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7,378 results for “case”
Predominance of antibody-resistant SARS-CoV-2 variants in vaccine breakthrough cases from the San Francisco Bay Area, California
<p>This repository contains the pertinent datasets used in the manuscript, <em>Predominance of antibody-resistant SARS-CoV-2 variants in vaccine breakthrough cases from the San Francisco Bay Area, California</em>.</p>
Volatile (C, N, Ar) variability in MORB and the respective roles of mantle source heterogeneity and degassing: the case of the Southwest Indian Ridge
<p>Location, isotopic compositions of δ13C and δ18O of CO2, δ15N of N2 and C, N and Ar abundances in vesicles of SWIR basaltic glasses</p>
The emergence of ecotypes in a parasitoid wasp: a case of incipient sympatric speciation in Hymenoptera?
<p>Background</p> <p>To understand which reproductive barriers initiate speciation is a major question in evolutionary research. Despite their high species numbers and specific biology, there are only few studies on speciation in Hymenoptera. This study aims to identify very early reproductive barriers in a local, sympatric population of Nasonia vitripennis (Walker 1836), a hymenopterous parasitoid of fly pupae. We studied ecological barriers, sexual barriers, and the reduction in F1-female offspring as a postmating barrier, as well as the population structure using microsatellites.</p> <p>Results</p> <p>We found considerable inbreeding within female strains and a population structure with either three or five subpopulation clusters defined by microsatellites. In addition, there are two ecotypes, one parasitizing fly pupae in bird nests and the other on carrion. The nest ecotype is mainly formed from one of the microsatellite clusters, the two or four remaining microsatellite clusters form the carrion ecotype. There was slight sexual isolation and a reduction in F1-female offspring between inbreeding strains from the same microsatellite clusters and the same ecotypes. Strains from different microsatellite clusters are separated by a reduction in F1-female offspring. Ecotypes are separated only by ecological barriers.</p> <p>Conclusions</p> <p>This is the first demonstration of very early reproductive barriers within a sympatric population of Hymenoptera. It demonstrates that sexual and premating barriers can precede ecological separation. This indicates the complexity of ecotype formation and highlights the general need for more studies within homogenous populations for the identification of the earliest barriers in the speciation process.</p>
Training dataset for the Drivers use case
<p>Training dataset for the Drivers use case (C language) obtained from the "excavator" dataset <a href="https://zenodo.org/record/4383876">https://zenodo.org/record/4383876</a> (simplified version of the original linux code).</p>
Nordic comparative study on green space use during COVID-19 – Case Helsinki (NCS-Helsinki)
<p>This dataset includes the data used in the Helsinki case study of an original research paper “<em>Pandemic urban resilience in the Nordic context - a cross-city analysis on associations between outdoor recreation and green infrastructure</em>” (Fagerholm et al., upcoming).</p> <p>The data were collected in the PLAN-Health (PLAN-H) research project (<a href="https://participatorymapping.org/project/health-promoting-urban-environment-plan-h/">https://participatorymapping.org/project/health-promoting-urban-environment-plan-h/</a>) and include point data of respondent-mapped outdoor locations visited in leisure time.</p>
FIG. 13 in Bryozoan faunas at the Tortonian-Messinian transition. A palaeoenvironmental case study from Crete Island, eastern Mediterranean
FIG. 13. — Bathymetric reconstruction and correlations between sections.
Predicting Properties of Periodic Systems from Cluster Data: A Case Study of Liquid Water
<ul> <li> Description</li> </ul> <p>The 1520 water clusters were extracted from Ref. 1. The respective energies and atomic forces were recomputed at the revPBE-D3/def2-TZVP [2-6], B3LYP-D3/def2-TZVP [4-6, 7, 8], and BLYP-D3/def2-TZVP [4-6, 7, 9] level.</p> <ul> <li> Format</li> </ul> <p>The data is stored in python compressed array format (.npz) with the atomization energy in kcal/mol and atomic forces in kcal/mol/Ang. The data set contains five np.ndarray</p> <pre><code>import numpy as np data = np.load('revpbe.npz') data['R'] # Cartesian coordinates of nuclei in Ang. data['E'] # Total energy in kcal/mol data['F'] # Atomic forces in kcal/mol/Ang. data['N'] # Number of atoms in each structure data['Z'] # Nuclear charges</code></pre> <p>References</p> <ul> </ul> <p>[1] Molpeceres G., Zaverkin V., and Kästner J., “Neural-network assisted study of nitrogen atom dynamics on amorphous solid water – I. adsorption and desorption,” Mon. Not. R. Astron. Soc. 499, 1373 (2020).</p> <p>[2] P. E. Blöchl, “Projector augmented-wave method,” Phys. Rev. B 50, 17953 (1994).</p> <p>[3] Y. Zhang and W. Yang, “Comment on “generalized gradient approximation made simple”,” Phys. Rev. Lett. 80, 890 (1998).</p> <p>[4] S. Grimme, J. Antony, S. Ehrlich, and H. Krieg, “A consistent and accurate ab initio parametrization of density functional dispersion correction (DFT-D) for the 94 elements H-Pu,” J. Chem. Phys. 132, 154104 (2010).</p> <p>[5] F. Weigend and R. Ahlrichs, “Balanced basis sets of split valence, triple zeta valence and quadruple zeta valence quality for H to Rn: Design and assessment of accuracy,” Phys. Chem. Chem. Phys. 7, 3297 (2005).</p> <p>[6] F. Weigend, “Accurate Coulomb-fitting basis sets for H to Rn,” Phys. Chem. Chem. Phys. 8, 1057 (2006).</p> <p>[7] A. D. Becke, “Density-functional thermochemistry. iii. the role of exact exchange,” J. Chem. Phys. 98, 5648 (1993).</p> <p>[8] P. J. Stephens, F. J. Devlin, C. F. Chabalowski, and M. J. Frisch, “Ab initio calculation of vibrational absorption and circular dichroism spectra using density functional force fields,” J. Phys. Chem. 98, 11623 (1994).</p> <p>[9] C. Lee, W. Yang, and R. G. Parr, “Development of the Colle-Salvetti correlation-energy formula into a functional of the electron density,” Phys. Rev. B 37, 785 (1988).</p>
Data from: Multi-image flock size estimation with CountEm: A case study with half a million Common Eiders and Greater Snow Geese.
<p>The present data set is related to the manuscript "Multi-image flock size estimation with CountEm: A case study with half a million Common Eiders and Greater Snow Geese" submitted to the Ecosphere journal.</p> <p>The files COEI_data.csv and GSGO_data.csv contain data and results of the 179 COEI and 99 GSGO ECA Flocks images respectively. The files have one row per image. Both files have 9 columns corresponding to the following variables:</p> <ul> <li> “Filenumber” is used to identify the number of the corresponding image, namely “001” to “099” for GSGO, and “001” to “179” for COEI.</li> <li> “N”: Total number of annotated birds in the image.</li> <li> “Nest”: Bird number estimation (bN 439 ) obtained with a single real mode CountEm run.</li> <li> “CE_sim”: Empirical coefficient of error (relative standard error, CEe(bN 440 )) obtained from 2000 simulated measurements in simulation mode.</li> <li> “f”: Sampling fraction used in the real mode CountEm run.</li> <li>“n0”: Initial number of quadrats used in the real mode CountEm run.</li> <li>“Q”: Total number of birds (i.e. sample size) counted in the real mode CountEm estimation.</li> <li> “n”: Number of non-empty quadrats counted in the real mode CountEm estimation.</li> <li> “UserTime”: Counting time (in minutes) in the real mode CountEm estimation.</li> <li> “ManualTime”: Counting time (in minutes) of the manual annotation process with ImageJ.</li> </ul>
Inputs and results of "A qualitative and quantitative analysis of open citations to retracted articles: the Wakefield 1998 et al.'s case"
<p>This repository contains the datasets and visualizations generated in our work: <strong>"A qualitative and quantitative analysis of open citations to retracted articles: the Wakefield 1998 et al.’s case"</strong>.</p> <p><strong>Note:</strong> the data are all contained inside the <strong><em>data.zip</em> </strong>file. You need to unzip the container to get access to all the files and directories listed below.</p> <p>The data (citations) gathered accompanied by their annotated characteristics are stored in <strong><em>data/</em>:</strong></p> <ul> <li><em><strong>"cits_features.csv": </strong></em>a dataset containing all the entities (rows in the CSV) which have cited the Wakefield et al. retracted article, and a set of features characterizing each citing entity (columns in the CSV). The features included are: DOI ("doi"), year of publication ("year"), the title ("title"), the venue identifier ("source_id"), the title of the venue ("source_title"), yes/no value in case the entity is retracted as well ("retracted"), the subject area ("area"), the subject category ("category"), the sections of the in-text citations ("intext_citation.section"), the value of the reference pointer ("intext_citation.pointer"), the in-text citation function ("intext_citation.intent"), the in-text citation perceived sentiment ("intext_citation.sentiment"), and a yes/no value to denote whether the in-text citation context mentions the retraction of the cited entity ("intext_citation.section.ret_mention").<br> <strong>Note: </strong>this dataset is licensed under a <a href="https://creativecommons.org/publicdomain/zero/1.0/legalcode">Creative Commons public domain dedication (CC0)</a>.</li> <li><em><strong>"cits_text.csv": </strong>this dataset stores the abstract ("abstract") and the in-text citations context ("intext_citation.context") </em>for each citing entity identified using the DOI value ("doi").<br> <strong>Note: </strong>the data keep their original license (the one provided by their publisher). This dataset is provided in order to favor the reproducibility of the results obtained in our work.</li> </ul> <p><strong>Topic modeling</strong></p> <p>We run a topic modeling analysis on the textual features gathered (i.e. abstracts and citation contexts). The results are stored inside the <em><strong>topic_modeling/</strong></em> directory. The topic modeling has been done using MITAO, a tool for mashing up automatic text analysis tools and creating a completely customizable visual workflow [1]. The topic modeling results for each textual feature are separated into two different folders, <em><strong>abstract/</strong></em> for the abstracts, and <em><strong>intext_cit/</strong></em> for the in-text citation contexts. Both the directories contain the datasets and visualizations generated using MITAO. </p> <p> </p> <p><strong>References</strong></p> <p>[1] Ferri, P., Heibi, I., Pareschi, L., & Peroni, S. (2020). MITAO: A User Friendly and Modular Software for Topic Modelling [JD]. PuntOorg International Journal, 5(2), 135–149. <a href="https://doi.org/10.19245/25.05.pij.5.2.3">https://doi.org/10.19245/25.05.pij.5.2.3</a></p>
Can at-risk species serve as effective conservation surrogates? Case study in northeastern US shrublands
<p>Targeted, single-species management and ecosystem-based management are generally considered disparate conservation approaches. In imperiled ecosystems, these approaches may be complementary, when habitat management for targeted at-risk species provides broad ecosystem benefits through an umbrella or surrogate species effect. In the northeastern United States, extensive management has been ongoing since 2011 to restore declining habitat for an at-risk shrubland habitat specialist, the New England cottontail (<i>Sylvilagus transitionalis</i>), with the goal that other shrubland-obligate wildlife will also benefit; yet the efficacy of these efforts has not been evaluated. In this study, we assessed whether habitat management targeting New England cottontail provides conservation benefits for shrubland-obligate birds. Specifically, we (1) identified shrubland-obligate birds that are indicative of the microhabitat conditions and habitat types suitable for New England cottontails, and (2) determined microhabitat and patch-level influences on shrubland bird occupancy at sites occupied by or managed for New England cottontail. Through avian point count surveys and indicator species analyses, we identified 12 shrubland-obligate bird species on patches occupied by New England cottontail and in microhabitat conditions suitable for New England cottontail. Occupancy models for five shrubland bird species further identified species-specific habitat associations. Generalized linear models showed that shrubland bird species richness was positively associated with herbaceous vegetation and low shrubs, indicating that shrublands managed for the purpose of cottontail colonization can also benefit a suite of shrubland birds before the habitat is dense enough to provide cover for cottontails. Our findings show that managing habitat for New England cottontail on a variety of site types can maintain a range of microhabitat conditions to support a high diversity of shrubland-obligate birds. These findings provide evidence for broad ecosystem benefits of managing for New England cottontail and exemplify the value of at-risk habitat specialists as conservation surrogates in imperiled ecosystems.</p>
The prediction data analyzed in the article: "An improved regional coupled modeling system for Arctic sea ice simulation and prediction: a case study for 2018"
<p>The outputs of seasonal predictions with the Coupled Arctic Prediction System version 1 analyzed in the article, "An improved regional coupled modeling system for Arctic sea ice simulation and prediction: a case study for 2018", including:</p> <p>Sea ice concentration (SIC)</p> <p>Sea ice thickness (SIT)</p> <p>Sea surface temperature (SST)</p> <p>Ice mass budget diagnostics</p> <p>Accumulated downward shortwave radiation at the surface (ASWDN)</p> <p>Accumulated downward longwave radiation at the surface (ALWDN)</p> <p>Near surface air temperature (T2) </p> <p>Temperature and salinity profile of the upper ocean under sea ice </p>
Tree dynamic response and survival in a category-5 tropical cyclone: The case of super typhoon Trami
In the future with climate change, we expect more forest and tree damage due to the increasing strength and changing trajectories of tropical cyclones (TCs). However, to date, we have limited information to estimate likely damage levels, and nobody has ever measured exactly how forest trees behave mechanically during a TC. In 2018, a category-5 TC destroyed trees in our ongoing research plots, in which we were measuring tree movement and wind speed in two different tree spacing plots. We found damaged trees in only the wider spaced plot. Here, we present how trees dynamically respond to strong winds during a TC. Sustained strong winds obviously trigger the damage to trees and forests but inter-tree spacing is also a key factor because the level of support from neighboring trees modifies the effective "stiffness" against the wind both at the single tree and whole forest stand level.
mCRL2 models, requirements and test logs for the EULYNX Point interface case study
<p>mCRL2 models and mu-calculus formulas for the EULYNX Point Interface. Models and requirements are made in the context of the FormaSig project. Data is made available for replication purposes.</p> <p>REQ_P_001, REQ_P_001_1 and REQ_P_002 are requirements for the point specific mCRL2 model point_spec.mcrl2</p> <p>Remaining .mcf files are requirements for the generic PDI interface pdi_spec.mcrl2</p> <p>Artifacts relating to testing are:</p> <ul> <li>An mCRL2 model, mbt.mcrl2</li> <li>A rename file to rename internal actions to tau, rename_file.re</li> <li>Partial state space associated to mbt.mcrl2, partial_state_space.aut</li> <li>The weak-trace bisim reduced version of the state space, partial_state_space_reduced.aut</li> <li>Testing logs, test-logs.zip</li> <li>The source code of the simulator and the testing tools, Simulator code.zip</li> </ul>
CONTINUUM HYDROLOGICAL MODEL SAMPLE DATA FOR WRF 24 OCTOBER 2021 (APOLLO MEDICANE CASE)
<p>CONTINUUM HYDROLOGICAL MODEL SAMPLE DATA FOR WRF 24 OCTOBER 2021 (APOLLO MEDICANE CASE). Data are ready for publication on MyDewetra platform</p>
A case study of the dimensional effects in an additive manufacturing process with multiple operations
<p>This dataset provides a case study for the dimension changes of the prints in an additive manufacturing process with multiple operations. The operations are Stereolithography (SLA) printing and its two post-processing processes (washing and post-curing). The dataset contains the measured dimensions of the prints after each operation, which allows the modeling of each operation individually.<br> </p>
Dataset used in the study "Residential buildings real estate values linked to summer surface thermal anomaly patterns and urban features: the Florence (Italy) case study."
<p>This dataset repository includes eight raster layers (Reference System EPSG:3035 - ETRS89-extended / LAEA Europe), used in the study "Residential buildings real estate values linked to summer surface thermal anomaly patterns and urban features: the Florence (Italy) case study", and obtained by the adaptation of analyses carried out by previous studies (Morabito et al., 2021; Guerri et al., 2021; 2022).</p> <p>Further information regarding the source, study period, and horizontal resolution is available in the attached text file. </p> <p> </p> <p><strong><em>References</em></strong></p> <p>Guerri, G., Crisci, A., Congedo, L., Munafò, M., Morabito, M., <strong>2022</strong>. A functional seasonal thermal hot-spot classification: Focus on industrial sites. Science of The Total Environment 806, 151383.<a href="http://https://doi.org/10.1016/j.scitotenv.2021.151383"> https://doi.org/10.1016/j.scitotenv.2021.151383</a>.</p> <p>Guerri, G., Crisci, A., Messeri, A., Congedo, L., Munafò, M., Morabito, M., <strong>2021</strong>. Thermal Summer Diurnal Hot-Spot Analysis: The Role of Local Urban Features Layers. Remote Sensing 13, 538. <a href="https://doi.org/10.3390/rs13030538">https://doi.org/10.3390/rs13030538</a>.</p> <p>Morabito, M., Crisci, A., Guerri, G., Messeri, A., Congedo, L., Munafò, M., <strong>2021</strong>. Surface Urban Heat Islands in Italian Metropolitan Cities: Tree Cover and Impervious Surface Influences. Science of The Total Environment 751, 142334. <a href="https://doi.org/10.1016/j.scitotenv.2020.142334">https://doi.org/10.1016/j.scitotenv.2020.142334</a>.</p>
Improving estimations of life history parameters of small animals in mesocosm experiments: A case study on mosquitoes
<p>We used an experimental setup with 48 aquatic mesocosms, each with twenty first instar mosquito (<em>Culex pipiens</em>) larvae and under one of twelve treatments with varying temperatures and nutrient concentrations. We took daily subsamples of the aquatic life stages as well as counting the emerging adults. We developed a method to estimate the survival and development probabilities at each life stage, based on optimising a matrix population model. We used two different approaches, one calculating the difference between predictions and observations based on a normal distribution, and the other using a combination of a normal and a multinomial distribution. For each approach, the resulting optimisation problem had around 100 parameters, making conventional gradient descent ineffective with our limited number of data points. We solved this by computing the formal derivatives of our matrix model.</p>
HARMONIE-AROME 1D results for intercomparison cases
<p>Please read the readme.txt file for a description of the files.</p>
H2020 Platone Italian Demonstrator Use Case 1-2 Topology and asset description
<p>Description of the database "areti_production_PV_customer_2021":</p> <p>Data of the PV plant installed at the users' place.</p> <p>Data referred to several customers related to the year 2021.</p> <p>In the database you will find:</p> <p>PoD: Point od Delivery of the users' place (PoD) identification code;<br> Rated Power (peak) [W]: photovoltaic plant rated power peak in W;<br> Rated Voltage [Vac]: photovoltaic plant rated voltage in V;<br> Supply Type (at PoD): supply voltage of plat where the PV plant is connected (1Ph: single-phase; 3Ph: three-phase).</p> <p>_________________________________<br> </p> <p>Description of the database "areti_storage_customer_2021":</p> <p>Data of storage system installed at the users' place.</p> <p>Data referred to several customers related to the year 2021.</p> <p>In the database you will find: </p> <p>PoD: Point od Delivery of the users' place (PoD) identification code;<br> Rated Power (charging) [kVA]: rated power in kVA of storage during charging phase;<br> Rated Power (discharging) [kVA]: rated power in kVA of storage during discharging phase;<br> Max Rated Power (charging) [kVA]: max rated power in kVA of storage during charging phase;<br> Max Rated Power (discharging) [kVA]: max rated power in kVA of storage during discharging phase;<br> Rated Voltage [V]: rated voltage in V of storage;<br> Supply Type: supply type (1Ph: single-phase);<br> Max capacity [kWh]: max capacity in kWh of storage;<br> DoD: Depth of Discharge of storage; <br> Setting Power Factor Range [p.u.]: range of settable power factor of storage;</p> <p>(Useful link to consult Italian UC:</p> <p><a href="https://eur01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fsmart-grid-use-cases.github.io%2Fdocs%2Fusecases%2Fplatone%2Fuc-it-1-voltage-management%2F&data=04%7C01%7Cfabio.bastianelli%40mail-bip.com%7C0bb5a42aac0c49cb876708d9f2c89510%7Cbb1a63ebeb09471aa00537b07792a5b5%7C0%7C0%7C637807765572787908%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=ptAsS52VBberHmZqIzYEXZs1PQrXQ6TDz6mNK%2FNWnk0%3D&reserved=0">https://smart-grid-use-cases.github.io/docs/usecases/platone/uc-it-1-voltage-management/</a></p> <p><a href="https://eur01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fsmart-grid-use-cases.github.io%2Fdocs%2Fusecases%2Fplatone%2Fuc-it-2-congestion-management%2F&data=04%7C01%7Cfabio.bastianelli%40mail-bip.com%7C0bb5a42aac0c49cb876708d9f2c89510%7Cbb1a63ebeb09471aa00537b07792a5b5%7C0%7C0%7C637807765572787908%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000&sdata=xWNOqSeS5JxDoBEWZ4aB63gLmsnTA8YGGfCOoLjo1eo%3D&reserved=0">https://smart-grid-use-cases.github.io/docs/usecases/platone/uc-it-2-congestion-management/</a></p> <p><a href="https://platone-h2020.eu/data/deliverables/864300_M12_D1.1.pdf">https://platone-h2020.eu/data/deliverables/864300_M12_D1.1.pdf</a>)</p>
Pulsed stress hypothesis revisited – A case study of Metopolophium dirhodum and spring wheat
<p>Life table data for the rose-grain aphid, Metopolophium dirhodum, reared on the spring wheat, Triticum sativum, under four regimes of water supply: 40C - continuous drought (40 SWC), 70C - well watered (70 SWC), 40-0, 40-1, 40-2 and 40-3 - pulsed stress timed for one week before aphids were established (40-0), during nymphal development (40-1), and during first (40-2) and second week of reproduction (40-3). </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.