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.
56
datasets available to search
ShareScore release 0.9.0
Dataset results
56 results for “competition model”
An integrated population model reveals source-sink dynamics for competitively subordinate African wild dogs linked to anthropogenic prey depletion
<ol> <li>Many African large carnivore populations are declining due to decline of the herbivore populations on which they depend. The densities of apex carnivores like the lion and spotted hyena correlate strongly with prey density, but competitive subordinates like the African wild dog benefit from competitive release when the density of apex carnivores is low, so the expected effect of a simultaneous decrease in resources and dominant competitors is not obvious. </li> <li>Wild dogs in Zambia's Luangwa Valley Ecosystem occupy four ecologically similar areas with well-described differences in the densities of prey and dominant competitors, due to spatial variation in illegal offtake.</li> <li>We used long-term data to fit a Bayesian integrated population model (IPM) of the demography and dynamics of wild dogs in these four regions. The IPM used Leslie projection to link a Cormack-Jolly-Seber model of area-specific survival (allowing for individual heterogeneity in detection), a zero-inflated Poisson model of area-specific fecundity, and a state-space model of population size that used estimates from a closed mark-capture model as the counts from which (latent) population size was estimated.</li> <li>The IPM showed that both survival and reproduction were lowest in the region with the lowest density of preferred prey (puku, <em>Kobus vardonii</em>, and impala, <em>Aepyceros</em> <em>melampus</em>), despite little use of this area by lions. Survival and reproduction were highest in the region with the highest prey density, and intermediate in the two regions with intermediate prey density. The population growth rate (λ) was positive for the population as a whole, strongly positive in the region with the highest prey density, and strongly negative in the region with the lowest prey density.</li> <li>It has long been thought that the benefits of competitive release protect African wild dogs from the costs of low prey density. Our results show that the costs of prey depletion overwhelm the benefits of competitive release and cause local population decline where anthropogenic prey depletion is strong. Because competition is important in many guilds and humans are affecting resources of many types, it is likely that similarly fundamental shifts in population limitation are arising in many systems.</li> </ol>
ARCHIMED-φ simulation files for the simulation of Design A from the article "When architectural plasticity fails to counter the light competition imposed by planting design: an in silico approach using a functional-structural model of oil palm"; in silico Plants journal
<p>Input files for the simulation of Design A in ARCHIMED-φ from the article "When architectural plasticity fails to counter the light competition imposed by planting design: an in silico approach using a functional-structural model of oil palm"; in silico Plants journal.</p> <p>See https://archimed-platform.github.io/archimed-phys-user-doc/ for more details on the model.</p> <p>Make a simulation by opening a terminal at the root of the folder and type: `java -jar .\archimed-phys.jar .\DesignA_MockUpA_seed1_MAP_72.yml`.</p>
Fig. 4 in Outcome of within-host competition demonstrates that parasite virulence doesn't equal success in a myxozoan model system
Fig. 4. Total number of a) genotype-I and b) genotype-II myxospores produced per actinospore, as a measure of parasite success, in fish from single and mixedgenotype treatments. Black bars denote genotype-I only, white denote genotype-II only, and grey denote mixed-genotype treatments. Letters indicate treatments that differed (Tukey's HSD tests, α = 0.05).
Fig. 3 in Outcome of within-host competition demonstrates that parasite virulence doesn't equal success in a myxozoan model system
Fig. 3. Parasite copy number, as a measure of parasite competition in mixed-genotype treatments, in a) gill tissue sampled at 7d (t7), b) gill tissue sampled at 14d (t14) c) intestinal tissue sampled at 7d, and d) intestinal tissue sampled at 14d. Black bars denote genotype-I only, white denote genotype-II only, and grey denote mixedgenotype treatments. Inset striped grey bars represent total genotype I copy numbers, based on the proportion of genotype I in sequenced DNA samples (genotype II comprises the remainderthe solid grey bar). Letters indicate treatments that differed (Tukey's HSD tests, α = 0.05). Total number of genotype-I (black circles) and genotype-II (white circles) myxospores produced per actinospore, as a measure of parasite success in fish overlaid on parasite copy number in intestinal tissue sampled at 14d.
Fig. 2 in Outcome of within-host competition demonstrates that parasite virulence doesn't equal success in a myxozoan model system
Fig. 2. Median day to death, as a measure of parasite virulence, in treatment groups. Black bars denote genotype-I only, white denote genotype-II only, and grey denote mixed-genotype treatments. Letters indicate treatments that differed (Tukey's HSD tests, α = 0.05).
Fig. 1 in Outcome of within-host competition demonstrates that parasite virulence doesn't equal success in a myxozoan model system
Fig. 1. Experimental schematic and timeline. Timeline begins at t-3 when density of parasites in polychaete cultures (inset a) was estimated in replicate water samples to calculate dose administered on t0 and t6. Specific-pathogen-free (SPF) well water ("W") was used as a negative control and a mock exposure t0 and t6 in treatments that received no parasites on those exposure dates "W"- denotes water, "I: denotes genotype-I and "II" denotes genotype-II (inset b). * denote treatments used for cytokine and immunoglobulin assays (b).
Molecular Determinants and Pharmacological Analysis for a Class of Competitive Non-transported Bicyclic Inhibitors of the Betaine/GABA Transporter BGT1: Modeling Data
<p>This archive contains the modeling data for the study <a href="https://www.frontiersin.org/articles/10.3389/fchem.2021.736457/full">"Molecular Determinants and Pharmacological Analysis for a Class of Competitive Non-transported Bicyclic Inhibitors of the Betaine/GABA Transporter BGT1"</a> (doi: 10.3389/fchem.2021.736457).</p> <p>The following data sets are available:</p> <ul> <li>Induced fit docking results of all mentioned compounds in the study: <br> ifd_hBGT1_occ_clustering_all_compounds.zip<br> </li> <li>MD simulations of bicyclo-GABA and compound 1 (100ns, 3 replica):<br> MD_simulation_bicyclo-GABA_run1.zip<br> MD_simulation_bicyclo-GABA_run2.zip<br> MD_simulation_bicyclo-GABA_run3.zip<br> MD_simulation_cmd1_run1.zip<br> MD_simulation_cmd1_run2.zip<br> MD_simulation_cmd1_run3.zip</li> </ul> <p>A detailed description of the methods is available in the aforementioned publication.</p> <p> </p> <p>The compound numbering in the uploaded files differs from the compound numbering in the mentioned study:</p> <p> </p> <p>study / upload</p> <p>bicyclo-GABA / cmd4</p> <p>1 / IIa</p> <p>2 /8-2</p> <p>3 / 8-3</p> <p>4a / 7-1</p> <p>4b / 7-2</p> <p>4c / 7-3</p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p> <p> </p>
Competition between predicting mathematical models and laboratory results for covid 19 after vaccination in Iran
<p>All of us like to find a way to end Covid 19. Specially, economy confronts with many problems. In attached JPG, i bring two predictions for covid 19 pandemic in Iran. Mathematical model predicts that after a fall in figure we will have a peak. However, right now, most of people in Iran used of vaccines. In addition, government forced on all to get vaccine. Even, students with 12 to 18 years old get vaccine. It has been heard that soonly, kids with ages between 3-12 years old will receive vaccine. As a man or woman, all of us like that this program will response and vaccines work. However, predictions of math show reverse result. Although, maybe, we should enter the factor of vaccine in mathematical model. It is good opportunity for scientists to examine response of covid 19 to program of vaccine for all. Even if we have a peak, however its height be smaller, we can say that vaccines act. Hope for ending Covid 19 in all countries.</p>
An integrated population model reveals source-sink dynamics for competitively subordinate African wild dogs linked to anthropogenic prey depletion
Open the record for dataset details and reuse information.
Competition for pollination and isolation from mates differentially impact four stages of pollination in a model grassland perennial
<p>1. Species that persist in small populations isolated by habitat destruction may experience reproductive failure. Self-incompatible plants face dual threats of mate-limitation and competition with co-flowering plants for pollination services. Such competition may lower pollinator visitation, increase heterospecific pollen transfer, and reduce the likelihood that a visit results in successful pollination.</p> <p>2. To understand how isolation from mates and competition with co-flowering species contribute to reproductive failure in fragmented habitat, we conducted an observational study of a tallgrass prairie perennial, <i>Echinacea angustifolia</i>. We quantified the isolation of focal individuals from mates, characterized species richness and counted inflorescences within 1m radius, observed pollinator visitation, collected pollinators, quantified pollen loads on pollinators and on <i>Echinacea</i> stigmas, and measured pollination success. Throughout the season, we sampled 223 focal plants.</p> <p>3. We present evidence that both co-flowering species and isolation from mates substantially limit reproduction in <i>Echinacea</i>. As the flowering season progressed, the probability of pollinator visitation to focal plants decreased and evidence for pollen-limited reproduction increased. Pollinators were most likely to visit <i>Echinacea</i> plants from low-richness floral neighbourhoods with close potential mates, or plants from high-richness neighbourhoods with distant potential mates. Frequent visitation only increased pollination success in the former case, likely because <i>Echinacea</i> in high-richness floral neighbourhoods received low-quality visits.</p> <p>4. Synthesis: In <i>Echinacea</i>, reproduction was limited by isolation from potential mates and the richness of co-flowering species. These aspects of the floral neighbourhood influenced pollinator visitation and pollination success, although conditions that predicted high visitation did not always lead to high pollination success. These results reveal how habitat modification and destruction, which influence floral neighbourhood and isolation from conspecific mates, can differentially affect various stages of reproductive biology in self-incompatible plants. Our results suggest that prairie conservation and restoration efforts that promote patches of greater floral diversity may improve reproductive outcomes in fragmented habitats.</p>
The evaluation of climate change competitiveness via DEA models and Shannon's entropy: EU regions case
<p>Supplementary materials for the article titled “The evaluation of climate change competitiveness via DEA models and Shannon’s entropy: EU regions case”.</p> <p><span>The data was collected under project provided by the National Science Centre, Poland; Grant No. 2019/35/B/HS5/01548.</span></p> <div> <div> <div> <p> </p> </div> </div> </div> <p> </p>
Heat stress can change the competitive outcome between fungi – insights from a modelling approach
<p>Under a changing climate, soil fungal communities will increasingly be subject to periods of heat stress. These periods can affect the performance of individual fungi and their competition for space and resources. Competition between fungi is strongly controlled by the exudation of inhibitory compounds, resulting in different competitive outcomes that range from overgrowth of the inferior competitor to a deadlock, where the competing fungi inhibit each other. As heat stress can alter the competitive outcome between fungi, the community composition can also change strongly. So far, a general understanding of the mechanisms that drive the competitive outcome between fungi under heat stress is still missing. However, this understanding is essential to assess important community functions, such as decomposition or mediation of plant nutrition, which strongly depend on the fungal community composition. Here, we used a partial differential equation (PDE) model simulating two fungal competitors in a two-dimensional space, to mechanistically explain the observed change of fungal competition under heat stress. The model describes mycelial growth, the production and secretion of antifungal compounds, and the synthesis of heat shock proteins of interacting colonies. We found a heat stress-induced lag phase favouring the accumulation of antifungal compounds and the build-up of inhibitor fields. This led to a qualitative change of the competitive outcome, reducing the occurrence of overgrowth by two-thirds. The changes in competitive outcome favoured slower-growing species, which benefit more strongly from the additional time during a stress-induced lag to build up a defence or block territory that would otherwise be quickly claimed by faster competitors. Our work is an important step towards understanding how environmental changes may lead to qualitative changes in competitive outcomes. Our results show the importance of explicitly including species interactions into studies of climate change effects.</p>
Heat stress can change the competitive outcome between fungi – insights from a modelling approach
Open the record for dataset details and reuse information.
Competition for pollination and isolation from mates differentially impact four stages of pollination in a model grassland perennial
Open the record for dataset details and reuse information.
Data from: Herbivory can increase plant fitness via reduced interspecific competition – evidence from models and mesocosms
Open the record for dataset details and reuse information.
Dataset S1: Results of modeled spectral competition between Synechococcus type IV chromatic acclimaters (CA4) and blue and green light-harvesting specialists
Open the record for dataset details and reuse information.
Data from: A new theory of plant-microbe nutrient competition resolves inconsistencies between observations and model predictions
Terrestrial plants assimilate anthropogenic CO2 through photosynthesis and synthesizing new tissues. However, sustaining these processes requires plants to compete with microbes for soil nutrients, which therefore calls for an appropriate understanding and modeling of nutrient competition mechanisms in Earth System Models (ESMs). Here, we survey existing plant-microbe competition theories and their implementations in Earth System Models (ESMs). We found no consensus regarding the representation of nutrient competition and that observational and theoretical support for current implementations are weak. To reconcile this situation, we applied the Equilibrium Chemistry Approximation (ECA) theory to plant-microbe nitrogen competition in a detailed grassland 15N tracer study and found that competition theories in current ESMs fail to capture observed patterns and the ECA prediction simplifies the complex nature of nutrient competition and quantitatively matches the 15N observations. Since plant carbon dynamics are strongly modulated by soil nutrient acquisition, we conclude that (1) predicted nutrient limitation effects on terrestrial carbon accumulation by existing ESMs may be biased and (2) our ECA-based approach may improve predictions by mechanistically representing plant-microbe nutrient competition.
Data from: Incorporating interspecific competition into species-distribution mapping by upward scaling of small-scale model projections to the landscape
There are a number of overarching questions and debate in the scientific community concerning the importance of biotic interactions in species distribution models at large spatial scales. In this paper, we present a framework for revising the potential distribution of tree species native to the Western Ecoregion of Nova Scotia, Canada, by integrating the long-term effects of interspecific competition into an existing abiotic-factor-based definition of potential species distribution (PSD). The PSD model is developed by combining spatially explicit data of individualistic species' response to normalized incident photosynthetically active radiation, soil water content, and growing degree days. A revised PSD model adds biomass output simulated over a 100-year timeframe with a robust forest gap model and scaled up to the landscape using a forestland classification technique. To demonstrate the method, we applied the calculation to the natural range of 16 target tree species as found in 1,240 provincial forest-inventory plots. The revised PSD model, with the long-term effects of interspecific competition accounted for, predicted that eastern hemlock (Tsuga canadensis), American beech (Fagus grandifolia), white birch (Betula papyrifera), red oak (Quercus rubra), sugar maple (Acer saccharum), and trembling aspen (Populus tremuloides) would experience a significant decline in their original distribution compared with balsam fir (Abies balsamea), black spruce (Picea mariana), red spruce (Picea rubens), red maple (Acer rubrum L.), and yellow birch (Betula alleghaniensis). True model accuracy improved from 64.2% with original PSD evaluations to 81.7% with revised PSD. Kappa statistics slightly increased from 0.26 (fair) to 0.41 (moderate) for original and revised PSDs, respectively.
Model Counting Competition 2020: Submitted Solvers
<p>The dataset contains the submissions that have been evaluated in the Model Counting Competition 2020 on the tracks:</p><p>- Track 1 (Model Counting)<br>- Track 2 (Weighted Model Counting)<br>- Track 3 (Projected Model Counting)</p><p><br>Details will be made public in the publication "The Model Counting Competition 2020" by Fichte, Hecher, and Hamiti. Due to numerous names, we omit authors of the solvers from the meta information of this dataset. We refer to the aforementioned report for details.</p><p>We also refer to the competition website: https://mccompetition.org/</p><p> </p><p>Changelist:</p><p>2023-10-21 (v2): We updated wrappers to take the more recent competition format (MC2021 format), which is DIMACS CNF compatible.</p>
Model Counting Competition 2020: Competition Instances
<p>Instances for the Model Counting Competition 2020</p> <p>- Track 1 (Model Counting)<br>- Track 2 (Weighted Model Counting)<br>- Track 3 (Projected Model Counting)</p> <p><br>The even instances (trackX_000.mcc2020_cnf, trackX_000.mcc2020_cnf, ...) were made public for all participants during the testing phase of the solvers, whereas the private instances (trackX_001.mcc2020_cnf, trackX_003.mcc2020_cnf, ...) were used for the final evaluation and disclosed after the submission. For details, we refer to: <a href="https://mccompetition.org/2020/mc_description">https://mccompetition.org/2020/mc_description</a>.<br>Instances originate from various publicly available data sets and submissions made after a call for benchmarks. The full instances from which we selected is available on Zenodo under Model Counting Competition 2020: Full Instance Set.<br>For details, see the MCC2020 report (Fichte, Hecher, Hamiti: The Model Counting Competition 2020).</p> <p>2023-10-22 (v3): Updated instances to the most recent competition format (MC2021).</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.