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.
1,102
datasets available to search
ShareScore release 0.9.0
Dataset results
1,102 results for “human use”
Eighty-four per cent of all Amazonian arboreal plant individuals are useful to humans
<p><span><span><span><span><span><span><span><span><span><span><span>Plants have been used in Amazonian forests for millennia and some of these plants are disproportionally abundant (hyperdominant). At local scales, people generally use the most abundant plants, which may be abundant as the result of management of indigenous peoples and local communities. However, it is unknown whether plant use is also associated with abundance at larger scales. We used the population sizes of 4,454 arboreal species (trees and palms) estimated from 1946 forest plots and compiled information about uses from 29 Amazonian ethnobotany books and articles published between 1926 and 2013 to investigate the relationship between species usefulness and their population sizes, and how this relationship is influenced by the degree of domestication of arboreal species across Amazonia. We found that half of the arboreal species (2,253) are useful to humans, which represents 84% of the estimated individuals in Amazonian forests. Useful species have mean populations sizes six times larger than non-useful species, and their abundance is related with the probability of usefulness. Incipiently domesticated species are the most abundant. Population size was weakly related to specific uses, but strongly related with the multiplicity of uses. This study highlights the enormous usefulness of Amazonian arboreal species for local peoples. Our findings support the hypothesis that the most abundant plant species have a greater chance to be useful at both local and larger scales, and suggest that although people use the most abundant plants, indigenous people and local communities have contributed to plant abundance through long-term management.</span></span></span></span></span></span></span></span></span></span></span></p>
Antelope space-use and behaviour indicate multi-level responses to varying anthropogenic influences in a highly human-dominated landscape
<p><span></span></p> <p>A primary means of conserving a species or a habitat in a human-dominated landscape is through promoting coexistence with humans while minimizing conflict. For this, we should understand how wildlife are impacted by direct and indirect human activities. Such information is rare from areas with high human densities. To investigate how animals respond to altered ecological conditions in human-dominated landscapes, we focussed on a wild herbivore of conservation concern in Krishnasaar Conservation Area (KrCA) in Nepal. Here, blackbuck, <em>Antilope cervicapra</em>, a generalist grazer, lives in refugia located in a growing human population. We studied the impacts of humans on habitat use and behaviour of blackbuck. We laid 250 x 250 m grid cells in the entire KrCA and carried out indirect sign surveys with three replications for habitat use assessment. We observed herds of blackbuck for 89 hours in different habitat types using scan sampling methods. Our habitat-use survey showed that habitats under intensive human use were hardly used by blackbuck, even when high-quality forage was available. Habitat openness was the major predictor of habitat-use inside the core area, where levels of human activities were low. We also found a positive correlation between habitat use by blackbuck and livestock. Blackbuck were substantially more vigilant when they were in forest than in grassland, again indicating an influence of risk. Overall, blackbuck appear to be sensitive to risk associated with both natural and anthropogenic factors. Our findings have direct implications for managing human-wildlife interactions in this landscape, specifically regarding strategies for livestock grazing in habitats highly used by blackbuck and concerning predictions of how changing land use will impact long-term persistence of blackbuck. Our work suggests that wild herbivores may be able to persist in landscapes with high human densities so long as there are refuges where human activities are relatively low.</p>
[Replication package] Explainable Human-Machine Teaming using Model Checking and Interpretable Machine Learning
<p>Anonymized replication package of submission #1917: "Explainable Human-Machine Teaming using Model Checking and Interpretable Machine Learning".</p> <p>See README.md for further instructions.</p>
Data and analysis result for "A scalable variational approach to characterize pleiotropic components across thousands of human diseases and complex traits using GWAS summary statistics"
<p>Data set and analysis results from our paper "A scalable variational approach to characterize pleiotropic components across thousands of human diseases and complex traits using GWAS summary statistics" (pre-print). This file contains GWAS summary statistics of 2,483 traits and 51,399 SNP variants from European individuals, originally downloaded and processed from Pan-UK Biobank (https://pan.ukbb.broadinstitute.org/). Additionally, we include results of 100 pleiotropic factors inferred by our method and tSVD as comparison. Please see README for detailed breakdown.</p>
Datasets for the manuscript "Metabolomic and Sphingolipidomic Profiling of Human Hepatoma Cells Exposed to Widely Used Pharmaceuticals"
<p>See experimental details on the main text of the manuscript "Metabolomic and Sphingolipidomic Profiling of Human Hepatoma Cells Exposed to Widely Used Pharmaceuticals" <a title="Persistent link using digital object identifier" href="https://doi.org/10.1016/j.jpba.2024.116378" target="_blank" rel="noreferrer noopener"><span><span>https://doi.org/10.1016/j.jpba.2024.116378</span></span></a></p> <h2><strong>Data description</strong></h2> <p>This study investigates the impact of three commonly used pharmaceuticals (amoxicillin, carbamazepine, and trazodone) on human liver cells. To mimic real-world conditions, liver cells were encapsulated in spheroids and exposed to various concentrations of these drugs for 24 hours. The study employs metabolomic and sphingolipid analyses to identify metabolic changes induced by drug exposure.</p> <div></div> <p></p> <div> <div> <div> <h3>LC-MS/MS Method for Sphingolipid Analysis</h3> <p>Targeted sphingolipid analysis was conducted using a Waters ACQUITY UPLC System coupled to a Waters Xevo TQ-S system equipped with an Electrospray Ion Source (ESI) and ScanWave™ collision cell technology, operating in positive mode [16]. Sphingolipids were quantified using a Zorbax Rapid Resolution RRHD C18 Column (80 Å, 1.8 µm, 2.1 mm × 100 mm).</p> <h3>LC-HRMS Method for Semi-Targeted Metabolomic Analysis</h3> <p>LC-HRMS analysis was performed on an Agilent 1290 Affinity II HPLC system coupled to an Agilent 6550 iFunnel QTOF mass spectrometer equipped with a dual AJS electrospray ionization source operating in both positive and negative modes. Polar metabolite screening was conducted using a SeQuant® ZIC®-pHILIC 5 µm polymer 100 × 2.1 mm column.</p> </div> </div> </div> <p> </p> <h2><strong>Funding</strong></h2> <p>The research leading to these results has received funding from the Spanish Ministry of Science and Innovation MCIN/AEI/ 10.13039/501100011033, Grants CTQ2017-82598-P and CEX2018-000794-S. The authors also want to grant support from the Catalan Agency for Management of University and Research Grants (AGAUR, Grant 2017SGR753). Miriam Pérez-Cova acknowledges a predoctoral FPU 16/02640 scholarship from the Spanish Ministry of Education and Vocational Training (MEFP), and Post-graduate department from CSIC for the funding of the research stay in Karolinska Institute, <em>via</em> the award to best outreach video in the YoInvestigoYosoyCsic contest, 2019 edition. </p>
Dataset: Imaging the columnar functional organization of human area MT+ to axis-of-motion stimuli using VASO at 7 Tesla
<p>First release upon acceptance of the paper. </p>
Habitat differences influence genetic impacts of human land use on the American beech (Fagus grandifolia)
Natural reforestation after regional forest clearance is a globally common land-use sequence. The genetic recovery of tree populations in these recolonized forests may depend on the biogeographic setting of the landscape, for instance whether they are in the core or in the marginal part of the species' range. Using data from 501 individuals genotyped across 7 microsatellites, we investigated whether regional differences in habitat quality affected the recovery of genetic variation in a wind-pollinated tree species, American beech (Fagus grandifolia) in Massachusetts. We compared populations in forests that were recolonized following agricultural abandonment to those in remnant forests that have only been logged in both central inland and marginal coastal regions. Across all populations in our entire study region, recolonized forests showed limited reduction of genetic diversity as only observed heterozygosity was significantly reduced in these forests (H O = 0.520 and 0.590, respectively). Within inland region, this pattern was observed, whereas in the coast, recolonized populations exhibited no reduction in all genetic diversity estimates. However, genetic differentiation among recolonized populations in marginal coastal habitat increased (F st logged = 0.072; F st secondary = 0.249), with populations showing strong genetic structure, in contrast to inland region. These results indicate that the magnitude of recovery of genetic variation in recolonized populations can vary at different habitats.
A Dataset of Human Body Tracking of Walking Actions Captured Using Two Azure Kinect Sensors
<p>A dataset of body tracking information is presented. The dataset consists of 315 captured walking sequences. Each sequence is simultaneously captured by two Azure Kinect devices. The two captures are interleaved to effectively double the frame rate. Fifteen participants partook in this experiment. Each experiment consists of seven walking actions, and having three predefined trajectories per experiment. That results in 21 sequences per participant. The data were collected using the Azure Kinect Sensor SDK. They were later processed using the official tools and libraries provided by Microsoft. For each sequence and trajectory, the positions and orientations of thirty-two tracked joints were obtained and saved.</p> <p>The dataset is structured as follows. The experiments from each subject are saved in a single directory. Each directory contains multiple JSON files of timestamped body tracking information to enable the fusion of the two device streams. A calibration file is also provided, enabling the mapping of the coordinates between the two Azure Kinect devices capturing the data (mapping the coordinates of the device known as the Subordinate device to the Master device coordinate system). This data can be used to train neural networks for human motion prediction tasks or test pre-existing algorithms on Azure Kinect data. This dataset could also aid in gait recognition and analysis, as well as in performing action recognition and other surveillance activities.<br> <br> <strong>Journal Publication Citation:</strong><br> Charli Posner, Adrián Sánchez-Mompó, Ioannis Mavromatis, Mustafa Al-Ani,<br> A dataset of human body tracking of walking actions captured using two Azure Kinect sensors,<br> Data in Brief,<br> Volume 49,<br> 2023,<br> 109334,<br> ISSN 2352-3409,<br> https://doi.org/10.1016/j.dib.2023.109334.<br> (https://www.sciencedirect.com/science/article/pii/S2352340923004523)</p>
Dataset of paper "Hydrogen production from urea in human urine using segregated systems"
<p>Dataset of paper "Hydrogen production from urea in human urine using segregated systems"</p> <ul> <li>Fig. 2. Isotherm experimental data for adsorption of urea onto activated carbon at different temperatures.</li> <li>Table 2. Langmuir and Freundlich Equations fitting parameters for the isotherms of adsorption of urea on activated carbon.</li> <li>Fig. 3. Kinetic study of the adsorption of urea onto activated carbon.</li> <li>Table 1. Comparison of adsorption capacity of urea onto studied activated carbon with literature carbon-based materials.</li> <li>Fig. 4. A: Outlet gases concentration as a function of temperature during the thermal treatment of urea adsorbed on activated carbon. B: Carbon dioxide concentration as a function of temperature during thermal treatment of fresh and saturated activated carbon.</li> <li>Fig. 5. Adsorption capacity of urea with regenerated carbon after five consecutive adsorption/desorption cycles</li> <li>Fig. 6. Hydrogen and ammonia production from thermal treatment and catalytic treatment of urea adsorbed on activated carbon</li> <li>Table 3. Efficiencies assumed for the preliminary energy balance calculation of the designed process.</li> <li>Fig. 7. Distribution of energy requirements to produce hydrogen from urea present in human urine.</li> <li>Fig. 8. Summary of the energy analysis for the installation of the process in the city of Lleida, Spain.</li> <li>Fig. 9. Sensitivity analysis of the effect of urea adsorption capacity and ammonia decomposition temperature on the net energy production of the designed process.</li> <li>Table 4. Energy balance summary.</li> </ul>
Characterising neutrophil subtypes in cancer using human and murine single-cell RNA sequencing datasets
<p>Single cell RNA sequencing data generated by 10xGenomics for Neutrophils derived from colorectal cancer (CRC) KPN tumours (CRC_KPN_counts.csv) and normalised counts (CRC_KPN_NormalisedCounts.csv) as well as from other mouse models of CRC carrying AKPT, BPN, BP and KP mutations (CRC_other_counts.csv and CRC_other_NormalisedCounts.csv), together with the relevant metadata (CRC_KPN_metadata.csv and CRC_other_metadata.csv).</p>
Candidate High-Resolution Mass Spectrometry-Based Reference Method for the Quantification of Procalcitonin in Human Serum Using a Characterized Recombinant Protein as a Primary Calibrator
<p>Dataset related to Huu-Hien Huynh, Vincent Delatour, Maxence Derbez-Morin, Qinde Liu, Amandine Boeuf, and Joëlle Vinh, (2022) Candidate High-Resolution Mass Spectrometry-Based Reference Method for the Quantification of Procalcitonin in Human Serum Using a Characterized Recombinant Protein as a Primary Calibrator. Anal. Chem. 2022, 94, 10, 4146–4154.</p>
A secure future? Human urban and agricultural land use benefits a flightless island-endemic rail despite climate change
<p class="MsoNormal"><span>Identifying environmental characteristics that limit species' distributions is important for contemporary conservation and inferring responses to future environmental change. The Tasmanian native hen is an island-endemic flightless rail and a survivor of a prehistoric extirpation event. Little is known about the regional-scale environmental characteristics influencing the distribution of native hens, or how their future distribution might be impacted by environmental shifts (e.g., climate change). </span><span>Using a combination of local fieldwork and species distribution modelling, we assess environmental factors shaping the contemporary distribution of the native hen, and project future distribution changes under predicted climate change. We find 37.2% of Tasmania is currently suitable for the native hens, owing to low summer precipitation, low elevation, human-modified vegetation, and urban areas. <span>Moreover</span>, in unsuitable regions, </span><span>urban areas can create 'oases' of habitat, able to support populations with high breeding activity by providing resources and buffering against environmental constraints. Under climate change predictions, </span><span>native hens were predicted to lose only 5% of their occupied range by 2055. We conclude that the species is resilient to climate change and benefits overall from anthropogenic landscape modifications. As such, this constitutes a rare example of a flightless rail to have adapted to human activity.</span></p>
Data from: Investigating the human and non-obese diabetic mouse MHC class II immunopeptidome using protein language modelling.
<p><strong>Background</strong>: Identifying peptides associated with the major histocompability complex class II (MHCII) is a central task in the evaluation of the immunoregulatory function of therapeutics and drug prototypes. MHCII-peptide presentation prediction has multiple biopharmaceutical applications, including the safety assessment of biologics and engineered derivatives in silico, or the fast progression of antigen-specific immunomodulatory drug discovery programs in immune disease and cancer. This has resulted in the collection of large–scale data sets on adaptive immune receptor antigenic responses and MHC-associated peptide proteomics. In parallel, recent deep learning algorithmic advances in natural language processing (NLP) and protein language modelling (PLM) have shown potential in leveraging large collections of sequence data and improve MHC presentation prediction. <strong>Methodology</strong>: We trained a compact transformer model (AEGIS) on human and mouse MHCII immunopeptidome data, including a preclinical murine model, and evaluated its performance on the peptide presentation prediction task. <strong>Data</strong>: The data and models used in AEGIS are contained in the uploaded tar files. <strong>Results</strong>: The transformer performs on par with existing deep learning algorithms and that combining datasets from multiple organisms increases model performance (see preprint). We trained variants of the model with and without MHCII information. In both alternatives, the inclusion of peptides presented by the I-Ag7 MHC class II molecule expressed by the non-obese diabetic (NOD) mice enabled the in silico prediction of presented peptides in a preclinical type 1 diabetes model organism, which has promising therapeutic applications.</p>
Data Science in Arts and Humanities. What is useful data?
<p>This recording took place during the DHCH2023 event in Rome on June 5-7 in 2023.</p> <p>This event focuses on data science in the arts and the humanities. Flagship projects about text recognition, accessibility and digital sustainability of cultural heritage will be presented, and state-of-the-art methods in regard to 3D digitization will be introduced. The inalienable benefits of this research are explored, and the potential of these interventions is examined. And what about common criticism? </p> <p>The DHCH initiative provides a network to discuss the rich aspects of Digital Humanities, open up the perspective to the wide horizon of digital practices and support digital humanities approaches in arts, humanities and cultural heritage. The interdisciplinary digital humanities event DHCH@ISR brings together international experts, doctoral students, advanced researchers, and cultural heritage institutions. (<a href="http://dh-ch.ch">www.dh-ch.ch</a>)</p>
Native American use of cetaceans in pre-contact Oregon: Biomolecular and taphonomic analyses illuminate human-cetacean relationships: MALDI-TOF data
<p><span>This study characterizes how Native Americans living on the Oregon coast used whales and small cetaceans prior to European contact. We present an original analysis of a large subsample of archaeological cetacean remains from the Palmrose (35CLT47) site and new identifications from the previously analyzed Par-Tee (35CLT20) and Tahkenitch Landing (35DO130) sites. Using zooarchaeological and biomolecular analyses we report species presence and modification patterns to characterize use. Grays (<em>Eschrichtius</em> <em>robustus</em>) and humpbacks (<em>Megaptera</em> <em>novaeangliae</em>) were the most commonly identified whale species and a preferred source of food, oil, bone for tool manufacture, and possibly ligaments for sinew. Dolphins and porpoises, especially harbor porpoise (<em>Phocoena</em> <em>phocoena</em>), were a source of food and possibly bone for tool manufacture. While opportunistic hunting may have occurred, the presence of species such as blue (<em>Balaenoptera</em> <em>musculus</em>) and Cuvier's beaked (<em>Ziphius</em> <em>cavirostris</em>) whales suggest collection of beached animals was an important acquisition strategy. Our study demonstrates the value of biomolecular analyses for improved species identifications/understanding of species richness, and the value of zooarchaeological analysis to fully understand dietary and cultural contributions of cetaceans to precontact lifeways on the Oregon coast.</span></p>
Spatial separation of prey from livestock facilitates coexistence of a specialized large carnivore with human land use
<p><span>There is an increasing emphasis in</span><span> conservation strategies for large carnivores on facilitating their coexistence with humans.</span> <span>Justification for coexistence</span><span> strategies should be based on a quantitative assessment of currently remaining large carnivores in human-dominated landscapes. An essential part of a carnivore's coexistence strategy has to rely on its prey</span><span>. In this research, we studied snow leopards <em>Panthera uncia</em> whose habitat mainly comprises human-dominated, unprotected areas, to understand how a large carnivore and its primary prey, the bharal <em>Pseudois nayaur</em>, could coexist with human land use activities in a large proportion of its range. Using a combination of livestock census, camera trapping and wildlife surveys, across a broad gradient of </span><span>livestock grazing intensity in a 363,000 km<sup>2</sup> landscape on the Tibetan Plateau, </span><span>we found no evidence of livestock grazing impacts on snow leopard habitat use, bharal density and spatial distribution, even though livestock density was 13 times higher than bharal density.</span><span> Bharal were found to prefer utilizing more rugged habitats at higher elevations with lower grass forage conditions, whereas livestock dominated in flat valleys at lower elevations with higher productivity, especially during the resource-scarce season. These findings suggest that the spatial niche separation between bharal and livestock, together with snow leopards' specialized bharal diet, minimized conflicts and allowed snow leopards and bharal to coexist in landscapes dominated by livestock grazing. In recent years, reduced hunting and nomadic herder's lifestyle changes towards permanent residence may have further reinforced this spatial separation.</span><span> Our</span><span> results indicated that, </span><span>for developing conservation strategies for large carnivores, the niche of their prey in relation to human land-use is a key variable that needs to be evaluated.</span></p>
HG002 data for Profiling Chromatin Accessibility in Humans Using Adenine Methylation and Long-Read Sequencing
<p>This dataset includes 6mA frequency data for the HG002 native DNA (untreated) sample sequenced on nanopore r9.4.1.</p>
NA12878 and MCF7 data for Profiling Chromatin Accessibility in Humans Using Adenine Methylation and Long-Read Sequencing
<p>This dataset includes 5mC and 6mA frequency data for NA12878 and MCF7 EcoGII-treated chromatin samples sequenced on nanopore r9.4.1.</p>
Measurement of Glucose/Glycogen Metabolism in Humans Using Magnetic Resonance at 4 or 7 Tesla
ClinicalTrials.gov study NCT00786825. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Use of a Novel Synbiotic to Change Human Gut Bacteria and Improve Health in Obese Adults
ClinicalTrials.gov study NCT02355210. IPD Sharing: Not stated. Countries: 1. Publications: 1.
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.