Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
478
datasets available to search
ShareScore release 0.9.0
Dataset results
478 results for “3D data”
Data and code for "High-speed 3D imaging flow cytometry with optofluidic spatial transformation"
<p>Data and codes used in Ugawa & Ota, "High-speed 3D imaging flow cytometry with optofluidic spatial transformation".</p>
Data for: Pericytes' Circadian Clock Affects Endothelial Cells' Synchronization and Angiogenesis in a 3D Tissue Engineered Scaffold
<p>Raw data set and analysis files for Mastrullo et al., Frontiers in Pharmacology, 2022 <strong>DOI:</strong> 10.3389/fphar.2022.867070 </p>
Data from: Integrating 3D models with morphometric measurements to improve volumetric estimates in marine mammals
<p>1. Studies of body condition are key to understanding the health, bioenergetics, and ecological roles of marine mammals. Due to challenges in studying marine mammals at sea, body condition is often approximated using metrics representing the size of the dorsal surface visible from aerial imagery, but quantifying variability in body volume would enable a more holistic understanding of bioenergetics. Further, the number and location of measurements needed to accurately quantify body condition has received little attention. Three-dimensional (3D) models provide a promising tool for representing morphology and providing holistic estimates of marine mammal body condition when combined with field-based morphometric measurements.</p> <p>2. We use humpback whales (Megaptera novaeangliae) to demonstrate the utility of 3D models for estimating body condition in marine mammals. We integrate morphometric measurements taken from Unoccupied Aerial Vehicles (UAVs) with scalable 3D models to generate estimates of humpback whale body volume. We assess which and how many morphometric measurements are required to accurately estimate body volume and compare the error between volume estimates derived from 3D models and previously developed models representing volume as a series of ellipses. Using UAV measurements, we assess the contribution of each morphometric measurement to volumetric estimates, and quantify the error produced by all combinations and numbers of morphometric measurements (131,072 combinations).</p> <p>3. Error in volume estimates from 3D models generated with as few as five width measurements was <5% compared to the full models and was lower than the error produced when using five width measurements with the elliptical approach. We suggest that by conserving the external morphology of marine mammals, 3D models allow body volume and body condition to be estimated accurately with few measurements.</p> <p>4. We provide code and guidelines for creating 3D models using the open-source software Blender and for assessing which measurements are needed to accurately capture the morphology of cetaceans. The 3D modeling approach we present will facilitate studies of intra- and interannual changes in body volume in marine mammals, which is vital to providing a more holistic understanding of bioenergetics and to assessing responses to environmental change and anthropogenic stressors.</p>
Research Data supporting "3D Tomographic Analysis of the Order-Disorder Interplay in the Pachyrhynchus congestus mirabilis Weevil"
<p>This data and the descriptions below should be read in conjunction with the manuscript and “Supporting Info”, both of which may be found at the following DOI: https://doi.org/10.1002/advs.202202145.</p>
The dataset for an article - An Evaluation of 3D-Printed Materials' Structural Properties Using Active Infrared Thermography and Deep Neural Networks Trained on the Numerical Data
<p>Dataset used in the research presented in the article:</p> <p>Szymanik, Barbara. 2022. "An Evaluation of 3D-Printed Materials’ Structural Properties Using Active Infrared Thermography and Deep Neural Networks Trained on the Numerical Data" <em>Materials</em> 15, no. 10: 3727. https://doi.org/10.3390/ma15103727</p> <p>The database in the .mat (matlab) format contains arrays of double type related to: A - original thermograms obtained for the plate made with the 3D printing technique Ar - thermograms with ROI included FITorg - approximation of original thermograms ImDiff, ImInt, ImProp - data obtained after subtracting the approximation.</p>
Experimental data linked to publication "Process optimization and study of the co-sintering behaviour of Cu-Ni multi-material 3D structures fabricated by spark plasma sintering (SPS)"
<p>Those are all the experimental data used to produce the plots in the article</p>
Quantitative 3D OPT and LSFM datasets of pancreata from mice with streptozotocin-induced diabetes: Sample data sets
<p><span>Mouse models for streptozotocin (STZ) induced diabetes probably represent the most widely used systems for preclinical diabetes research, owing to the compound's toxic effect on pancreatic ß-cells. However, a comprehensive view of pancreatic β-cell mass distribution subject to STZ administration is lacking. Previous assessments have largely relied on the extrapolation of stereological sections, which provide limited 3D-spatial and quantitative information. This data descriptor presents multiple ex vivo tomographic optical image data sets of the full β-cell mass distribution in mice subject to single high and multiple low doses of STZ administration, and in glycaemia recovered mice. The data further include information about structural features, such as individual islet β-cell volumes, spatial coordinates, and shape as well as signal intensities for both insulin and GLUT2. Together, they provide the most comprehensive anatomical record of the effects of STZ administration on the islet of Langerhans in mice. As such, this data descriptor may serve as reference material to facilitate the planning, use and (re)interpretation of this widely used disease model.</span></p>
Data for Estimation of 3D Moho depths beneath Southern Indian Shield by inverting seismic constraint gravity anomalies
<p>This is a help file for a description of all Data used for the implementation of our present paper<br> 'Estimation of 3D Moho depths beneath Southern Indian Shield by inverting seismic constraint gravity anomalies.' </p> <p> </p>
Doctoral School 2022: Data for 3D tomography lesson
<p>Files for the notebook on 3D tomography, see: https://github.com/alert-geomaterials/2022-doctoral-school</p>
Doctoral School 2022: Data for 3D analysis lesson
<p>Data for 3D analysis lesson, see the notebook here: https://github.com/alert-geomaterials/2022-doctoral-school</p>
3D data obtained with a MicroScribe digitising arm and photogrammetry to address bioarchaeological research questions
<p>Virtual methods for studying human remains are becoming increasingly popular in bioarchaeology, and the rate of technological innovation in the last few years has been such that we now have multiple options to choose from when collecting data. This raises the question of whether datasets generated with different methods are transposable. In the study reported here, we investigated whether it is valid to combine 3D data obtained with a MicroScribe digitising arm and 3D data collected via photogrammetry. We did so by simulating a population-based analysis similar to those commonly undertaken in bioarchaeology. Our sample comprised 19 crania from two ethnic groups, Ancient Egyptians and Guanches, and the landmarks we employed pertained to facial shape.</p> <p>The analyses yielded several findings. First, we found that photogrammetry was significantly more precise than the MicroScribe digitising arm. Second, the photogrammetry-based method revealed the existence of facial shape differences between the two ethnic groups that were not captured by the MicroScribe-based method. Third, we found that the two methods did not consistently capture the same facial shapes—they did for one of the ethnic groups but not for the other. Fourth, the analyses indicated that using the two methods can result in ethnic group-level differences in facial shape when they are applied to individuals from a single ethnic group. Lastly, the two methods of data collection yielded different patterns of variation in facial shape. Together, these findings suggest that combining 3D landmark coordinates collected with a MicroScribe and those obtained via photogrammetry may introduce considerable error into an analysis, and, consequently, bioarchaeologists should be cautious about doing so.</p>
Harshita's Putto 3D Data
Plaster cast putto Classical architectural detail in possession of Mark Kutney, lead conservator, University of Virginia. 3D data collected and processed by Harshita Batra for ARH 5600 : 3D Cultural Heritage informatics Spring 2021 semester at UVA. Artifact was 3D scanned with a Creaform Spark structured light scanner and processed using 3D Systems Geomagic v.2019.0.3.48. Source: Objaverse 1.0 / Sketchfab
Data from: Diphthong Synthesis using the Dynamic 3D Digital Waveguide Mesh
<p>This dataset comprises the data and MATLAB scripts associated with the paper "Diphthong Synthesis using the Dynamic 3D Digital Waveguide Mesh" published in <em>IEEE/ACM Transactions on Audio, Speech and Language Processing</em>.</p> <p>The dataset contains:</p> <ul> <li>Audio files in .wav format including simulation outputs and recorded microphone and electrolaryngograph signals</li> <li>MATLAB files for simulation (requires GPU device) and plotting results, including volume matrices for 6 English monophthongs, obtained from MRI images as described in the paper</li> <li>Plots of results in .png and MATLAB .fig format</li> </ul> <p><strong>Contact: amelia.gully@york.ac.uk</strong></p>
Digital 3D Model Dataset from Thingiverse Data
<p>Digital model data as STL files, acquired from thingiverse by random probing of available things. Geometrical analysis and rendering as PNG and GIF performed. Pre-sliced machine instructions as GCode generated using slic3r. AMF files are also part of the dataset, these files were generated from the STL files.</p>
Fine-scale Quantification of Absorbed Photosynthetically Active Radiation (APAR) in Plantation Forests with 3D Radiative Transfer Modeling and LiDAR Data
<p>In recent years, LiDAR technology has gained widespread attention for its ability to provide precise 3D vertical structural data for various objects, particularly forests. In our dataset, we utilized LiDAR data to reconstruct intricately detailed three-dimensional representations of specific larch forest landscapes. These detailed forest structural models enable us to drive three-dimensional radiative transfer models, analyze the radiation budget of the forest canopy, and gain valuable insights into fine-scale forest management strategies.</p> <p>This is the research work we conducted by combining the aforementioned 3D forest scenes with the 3D RTM LESS. If you use our data, please cite our article. You can access our publication via DOI: 10.34133/plantphenomics.0166.</p> <p>We welcome researchers interested in a wide range of fields, such as vegetation ecological applications, to communicate with us by combining 3D vegetation modeling.</p> <p><br><br></p>
Data from: A 3D geometric morphometric analysis of the bovid distal humerus, with special reference to Rusingoryx atopocranion (Pleistocene, Eastern Africa)
<p>The family Bovidae [Mammalia: Artiodactyla] is speciose and has extant representatives on every continent, forming key components of mammal communities. For these reasons, bovids are ideal candidates for studies of ecomorphology. In particular, the morphology of the bovid humerus has been identified as highly related to functional variables such as body mass and habitat. This study investigates the functional morphology of the bovid distal humerus in isolation due to its increased likelihood of preservation in the fossil record, and the resulting opportunity for better understanding the ecomorphology of extinct bovids. A landmark scheme of 30 landmarks was used to capture the 3D distal humerus morphology in 111 extant bovid specimens. We find that the distal humerus has identifiable morphologies associated with body mass, habitat preference, and tribe affiliation, and that some characteristics are shared between high body mass bovids and those living on hard, flat terrain which is likely due to the high stress on the bone in both cases. We directly apply our findings regarding extant bovids to the extinct alcelaphine bovid, <em>Rusingoryx</em> <em>atopocranion</em> from the mid to late Pleistocene (>33-45 ka) Lake Victoria region of Kenya. This species is known for some peculiar morphologies including a domed cranium with hollow nasal crests, and having small hooves for a bovid of its size. Another interesting aspect of <em>Rusingoryx</em>'s skeletal morphology which has not been addressed is an unusual protrusion on the lateral epicondyle of the distal humerus. Despite considerable individual variation in the <em>Rusingoryx</em> specimens, we find evidence to support its historical assignment to the tribe Alcelaphini, and that it likely preferred open grassland habitats, which is consistent with independent reconstructions of the paleoenvironment. We also provide the most accurate body mass estimate for <em>Rusingoryx</em> to date, based on distal humerus centroid size. Overall, we are able to conclude that the distal humerus in extant bovids is highly informative regarding body mass, habitat preference and tribe, and that this can be applied directly to a fossil taxon with promising results.</p>
Data from: Osmia3DNest – novel designed 3D printed artificial nest for solitary cavity-nesting bees
<p>The availability and appropriateness of nesting sites significantly influence the reproductive success and overall welfare of wild bees. Human-induced factors contribute to the destruction of natural nesting habitats. To address these limitations, innovative solutions such as the development of artificial nests, as indicated in recent studies, offer alternative nest sites to support wild bee populations. We designed the Osmia3DNest, a 3D printed standardized nest tube for solitary cavity-nesting bees, aiming to provide a safety for the environment life-long, time-saving, and biodegradable product that anyone can print. We proudly present the two Osmia3DNest models for mason bees – closed and open – using PLA filament. We demonstrate the effectiveness of Osmia3DNest on mason bee reproduction parameters compared with traditional reed nests. Osmia3DNest can be an alternative to the other artificial nests, which people can customize for their necessity depending on their place of living (rural or urban area), and they can also be washed and reused several times and then decomposed. Osmia3DNest holds potential for wildlife biologists, management of pollinators, and educational outreach, offering adaptability for different bee species and experimental needs.</p>
Data: UTrack3D: 3D Tracking Using Ultra-wideband (UWB) Radios
<p>"# UTrack3D"</p> <p><strong>Environments</strong>: Python3.7 & Matlab2021</p> <p><strong>System</strong>: Windows 11</p> <div> <h2>Install prerequisites</h2> <a href="https://github.com/yifeng361/UTrack3D#install-prerequisites"></a></div> <ul> <li> <p>Python: We test our code using Python3.7. Advanced Python versions work as well. <a href="https://www.python.org/downloads/" rel="nofollow">https://www.python.org/downloads/</a></p> </li> <li> <p>Matlab: We test our code using Matlab2021. Advanced Matlab versions work as well. The matlab is only used for performance evaluation in this code. In case you prefer not installing Matlab, several pre-generated examples are provided.</p> </li> <li> <p>Python libraries: <code>pip install -r requirements.txt</code></p> </li> </ul> <div> <h2>Running</h2> <a href="https://github.com/yifeng361/UTrack3D#running"></a></div> <ul> <li>Run script <code>run_offline_analysis.py</code> for tracking.</li> </ul> <p><code>python run_offline_track.py</code></p> <p>This reads pre-stored CIR data (./raw_data) and generates a file <code>tracking_results.mat</code> in ./output which stores the estimated trajectory and ground-truth trajectory. We provide three examples (test1, test2, test3). One can modify the following line to test a specific example.</p> <p><code>file_dir = "./raw_data/test1/"</code></p> <ul> <li>Run script <code>./matlab_analysis_scripts/evaluate_accuracy_ae.m</code> to compute error and perform visualization. This script takes <code>tracking_results.mat</code> as inputs and generates CDF error plot and trajectory visualization in the current folder.</li> </ul> <p>The CDF error plot and trajectories of three examples have already been pre-generated and put in <code>./matlab_analysis_scripts/</code>.</p>
3D Laser Scanning Data: Public Square in Murcia and Engineering Laboratory at the University of Alicante
<p>This dataset includes 3D terrestrial laser scans obtained using the Leica C10 ScanStation. The data covers two distinct scenarios:</p> <ol> <li> <p><strong>Public Square in Murcia Capital</strong>: This dataset includes two scan positions within a public square located in Murcia. Three HDTarget markers were placed, and their center or vertex coordinates are provided in the accompanying _vertices.txt file. The scans were conducted with the laser scanner leveled, but they are not registered.</p> </li> <li> <p><strong>Engineering Laboratory at the University of Alicante</strong>: This dataset consists of two scans of the Ground Engineering Laboratory at the University of Alicante. The scans were conducted with the same leveled laser scanner, and no targets were used. Between the two scans, some elements in the laboratory were slightly moved, which can be identified by comparing the point clouds.</p> </li> </ol>
Modeling polar bear (Ursus maritimus) snowdrift den habitat on Alaska's Beaufort Sea coast using SnowDens-3D and ArcticDEM data
<p>Pregnant polar bears (<em>Ursus maritimus</em>) excavate maternal dens in seasonal snowdrifts during fall along Alaska's Beaufort Sea coast to shelter their altricial young during birth and development. With recent sea ice decreases, bears are denning more frequently on land. Each year, the weather and blowing-snow conditions control the creation of snowdrifts across the landscape, and the available snowdrift den habitat can vary widely from one year to the next, depending on the late fall and early winter air temperature, snowfall, and wind speed and direction. We implemented a physics-based, spatiotemporal, polar bear snowdrift den habitat model (SnowDens-3D) across the eastern Alaska Beaufort Sea coast (an area of approximately 17,000 km^2^). High-resolution (2.0 m) topography data were provided by the ArcticDEM, and daily meteorological forcings were provided by NASA's MERRA-2 reanalysis. A 21-year (2000–2020) SnowDens-3D simulation was performed, and model outputs were compared with 91 historical polar bear den locations. The year-specific simulations produced viable den habitat for 98% of the observed den locations. The interannual variation in den habitat area over the 21-year period increased by approximately a factor of three from the minimum year (2001; 554 km^2^) to the maximum year (2017; 1,566 km^2^). This data archive provides the key den and den-habitat datasets produced, used, and analyzed by this project.</p>
ScienceDex guides
Understand access before you commit
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.