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Model outputs in the northern shelf of the South China Sea
<p>The data used in the figure of manuscript are available in Figure.rar file. The 201706XX_Chla_budget_2.mat files are the model outputs of the chlorophyll budget terms after process. </p>
Test cases (input), test scripts (output), and source code
<p>Test cases (input), test scripts (output), and source code used in the paper "NLP-assisted Test Generation Toward Script-free Web Testing" submitted to ICSME2021 NIER track</p>
Data from: Feather corticosterone reveals effect of moulting conditions in the autumn on subsequent reproductive output and survival in an Arctic migratory bird
For birds, unpredictable environments during the energetically stressful times of moulting and breeding are expected to have negative fitness effects. Detecting those effects however, might be difficult if individuals modulate their physiology and/or behaviours in ways to minimize short-term fitness costs. Corticosterone in feathers (CORTf) is thought to provide information on total baseline and stress-induced CORT levels at moulting and is an integrated measure of hypothalamic–pituitary–adrenal activity during the time feathers are grown. We predicted that CORTf levels in northern common eider females would relate to subsequent body condition, reproductive success and survival, in a population of eiders nesting in the eastern Canadian Arctic during a capricious period marked by annual avian cholera outbreaks. We collected CORTf data from feathers grown during previous moult in autumn and data on phenology of subsequent reproduction and survival for 242 eider females over 5 years. Using path analyses, we detected a direct relationship between CORTf and arrival date and body condition the following year. CORTf also had negative indirect relationships with both eider reproductive success and survival of eiders during an avian cholera outbreak. This indirect effect was dramatic with a reduction of approximately 30% in subsequent survival of eiders during an avian cholera outbreak when mean CORTf increased by 1 standard deviation. This study highlights the importance of events or processes occurring during moult on subsequent expression of life-history traits and relation to individual fitness, and shows that information from non-destructive sampling of individuals can track carry-over effects across seasons.
Data from: Fitness in invasive social wasps: the role of variation in viral load, immune response and paternity in predicting nest size and reproductive output
Within any one habitat, the relative fitness of organisms in a population can vary substantially. Social insects like the common wasp are among the most successful invasive animals, but show enormous variation in nest size and other fitness-related traits. Some of this variation may be caused by pathogens such as viruses that can have serious consequences in social insects, which range from reduced productivity to colony death. Both individual immune responses and colony-level traits such as genetic diversity are likely to influence effects of pathogen infections on colony fitness. Here we investigate how infections with Kashmir Bee Virus (KBV), immune response and intracolony genetic diversity (due to queen polyandry) affect nest size in the invasive common wasp, Vespula vulgaris. We show that KBV is highly prevalent in wasps and expression of antiviral immune genes is significantly increased with higher viral loads across individuals. Patriline membership within a nest did not influence KBV susceptibility or immune response. A permutational MANCOVA revealed that polyandry, viral load, and expression of the immune gene Dicer were significant predictors of variation in nest size. High intracolony genetic diversity due to polyandry has previously been hypothesized to improve colony-level resistance to parasites and pathogens. Consistent with this hypothesis, we observed genetically diverse colonies to be significantly larger and to produce more queens, although this effect was not driven by the pathogen we investigated. Invasive wasps clearly suffer from pathogens and expend resources, as indicated here by elevated immune gene expression, toward reducing pathogen-impact on colony fitness.
Data from: Pair complementarity influences reproductive output in the polymorphic black sparrowhawk (Accipiter melanoleucus)
How multiple morphs are maintained within populations of colour polymorphic bird species remains a challenging question in evolutionary ecology. In some systems, differential productivity or survival between morphs are thought to play a role. Here we examine key demographic parameters between the two discrete adult morphs that characterise the polymorphic black sparrowhawk Accipiter melanoleucus. Using long-term breeding and survival data from a population on the Cape Peninsula, South Africa, we test for differences in reproductive performance between light and dark morphs, both in isolation and in combination with their partner morph and adult survival between morphs. We found that neither morph had a specific advantage in terms of productivity or survival. Despite this lack of difference between the individual morphs, we did however find that morph combination of adult pairs influenced productivity significantly, with mixed-pairs producing more offspring per year than pairs consisting of the same morph. The body condition of the offspring showed the opposite relationship, with nestlings of mixed-pairs having lower body condition than nestlings of like-pairs. While our results suggest an advantage of mating with the opposite morph, there was no evidence for disassortative mating; instead breeding pair morph combinations were random with respect to the background frequencies of the two morphs. Higher productivity of mixed-pairs may be the result of the complementary nature of care provided by the different morphs. We propose that differential foraging success between black sparrowhawk morphs under varying light conditions allows mixed-pairs to expand their foraging niche. We conclude that emergent pair-level properties may play an important role in promoting and maintaining polymorphism and may be important for other bird species which display bi-parental care.
Data from: Plasma mammalian leptin analogue predicts reproductive phenology, but not reproductive output in a capital-income breeding seaduck
To invest in energetically demanding life history stages, individuals require a substantial amount of resources. Physiological traits, particularly those related to energetics, can be useful for examining variation in life history decisions and trade-offs because they result from individual responses to environmental variation. Leptin is a protein hormone found in mammals that is proportional to the amount of endogenous fat stores within an individual. Recently, researchers have confirmed that a mammalian leptin analogue (MLA), based on the mammalian sequence of leptin, is present with associated receptors and proteins in avian species, with an inhibitory effect on foraging and body mass gain at high circulating levels. While MLA has been both quantified and manipulated in avian species, little is currently known regarding whether plasma MLA in wild-living species and individuals is associated with key reproductive decisions. We quantified plasma MLA in wild, Arctic-nesting female common eiders (Somateria mollissima) at arrival on the breeding grounds and followed them to determine subsequent breeding propensity, and reproductive phenology, investment, and success. Common eiders are capital-income breeding birds that require the accumulation of substantial fat stores to initiate laying and successfully complete incubation. We found that females with lower plasma MLA initiated breeding earlier and in a shorter period of time. However, we found no links between plasma MLA levels and breeding propensity, clutch size or reproductive success. Although little is still known about plasma MLA, based on the current study and due to its role in influencing foraging behaviours and condition gain, it appears to be closely linked to reproductive timing and is therefore likely to underlie trade-offs surrounding life history decisions.
Data from: Nest boxes increase reproductive output for Tree Swallows in a forest grassland matrix in central British Columbia
Secondary cavity-nesting birds depend on tree cavities for nesting and roosting, but many studies of these birds are conducted using nest boxes. Implementation of effective conservation strategies for cavity-nesting species such as nest-site supplementation requires careful comparisons of fecundity and other vital rates for birds using both natural and artificial nest site types. We compared breeding phenology, clutch and brood sizes, and fledging success of Tree Swallows (Tachycineta bicolor) nesting in tree cavities and nest boxes during 2001–2003 in British Columbia, Canada. Swallows using nest boxes initiated egg-laying and hatched young at approximately the same time as those in tree cavities (2 June, 23 June, respectively). Female Tree Swallows in boxes laid larger clutches (5.9 ± 0.9 eggs, N = 76) than those in tree cavities (4.2 ± 1.6 eggs, N = 67). The mean number of nestlings hatched was greater in nest boxes (5.2 ± 1.1 nestlings, N = 67) than in tree cavities (2.6 ± 2.0 nestlings, N = 58). Pairs in boxes were over twice as successful in producing fledglings (93.4%; 57 of 61 pairs fledged > 1 young) than those in tree cavities (35.8%; 19 of 53 pairs). Of those successful nests, pairs nesting in boxes fledged 5.1 ± 1.1 young (N = 57), whereas those in tree cavities fledged 3.5 ± 1.2 young (N = 18). Because cavities in nest boxes averaged 60% larger in volume and 1.8 cm wider internally than tree cavities, we suggest that increased reproductive output was correlated with boxes enabling a larger clutch size. In previous research, we found that Tree Swallows were a poor competitor with other cavity-nesting passerines for tree cavities. The addition of nest boxes may serve as an effective way to supplement local reproduction for secondary cavity-nesting bird populations by reducing competition for limited nest sites. This is especially true in regions where the availability of natural nesting sites is highly variable, and where species compete with many other cavity-nesting passerines using a similar ecological niche and nesting cavities.
Data from: Caste ratios affect the reproductive output of social trematode colonies
Intraspecific phenotypic diversification in social organisms often leads to formation of physical castes which are morphologically specialised for particular tasks within the colony. The optimal caste allocation theory argues that specialised morphological castes are efficient at specific tasks, and hence different caste ratios should affect the ergonomic efficiency, hence reproductive output of the colony. However, the reproductive output of different caste ratios has been documented only in few species of insects with equivocal support for the theory. The present study investigated whether the ratios of non-reproductive and reproductive morphs affect the reproductive output of a recently discovered social trematode, Philophthalmus sp., in which the non-reproductive members are hypothesized to be defensive specialists. Census of natural infections and a manipulative in-vitro experiment demonstrated a positive association between the reproductive output of trematode colonies and the ratio of non-reproductive to reproductive morphs in the presence of an intra-host trematode competitor, Maritrema novaezealandensis. On the contrary, without the competitor, reproductive output was negatively associated with the proportion of non-reproductive castes in colonies. Our findings demonstrate for the first time a clear fitness benefit associated with the non-reproductive castes in the presence of a competitor while illustrating the cost of maintaining such morphs in non-competitive situations. Although the proximate mechanisms controlling caste ratio remain unclear in this trematode system, the present study supports the prediction that the fitness of colonies is influenced by the composition of specialized functional morphs in social organisms, suggesting a potential for adaptive shifts of caste ratios over evolutionary time.
Inputs and outputs for polyamide membrane
<p>LAMMPS input files and modified LAMMPS version for constructing coarse-grained polyamide membranes via interfacial polymerisation. </p> <p>LAMMPS input files for equilibrating atomistic polyamide membranes. Also included are output configurations in LAMMPS data format. </p>
SIASAR conceptual model v1 outputs obtained from Nicaragua and Honduras databases (last accessed: December 21, 2016)
<p>Provided results were obtained by applying SIASAR composite indicators v1, as described in http://hdl.handle.net/2117/77587</p> <p>All “NA” values were depurated from preliminary results</p> <p>Final results are presented for Nicaragua and Honduras independently</p> <p>Required input data is available at http://doi.org/10.5281/zenodo.571351</p>
Enhanced seismicity catalog and output files of geomechanical modeling in the changning shale gas field
Open the record for dataset details and reuse information.
Input and output used in publication "Glacial isostatic adjustment shapes proglacial lakes over glacial cycles"
<p>Here we provide the input ice history and topography used for the modeling along with the output sea level and proglacial lake volume & geometries. Please see the read.me file and publication for details. Note that version 1 had incorrect files saved for some of the output, including the default run LAM_PC. Please use version 2 when recreating our results. </p>
LMDZ6iso output - Antarctic water stable isotopes in the global atmospheric model LMDZ6: from climatology to boundary layer processes
<h3><strong>Update of the Simulation</strong></h3> <p dir="ltr">This archive contains the output of a revised simulation, addressing issues identified in the original simulation described in the following article:</p> <p><em>Dutrievoz, N., Agosta, C., Risi, C., Vignon, É., Nguyen, S., Landais, A., ... & Prié, F. (2025). Antarctic water stable isotopes in the global atmospheric model LMDZ6: From climatology to boundary layer processes. Journal of Geophysical Research: Atmospheres, 130(5), e2024JD042073.</em></p> <p>All information is available here:<strong> <a href="https://docs.google.com/document/d/1x4FSGtNiJGqsMoks38yATzTQJ7T8sO8iXqeWagTU5yE/edit?usp=sharing">README</a></strong></p> <p>Researchers and colleagues are welcome to contact me at <strong>niels.dutrievoz@lsce.ipsl</strong>.<strong>fr</strong> for any further information regarding this updated simulation or potential collaborations. Please feel free to reach out if you are interested in daily or hourly output data from this simulation.</p> <p dir="ltr">I look forward to any exchanges that might arise from this work.</p> <p> </p>
Model output for PI, LGM, IS_albedo, IS_topo, LSC, ORB, GHG experiments
<p>Monthly mean outputs for LGM, PI, IS_topo, IS_albedo, GHG and ORB experiments.</p>
Ionospheric Electron Densities, Neutral Temperature, Winds and Post-processed Output from TIEGCM Simulations in Support of Publication "Physical Processes Driving the Response of the F2-region Ionosphere to the 21 August 2017 Solar Eclipse at Millstone Hill"
This dataset is associated with the publication "Physical Processes Driving the Response of the F2-region Ionosphere to the 21 August 2017 Solar Eclipse at Millstone Hill". In particular, the NCAR- Community model: high-resolution thermosphere-ionosphere-electrodynamics general circulation model (TIEGCM) has been used to investigate the response of ionospheric F2-region electron density (Ne) at Millstone Hill (42.610N, 71.480W, maximum obscuration: 63%) to the Great American Solar Eclipse on 21 August 2017. Two sets of model runs were done, one with the eclipse and the other without. Model outputs of winds, temperatures and electron densities, as well as diagnostic variables of key chemical and physical processes that determined the ionosphere responses to the eclipse, were analyzed and used in producing a paper: Physical Processes Driving the Response of the F2-region Ionosphere to the 21 August 2017 Solar Eclipse at Millstone Hill.
Selected and Post-Processed Outputs of LFM-TIEGCM-RCM Simulation of 2013 March 17 Event
This dataset is associated with the publication "SAPS in the 2013 March 17 Storm Event: Initial Results from the Coupled Magnetosphere-Ionosphere-Thermosphere Model". In particular, the NCAR Community Model: Coupled Magnetosphere-Ionosphere-Thermosphere (CMIT) with Ring Current extension, which is also known as the LFM-TIEGCM-RCM (LTR) model, has been used to investigate the subauroral polarization streams during the 2013 March 17 storm event. The LTR model was driven by realistic solar wind conditions for 2013 March 17. Model outputs of ionospheric electron precipitation energy flux, ion zonal drifts, field-aligned currents, electrostatic potential, conductances, total electron content, as well as diagnostic variables of key features of SAPS were analyzed and used in producing a paper: 'SAPS in the 2013 March 17 Storm Event: Initial Results from the Coupled Magnetosphere-Ionosphere-Thermosphere Model'.
TIEGCM output associated with the publication "Planetary wave (PW) generation in the thermosphere driven by the PW-modulated tidal spectrum"
<p>This data set consists of simulation results associated with the publication "Planetary wave (PW) generation in the thermosphere driven by the PW-modulated tidal spectrum" by Forbes et al. The simulation output is from the thermosphere-ionosphere-electrodynamics general circulation model (TIEGCM) driven by various forcing at its lower boundary of 97 km based on a thermosphere-ionosphere-mesosphere-electrodynamics GCM (TIMEGCM) simulation for 2009. There are the following lower boundary cases defining the 97km zonal and meridional winds, neutral temperature and geopotential height: a. zonal and diurnal mean of wind, temperature and geopotential height (called S0) b. based on hourly values of TIMEGCM simulation c. S0 forcing and tidal forcing of wind, temperature and geopotential height d. S0 forcing and tidal forcing and planetary waves with periods of 2-7 days The output is for day of year 259 to 319, 2009 zonal and meridional neutral wind and neutral temperature between 97 to 200 km altitude. The format is netCDF and the dataset is described in the accompanying publication.</p>
Data for: Mapping aids using output-directed programming increase novices' performance in programming mobile robotic systems
Open the record for dataset details and reuse information.
Dynamics of island mass effect: detection input & output data
<p>"dynamic_IMEdetection.zip" contains a dynamic island mass effect detection software package.</p> <p>To run:</p> <ul> <li>Unzip "dynamic_IMEdetection.zip"</li> <li>Download input data</li> <li>change path, region to process, and options in "main_dynamicIME_detection.m" to work with the location of the unzipped "dynamic_IME_input_output_data" directory.</li> <li>Run "main_dynamicIME_detection.m"</li> </ul> <p>"dynamic_IME_input_output_data.zip" contains the input data and ouput IME and BO masks of the "dynamic_IMEdetection" software for four case studies:</p> <ul> <li>I04 = Rapa Nui</li> <li>I07 = Society Islands</li> <li>I09 = Samoa</li> <li>I18 = Fiji-Tonga</li> </ul> <p>Input data are custom multi-satellite products computed using the custom-made satellite binning software found here: <a href="../doi/10.5281/zenodo.13376824">10.5281/zenodo.13376824</a>.</p> <p>Output IME and BO masks are computed using the dynamic IME detection software (i.e. "dynamic_IMEdetection") which works with the original naming (i.e. "I04", "I07", "I09", and "I18") and subdirectory path of of the share data "dynamic_IME_input_output_data".</p> <p>Output IME/BO mask, chlorophyll concentration, and modelled surface current timeseries in *.gif format:</p> <ul> <li>RapaNui_8Dbin_20160520-0712_20161205-2230_map-time-series.gif = Rapa Nui between 2016/05/20 and 2016/12/05</li> <li>SocietyIsl_8Dbin_20160622-1012_20170209-0945_map-time-series.gif = Society Islands between 2016/06/22 and 2017/02/09</li> <li>Samoa_8Dbin_20160810-1115_20170226-1030_map-time-series.gif = Samoa between 2016/08/10 and 2017/02/26</li> <li>FijiTonga_8Dbin_20170218-1240_20170906-1205_map-time-series.gif = Fiji - Tonga between 2017/02/18 and 2017/09/06</li> </ul>
Output files for Degassing of CO2 triggers large-scale loss of helium from magma oceans
<p>This upload includes output files for the paper Degassing of CO2 triggers large-scale loss of helium from magma oceans.</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.