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144 results for “Scientific Data”
Invasion Biology WikiProject Scientific Papers: Text Data Mining and LLM-based Information Extraction of Species, Locations, Habitats, and Ecosystems
<p>This dataset contains the abstract and full-text for publication DOIs from the Invasion Biology WikiProject (DOI: <a href="https://www.doi.org/10.5281/zenodo.12518036">10.5281/zenodo.12518036</a>). The data was retrieved using the <a href="https://ask.orkg.org/">ask.orkg.org</a> <a href="https://api.ask.orkg.org/docs#tag/Semantic-Neural-Search/operation/explore_documents_index_explore_get">API</a>. For the <a href="https://github.com/jd-coderepos/invasion-biology-IE/blob/main/scripts/ask-doi-list-fulltext-search.py">script</a> used to obtain the data, refer to the accompanying GitHub repository: <a href="https://github.com/jd-coderepos/invasion-biology-IE/" target="_blank" rel="noopener">https://github.com/jd-coderepos/invasion-biology-IE/</a>.</p> <p>The resulting CSV file includes the following fields: <code>"ASK ID"</code>, <code>"DOI"</code>, <code>"Title"</code>, <code>"Abstract"</code>, and <code>"Full-text"</code>.</p> <p>Of the 49,438 queried DOIs, the ASK database provided:</p> <ul> <li><strong>Total DOIs processed:</strong> 12,636</li> <li><strong>DOIs with neither abstract nor full-text:</strong> 36 (abstract token count was less than 10)</li> <li><strong>DOIs with abstracts but no full-text:</strong> 12,636</li> <li><strong>DOIs with both abstract and full-text:</strong> 2,834</li> </ul> <p>The second part of the dataset contains structured information extracted from the publications using the GPT-4o Large Language Model. This structured data is included in the zipped folder <code>structured-publications.zip</code>.</p> <p>The accompanying GitHub repository provides access to the code and scripts used at various stages of the information extraction (IE) process.</p> <p><strong>Theme of the Study:</strong><br>"Mining for Species, Locations, Habitats, and Ecosystems from Scientific Papers in Invasion Biology: A Large-Scale Exploratory Study with Large Language Models."</p>
MCR LTER: Coral Reef: Growth-predation risk trade-offs constrain the local distribution of a thicket-forming staghorn coral to marginal reef habitats; Data for Ladd et al., 2025, Scientific Reports.
This dataset is in support of the manuscript: Growth-predation risk tradeoffs constrain the local distribution of a thicket-forming staghorn coral to marginal reef habitats. These data were collected to 1) document how Acropora pulchra is distributed around the island of Moorea, and 2) to better understand the ecological processes that shape that distribution. Data include 1) results from surveys around the island of Moorea documenting the presence and size distribution of Acropora pulchra thickets, 2) results from an experiment measuring the growth and survivorship of Acropora pulchra fragments in the presence and absence of fish predators at nearshore fringing reef sites and adjacent sites in the mid lagoon (n = 20 sites in total), and 3) ancillary data on nitrogen content and dN15 in the tissue of the macroalgae Turbinaria ornata, sediment accumulation, and corallivore biomass at the experimental sites. All data were collected in 2016 and 2017.
Figures in Scientific Open Access Publications - Underlying Data
<p>This publication contains data for a statistical analysis of an OA article corpus. The underlying dataset consists of over 1 million open access articles from different publishers (Copernicus: 9592; Springer:78418; Hindawi: 147848; Frontiers: 57621; PMC (aggregator): 747839)</p>
MCR LTER: Coral Reef: Data in support of Edmunds 2018 Scientific Reports
These data are selected from the larger MCR LTER timeseries datasets knb-lter-mcr.4001 and knb-lter-mcr.4 which contain annual surveys of coral recruitment and coral cover and are formatted here in support of this publication: Edmunds, P.J., Implications of high rates of sexual recruitment in driving rapid reef recovery in Mo'orea, French Polynesia, Scientific Reports 8, Article number: 16615 (2018). DOI:10.1038/s41598-018-34686-z This material is based upon work supported by the U.S. National Science Foundation under Grant No. OCE 16-37396 (and earlier awards) as well as a generous gift from the Gordon and Betty Moore Foundation. Research was completed under permits issued by the French Polynesian Government (Délégation à la Recherche) and the Haut-commissariat de la République en Polynésie Francaise (DTRT) (Protocole d'Accueil 2005-2018). This work represents a contribution of the Moorea Coral Reef (MCR) LTER Site.
Raw data acquired necessary to produce the plots introduced in the scientific paper: "Upper-limb kinematic reconstruction during stroke robot-aided therapy" (Medical & Biological Engineering & Computing)
<p>These files contain the raw data acquired necessary to produce the plots introduced the Figure 6 of the scientific paper: “Upper-limb kinematic reconstruction during stroke robot-aided therapy” (Medical & Biological Engineering & Computing).</p> <p>Fig. 6 shows the data recorded from two patients performing five forward/backward movements at InMotion2 robot before and after rehabilitation treatment. Mean values of the five execution have been reported in Fig. 6.</p>
Raw data employed to perform the algorithm used in the scientific paper: "Kinematic reconstruction of the upper limb joints in planar robot-aided therapies
<p>These files contain the raw data (acquired from different users) necessary to perform the algorithm introduced in the scientific paper:</p> <p>PAPER: Kinematic reconstruction of the upper limb joints in planar robot-aided therapies</p> <p>Authors: Arturo Bertomeu-Motos, Ricardo Morales, Jorge A. Díez, Luis D. Lledó, Francisco J. Badesa, Nicolas Garcia-Aracil</p> <p>Conference: ICORR 2015, IEEE 14th International Conference on Rehabilitation Robotics, August 2015</p> <p><br> All the orientations are expressed regarding the origin of the robot.</p> <p>a) Robot Joints: Planar robot joints acquired during the experiment, in radians (j1-j3 columns). This robot is referenced in the paper.<br> b) Quaternion IMU shoulder: Unit quatenion acquired through a 9DoFs Inertial Measurement Unit (IMU) developed by Shimmer (qw1-qz columns).<br> c) Upper arm acceleration: Acceleration acquired from a 3-axial accelerometer developed by Shimmer (X-Z columns). It is normalized regarding the gravity (9.81m/s^2).<br> d) Quaternion Tracker onto Shoulder: unit quaternion of the tracker placed onto the shoulder acquired from the tracking camera V120:trio developed by Optitrack (qw1-qz columns).<br> e) Quaternion Tracker onto Upper Arm: unit quaternion of the tracker placed onto the upper arm acquired from the tracking camera V120:trio developed by Optitrack (qw1-qz columns).</p>
Raw data employed to perform the algorithm used in the scientific paper: "Kinematic reconstruction of the human arm joints in robot-aided therapies with Hermes robot"
<p>This file contains the raw data necessary to perform the algorithm introduced in the scientific paper:</p> <p>PAPER: Kinematic reconstruction of the human arm joints in robot-aided therapies with Hermes robot</p> <p>Authors: Arturo Bertomeu-Motos, Ricardo Morales, Luis D. Lledó, Jorge A. Díez, Jose M. Catalan, Nicolas Garcia-Aracil.</p> <p>Conference: EMBC 2015, IEEE 37th International Conference in Medicine and Biology Society, August 2015.</p> <p>Raw data acquired necessary to perform thee algorithm introduced in this paper.</p> <p>a) Robot Joints: Robot joints generated to develop the simulation, in radians (j1-j7 colums). This robot is referenced in the paper.<br> b) Direct Upper Limb Joints: Upper limb joints generated to develop the simulation, in radians (q1-q7 columns). This data is used to simulate the accelerometer value.</p>
Data set for article Veto, P., Einhäuser, W., & Troje, N.F. (2017). Biological motion distorts size perception. Scientific Reports, 7, 42576.
<p>In this data set you find 3 files containing data from Experiments 1, 2 & 3 of Veto P, Einhauser W & Troje NF (2017) Biological motion distorts size perception. Scientific Reports, 7, 42576; doi: 10.1038/srep42576</p> <p><br> The data are freely available for academic use only. If you use these data for a publication, please cite the aforementioned article.<br> If you have any questions regarding the data, please do not hesitate to contact Peter Veto at vettop@gmail.com</p> <p>Each row of the files contain data from one trial.<br> Columns:</p> <p>Experiment 1<br> 1 - Participant number<br> 2 - Block number<br> 3 - Trial number<br> 4 - Target orientation (1: Upright; -1: Inverted)<br> 5 - Stimulus width<br> 6 - Stimulus height<br> 7 - Response width<br> 8 - Response height</p> <p>Experiment 2<br> 1-8 Same as Experiment 1<br> 9 - Condition: dynamic (1) or static (2) target</p> <p>Experiment 3<br> 1 - Participant number<br> 2 - Block number<br> 3 - Trial number<br> 4 - Walker orientation<br> (1: upper walker upright, lower walker inverted;<br> 2: upper walker inverted, lower walker upright)<br> 5 - Condition<br> (1: upper target larger (21%) than lower target;<br> 2: upper target larger (10.5%) than lower target;<br> 3: target sizes are identical;<br> 4: lower target larger (10.5%) than upper target;<br> 5: lower target larger (21%) than upper target)<br> 6 - Inter stimulus interval (from end of walker presentation to onset of target circles)<br> (1: 17ms; 2: 100ms)<br> 7 - Response<br> (1: upper target was larger;<br> 2: lower target was larger)</p>
Raw data corresponding to the scientific paper: "A modular telerehabilitation architecture for upper limb robotic therapy" (Advances in Mechanical Engineering 2017, Vol. 9(1) 1-13)
<p>Acquired raw data necessary to implement the adaptive control strategy grounded on multimodal information.<br> In addition, raw data for the computation of the communication parameters needed for the assessment of the implemented telerehabilitation architecture are provided.</p> <p>a) End-effector positions and velocities (x, y, vx, vy) in three conditions: healthy (Fig 9) and constraint simulated stroke behaviour (Fig 10) without robotic assistance and simulated stroke behavior with robotic assistance (Fig 11)</p> <p>b) Performance indicators and control parameters for all the recruited subjects in both conditions healthy behaviour and simulated stroke behaviour (Fig 12a and Fig 12b)</p> <p>c) Computational values for evaluating telerehabilitation performance (Table 1)</p> <p> </p> <p> </p>
Acquired data necessary to perform the control algorithm introduced in the scientific paper: "Multilevel control of an anthropomorphic prosthetic hand for grasp and slip prevention" (Advances in Mechanical Engineering, 2016, vol. 8, pp. 1-13)
<p>Acquired data necessary to perform the control algorithm introduced in this paper.</p> <p>a) Figure 6: Calibration data for the three FSRs placed on the prosthetic hand and covered with silicon caps.<br> b) Figure 9: Data for the cost during the learning of two grasping tasks of an egg: bi-digital grasp and tri-digital grasp.<br> c) Figure 10 and Figure 11: Data for the experimental results with the plastic cup and with the highlighter shown in the paper.<br> </p> <p> </p>
Supplemental Data from the article "The SmARTR pipeline: a modular workflow for the cinematic rendering of 3D scientific imaging data"
<h1><strong>Please, refer to <a href="https://github.com/MeVisLab/SmARTR-Networks">this GitHub repository</a> for additional info, updates, issue reports, and discussion<br></strong></h1> <p><strong>A collection of configuration files (SmARTR networks) published in "<a href="https://doi.org/10.1016/j.isci.2024.111475">The SmARTR Pipeline: a modular workflow for the cinematic rendering of 3D scientific imaging data</a>", enabling the creation of cinematic (photorealistic) renderings of 3D data in the FREE software <a href="https://www.mevislab.de/download">MeVisLab</a><br></strong></p> <ul> <li>Each folder in the archive contains one or more SmARTR network files, the scan and mask files required for the practical examples detailed in the <a href="https://www.cell.com/cms/10.1016/j.isci.2024.111475/attachment/8d79036b-acb6-4cda-a5ff-f56317691ebc/mmc1.pdf">Supplemental Data</a> of the article, and an additional folder with LUT presets.</li> </ul>
Including Data Management in Research Culture Increases the Reproducibility of Scientific Results
<p><strong>General Information:</strong></p> <p>This dataset contains artifacts related to Riedel et al. (2022) (https://dx.doi.org/10.18420/inf2022_114). Here, we investigate the reproducibility of 108 research papers published between 2017 and 2021 by members of the Collaborative Research Center 1294 – Data Assimilation. To that end, we relate to a previous study by Stagge et al. (2019) that relies on a questionnaire that we extended. </p> <p>The publication by Stagge et al. (2019) is available here: https://doi.org/10.5281/zenodo.2562268<br> The dataset by Stagge et al. (2019) is available here: https://doi.org/10.1038/sdata.2019.30</p> <p>This dataset contains the questionnaire that we used to evaluate the reproducibility of scientific publications, a csv file containing the questionnaire’s answers, and a Jupyter notebook script to evaluate the given data.</p> <p><strong>Run the code:</strong></p> <p>To run the code, you must install Anaconda [1] and then open the jupyter notebook. All necessary libraries are listed in "requirement.txt". </p> <p>Alternatively, you can import the .ipyab file in the colab [2] and run it. </p> <p><br> [1]. https://www.anaconda.com/<br> [2]. https://research.google.com/colaboratory/<br> </p>
Data on scientific production on letramento informacional in Brazil: collection procedures and resulting corpus [Dataset of thesis]
<p>Dataset containing two dataset:</p> <p>1 - Description of the data collection procedures carried out for the thesis: Appropriation of the term letramento by Brazilian Library and Information Science: terminological-conceptual tensions surrounding letramento informacional by Alves (2023).</p> <p>2 - Four Spreadsheet in CSV UTF-8 containing in each of them a set of bibliographic references in partially raw data.</p>
Improving access to and reuse of research results, publications and data for scientific purposes - Stakeholders' consultations results
<p>The data sets were created via data collection effort for the Horizon Europe-funded "study to evaluate the effects of the EU copyright framework on research and the effects of potential interventions and to identify and present relevant provisions for research in EU data and digital legislation, with a focus on rights and obligations". The study was contacted by DG RTD. </p> <p>This research project supports Action 2 objectives of the European Research Area (ERA) Policy Agenda 2022-2024, which aims to propose an EU legislative and regulatory framework for copyright and data that is fit for research. The report provides a comprehensive analysis of barriers to the access and reuse of publicly funded research, including scientific publications and data. It assesses existing EU copyright legislation and EU data and digital legislation. It also assesses regulatory frameworks and national initiatives and identifies potential areas for improvement.</p> <p>Using a methodological, evidence-based approach (including the survey results posted in this repository), the study presents possible legislative and non-legislative measures to improve the current EU copyright and data framework and align it with the needs of scientific research and open research data principles. </p> <p>The data sets include the raw data of the three surveys (survey 1 targeted at researchers, survey 2 targeted at research-performing organisations, and survey 3 targeted at publishers). All surveys have two major parts: one concerning copyright legislation and another concerning data and digital legislation. In addition, we provide interview notes, they are also organised into two parts: one concerning copyright legislation and another concerning data and digital legislation. </p> <p>The data collection effort was partially supported by our colleagues from the Institute for Information Law (IVIR) and KU Leuven CiTIP. </p>
Long-term moss monitoring network for atmospheric deposition in Germany, link to research data and scientific software
<p>Research data and scientific software related to a study that aims to restructure a long-term monitoring network using moss as biomonitor for atmospheric deposition in Germany. Data from the European Moss Survey 2005 and a statistically based methodology including a decision support system were used to design the spatial network for the 2005 survey.</p>
Estimating heavy metal deposition in Germany using model calculations and biomonitoring data, link to research data and scientific software
<p>Research data and scientific software related to an investigation dealing with modelled data on Cd and Pb deposition (LOTOS-EUROS, EMEP/MSC-East) and monitoring data from the International Cooperative Programme on Effects of Air Pollution on Natural Vegetation and Crops (ICP Vegetation Moss Survey) and the German Environmental Specimen Bank (ESB) providing corresponding parameters on HM concentration in various biota. The study aimed at examining, whether an integrated use of model calculations and monitoring data can extend established methods for estimating and evaluating spatial patterns of atmospheric Pb and Cd deposition across Germany.</p>
Fuzzy modelling and mapping soil moisture in Germany, link to research data and scientific software
<p>Research data and scientific software related to spatio-temporal estimations of ecological soil moisture with available data covering the whole territory of Germany and the Kellerwald National Park (Hesse). Temporal trends of modelled soil moisture for the time period 1961–2070 were statistically analyzed. Soil moisture changes (drying-out) at both national and regional levels were mapped.</p>
Different facets of the same niche: integrating citizen science and scientific survey data to predict biological invasion risk under multiple global change drivers
<p>Raw data (occurrences and environmental predictors) used in the manuscript "Different facets of the same niche: integrating citizen science and scientific survey data to predict biological invasion risk under multiple global change drivers"</p>
Pond data: physical, chemical, and biological characteristics with scientific and United States of America state definitions from literature and legislative surveys
Ponds are often identified by their small size and shallow depths, but the lack of a universal definition hampers science and weakens legal protection. In order to determine a working definition of ‘pond’, we conducted a literature search for scientific definitions, a U.S. state survey for management definitions, and looked at pond ecosystem function using data from the literature search. Our dataset includes physical, chemical, and biological data for 1327 waterbodies ≤ 20 ha in surface area and ≤ 9 m in maximum or mean depth from our literature review. These data have a global distribution, we include a table of latitudes and longitudes, and span many years (1946-2019). We have also included a table of 54 pond definitions from the literature review and a table of U.S. state definitions of ponds, wetlands, and lakes resulting from our survey.
Data used in the Final Draft Scientific Basis Report Supplement in Support of Proposed Voluntary Agreements for the Sacramento River, Delta, and Tributaries Update to the San Francisco Bay/Sacramento-San Joaquin Delta Water Quality Control Plan
This dataset includes modeled data describing the potential benefits of the Voluntary Agreements (VAs) from the Final Draft Scientific Basis Report Supplement in Support of Proposed Voluntary Agreements for the Sacramento River, Delta, and Tributaries Update to the San Francisco Bay/Sacramento-San Joaquin Delta Water Quality Control Plan.
ScienceDex guides
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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.