set below Cerbatana conglomerate; StL 8, Cerbatana conglomerate; StL 9, Monkey beds; StL 10, bed set above Monkey beds; StL 12, bed set above Fish bed; StL 14, bed set below La Venta red beds; StL 15, La Venta red beds; StL 16, bed set between La Venta red beds and El Cardón red beds; StL 17, El Cardón red beds; StL 18, San Francisco sandstone; StL 19, Polonia red beds; D, reconstruction of the head of Neodolodus colombianus based on the 3D model of the almost complete skull of the specimen VPPLT 1696. Abbreviations: Fm, Formation; St m, Stratigraphic meter. Reconstruction of N. colombianus made by Tatsuya Shimura.
Scan files, 3D reconstructions, data spreadsheet and supplementary files for Heterochrony and parallel evolution of echinoderm, hemichordate and cephalochordate internal bars
Open the record for dataset details and reuse information.
Nafion STEM tomography 3D reconstructions
<p>STEM tomography 3D reconstructions of various Nafion film thicknesses.</p>
3D photogrammetric reconstructions of individual chickpea plants
<p>3D point clouds and meshed models of individual chickpea plants were reconstructed using photogrammetry. This dataset serves as a companion to the article “Open source 3D phenotyping of chickpea plant architecture across plant development” uploaded as a preprint to <em>BioRxiv</em> (<a href="https://doi.org/10.1101/2020.09.08.288530">https://doi.org/10.1101/2020.09.08.288530</a>).</p> <p><strong>Description of the dataset</strong></p> <p>Individual chickpea plants were imaged using a low-cost, automated turntable and camera set up. Dense point clouds were generated in <a href="http://ccwu.me/vsfm/">VisualSFM</a>, these point clouds were cleaned (denoised and non-plant points removed), scaled and then meshed using a ball-pivoting algorithm. More information on the imaging and reconstruction workflow can be found in our <em>BioRxiv</em> preprint (<a href="https://doi.org/10.1101/2020.09.08.288530">https://doi.org/10.1101/2020.09.08.288530</a>). Scaled, clean point clouds and meshed models are provided in this dataset. All files are in the .PLY format and can be viewed using most 3D imaging software packages, including <a href="https://github.com/cnr-isti-vclab/meshlab">Meshlab</a>.</p> <p>Files are named using the following convention:<br> "GENOTYPE_PLANTIDNUMBER_GROUNDTRUTHINGORWEEKS_POINTCLOUDORMESHED"<br> Where:<br> GENOTYPE is the chickpea genotype.<br> PLANTIDNUMBER is the unique identifier for each plant.<br> GROUNDTRUTHINGORWEEKS refers to whether the plant was used for validation against ground truthing measurements or if growth was tracked after germination.<br> POINTCLOUDORMESHED refers to if the .ply file is a dense point cloud or a meshed 3D model.</p> <p><strong>Plant material</strong></p> <p>Three commercial Australian chickpea cultivars (Genesis Kalkee, PBA Hattrick and PBA Slasher) were grown in pots in a glasshouse and were imaged once per week for five weeks after germination. Three genotypes selected from local and international sources (ICC5878, SonSla and PUSA76) were grown in pots outdoors and were imaged once at five weeks post germination.</p>
Super-resolved Reflectance Confocal Microscopy 3D reconstruction of a Diatom shell
<p>These movies present back-to-back the performance in term of resolution of both standard reflectance confocal microscopy and super-resolved rescanned reflectance confocal microscopy. One movie is a 3D stack angular rotation, the other is a Zstack. </p> <p> </p>
Plants 3D trajectory reconstructed from stereovision cameras
<p>Dataset of 3D trajectories (circumnutations) travelled by different points selected on the plant. 3D reconstruction obtained using a system based on stereovision with 2 cameras having both RGB and IR (infra-red) sensors to capture motion in dark conditions. Reconstruction performed by two different users.</p> <p>Plant Species: <em>Pisum Sativum</em></p> <p> </p>
Kunzing mail fabric: 3D reconstruction
The 3D model presents a digital reconstruction of archaeological mail fabric. To create 3D models of the rings, we used polygonal modelling functions of Blender software. In order to record the relevant measurements of the mail rings, we used a list of parameters. This list includes 11 parameters for a riveted ring and four parameters for a solid ring. The accuracy of the digital replicas of the rings was 0.01 mm. The authors of the reconstructions are Aleksei Moskvin (Saint Petersburg State University of Industrial Technologies and Design) https://independent.academia.edu/AlekseiMoskvin Mariia Moskvina (Saint Petersburg State University of Industrial Technologies and Design) https://independent.academia.edu/MariiaMoskvina and Martijn A. Wijnhoven (VU University Amsterdam) https://vu-nl.academia.edu/MartijnAWijnhoven Source: Objaverse 1.0 / Sketchfab
Armour from Künzing: 3D reconstruction
The 3D model presents a digital reconstruction of solid and riveted rings of archaeological mail armour. To create 3D models of the rings, we used polygonal modelling functions of Blender software. In order to record the relevant measurements of the mail rings, we used a list of parameters. This list includes 11 parameters for a riveted ring and four parameters for a solid ring. The accuracy of the digital replicas of the rings was 0.01 mm. The authors of the reconstructions are Martijn A. Wijnhoven (VU University Amsterdam) https://vu-nl.academia.edu/MartijnAWijnhoven Aleksei Moskvin (Saint Petersburg State University of Industrial Technologies and Design) https://independent.academia.edu/AlekseiMoskvin Mariia Moskvina (Saint Petersburg State University of Industrial Technologies and Design) https://independent.academia.edu/MariiaMoskvina DOI: https://doi.org/10.13140/RG.2.2.12294.50247 Source: Objaverse 1.0 / Sketchfab
Armour from Stari Jankovci: 3D reconstruction
The 3D model presents a digital reconstruction of solid and riveted rings of archaeological mail armour. To create 3D models of the rings, we used polygonal modelling functions of Blender software. In order to record the relevant measurements of the mail rings, we used a list of parameters. This list includes 11 parameters for a riveted ring and four parameters for a solid ring. The accuracy of the digital replicas of the rings was 0.01 mm. The authors of the reconstructions are Aleksei Moskvin (Saint Petersburg State University of Industrial Technologies and Design) https://independent.academia.edu/AlekseiMoskvin Mariia Moskvina (Saint Petersburg State University of Industrial Technologies and Design) https://independent.academia.edu/MariiaMoskvina and Martijn A. Wijnhoven (VU University Amsterdam) https://vu-nl.academia.edu/MartijnAWijnhoven DOI: https://doi.org/10.13140/RG.2.2.25716.27529 Source: Objaverse 1.0 / Sketchfab
Armour from Piquía: 3D reconstruction
The 3D model presents a digital reconstruction of solid and riveted rings of archaeological mail armour. To create 3D models of the rings, we used polygonal modelling functions of Blender software. In order to record the relevant measurements of the mail rings, we used a list of parameters. This list includes 11 parameters for a riveted ring and four parameters for a solid ring. The accuracy of the digital replicas of the rings was 0.01 mm. The authors of the reconstructions are Martijn A. Wijnhoven (VU University Amsterdam) https://vu-nl.academia.edu/MartijnAWijnhoven Aleksei Moskvin (Saint Petersburg State University of Industrial Technologies and Design) https://independent.academia.edu/AlekseiMoskvin Mariia Moskvina (Saint Petersburg State University of Industrial Technologies and Design) https://independent.academia.edu/MariiaMoskvina DOI: https://doi.org/10.13140/RG.2.2.30749.44005 Source: Objaverse 1.0 / Sketchfab
Carlingwark Loch mail fabric: 3D reconstruction
The 3D model presents a digital reconstruction of archaeological mail fabric from Carlingwark Loch (The National Museum of Scotland, inv. no. X.DV 2 (1866), https://sketchfab.com/nationalmuseumsscotland). To create 3D models of the rings, we used polygonal modelling functions of Blender software. In order to record the relevant measurements of the mail rings, we used a list of parameters. This list includes 11 parameters for a riveted ring and four parameters for a solid ring. The accuracy of the digital replicas of the rings was 0.01 mm. The authors of the reconstructions are Aleksei Moskvin (Saint Petersburg State University of Industrial Technologies and Design) https://independent.academia.edu/AlekseiMoskvin Mariia Moskvina (Saint Petersburg State University of Industrial Technologies and Design) https://independent.academia.edu/MariiaMoskvina and Martijn A. Wijnhoven (VU University Amsterdam) https://vu-nl.academia.edu/MartijnAWijnhoven DOI: https://doi.org/10.13140/RG.2.2.27393.99680 Source: Objaverse 1.0 / Sketchfab
Crinoline (1860, 16 hoops) - a 3D reconstruction
The 3D model presents a digital reconstruction of a historical crinoline - a special framework used to expand the fullness of the skirt in the mid 19th century. The crinoline is presented in a historical photograph. It has 16 hoops and 11 ribbons. A new method of parameterisation was applied to reproduce the shape and construction of the hoops, ribbons and belt (for further details see https://doi.org/10.1080/00405000.2019.1621042). The authors of the 3D model are Aleksei Moskvin https://independent.academia.edu/AlekseiMoskvin Mariia Moskvina https://independent.academia.edu/MariiaMoskvina (Saint Petersburg State University of Industrial Technologies and Design) DOI: http://dx.doi.org/10.13140/RG.2.2.15088.79369 The authors thank Prof. Victor Kuzmichev from Ivanovo State Polytechnic University for his important contribution to this reconstruction. Source: Objaverse 1.0 / Sketchfab
Armour from Xanten: 3D reconstruction
The 3D model presents a digital reconstruction of solid and riveted rings of archaeological mail armour. To create 3D models of the rings, we used polygonal modelling functions of Blender software. In order to record the relevant measurements of the mail rings, we used a list of parameters. This list includes 11 parameters for a riveted ring and four parameters for a solid ring. The accuracy of the digital replicas of the rings was 0.01 mm. The authors of the reconstructions are Martijn A. Wijnhoven (VU University Amsterdam) https://vu-nl.academia.edu/MartijnAWijnhoven Aleksei Moskvin (Saint Petersburg State University of Industrial Technologies and Design) https://independent.academia.edu/AlekseiMoskvin Mariia Moskvina (Saint Petersburg State University of Industrial Technologies and Design) https://independent.academia.edu/MariiaMoskvina DOI: https://doi.org/10.13140/RG.2.2.13972.22406 Source: Objaverse 1.0 / Sketchfab
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.