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.
1,774
datasets available to search
ShareScore release 0.9.0
Dataset results
1,774 results for “accelerators”
Accelerated brain shape evolution is associated with rapid diversification in an avian radiation
<p>Niche expansion is a critical step in the speciation process. Large brains linked to improved cognitive ability<b> </b>may enable species to expand their niches and forage in new ways, thereby promoting speciation. Despite considerable work on ecological divergence in brain size and its importance in speciation, relatively little is known about how brain shape relates to behavioral, ecological, and taxonomic diversity at macroevolutionary scales. This is due, in part, to inherent challenges with quantifying brain shape across many species. Here, we present a novel, semiautomated approach for rapidly phenotyping brain shape using semilandmarks derived from X-ray computed micro-tomography (microCT) scans. We then test its utility by parsing evolutionary trends within a diverse radiation of birds, kingfishers (Aves: Alcedinidae). Multivariate comparative analyses reveal that rates of brain shape evolution, but not beak shape, are positively correlated with lineage diversification rates. Distinct brain shapes are further associated with changes in body size and foraging behavior, suggesting both allometric and ecological constraints on brain shape evolution. These results are in line with the idea of brains acting as a "master regulator" of critical processes governing speciation, such as dispersal, foraging behavior, and dietary niche.</p>
Data from: Accelerate low water corrosion: the microbial sulphur cycle in microcosm
Accelerated low water corrosion is a form of marine steel corrosion caused by bacterial activity. It has a global spread and is potentially responsible for billions of pounds of damage. We have determined in detail both the chemistry of corrosion products and the associated microbiology at a UK site. The corrosion products form a layered structure with iron sulphides at the steel surface and iron oxides and sulphates in contact with water. The iron sulphides are formed by reaction of steel with hydrogen sulphide formed by sulphate reducing bacteria and are oxidised through a series of sulphur oxidation states by sulphide oxidising bacteria, forming acid at all stages and encompassing the whole of the bacterial sulphur cycle. The bacteria involved are endemic in anoxic bed sediment, and the process is a response to the presence of steel as an electron donor, and the generation of anoxic microenvironments within corrosion products.
Famine related mortality in early life and accelerated life histories in 19th Century Belgium
<p>Density-dependent and extrinsic mortality are predicted to accelerate reproductive maturation. The first 5 years of life is a proposed sensitive period for life-history regulation. This study examines the ways in which local mortality during this sensitive period was related to subsequent marriage timing in 19<sup>th</sup> Century Belgium (N women= 11,892; N men=14,140). Local mortality during the sensitive period was inversely associated with age at first marriage for men and women controlling for literacy, occupational status, population growth, and migration. Cox regression indicated decreased time to marriage for women (HR=1.661, 95% CI: 1.542-1.789) and men (HR=1.327, 95%CI: 1.238-1.422) from high mortality municipalities. Rising population growth rates were associated with earlier marriage for men. Migration in general was associated with later marriage for men and women. Consistent with life history predictions, harsh ecological conditions such as famine coincided with earlier marriage.</p>
WarpX Accelerated Nodes Parallel Computing Paper
<p>This dataset contains the inputs, outputs, job submission scripts, and executables<br> used to create the Figures in "Porting WarpX to GPU-accelerated platforms" by A. Myers<br> et. al, submitted to Parallel Computing as part of the ECP Special Issue on Transitioning<br> to Accelerated nodes.</p> <p>These results were obtained using the October, 2020 release tags of WarpX and AMReX,<br> available on Github here:</p> <p> https://github.com/ECP-WarpX/WarpX</p> <p>and here:</p> <p> https://github.com/AMReX-Codes/amrex</p> <p>The following module files were loaded on Summit:</p> <p> 1) hsi/5.0.2.p5 2) xalt/1.2.0 3) lsf-tools/2.0 4) darshan-runtime/3.1.7<br> 5) DefApps 6) cuda/10.1.243 7) gcc/6.4.0 8) spectrum-mpi/10.3.1.2-20200121</p> <p>To use nsight-compute for the roofline plots, we also loaded:</p> <p> nsight-compute/2020.1.2</p> <p>Manifest:</p> <p>BinScan: contains material used to make Figure 1. To generate the figure, use the<br> Jupyter notebook called "bin_size.ipynb".</p> <p>StrongScaling: contains material used to make Figure 5. To generate the figure, use the<br> Jupyter notebook called "strong_scaling.ipynb".</p> <p>WeakScalingCPU: contains material used to make Figure 4. To generate the figure, use the<br> Jupyter notebook called "weak_scaling.ipynb".</p> <p>WeakScalingGPU: contains material used to make Figure 5. To generate the figure, use the<br> Jupyter notebook called "weak_scaling.ipynb".</p> <p>Roofline: contains material used to make the roofline plots (Figures 2 and 3). This<br> includes output generated using nsight-compute with WarpX and python scripts for<br> processing and plotting these output files. These scripts and methodology originally<br> come from Charlene Yang at NERSC. The file "script.sh" was used to generate the<br> profiler output</p>
Pathway simulation runs for manuscript "To and beyond the 2030 Agenda: systems change for accelerating sustainability progress"
<p>Files contains the simulation runs generated by the source code from 'https://github.com/enayatmoallemi/Moallemi_et_al_SDG_SSP_Assessment'.</p> <p>Files '<a href="https://zenodo.org/api/files/340806c1-e040-4036-bcbf-09d44c7f6f29/SDG_experiments_sc1000.tar.gz">SDG_experiments_sc250.tar.gz</a>' to '<a href="https://zenodo.org/api/files/340806c1-e040-4036-bcbf-09d44c7f6f29/SDG_experiments_sc1000.tar.gz">SDG_experiments_sc5000.tar.gz</a> include sensitivity analysis experiments (for different sample sizes from 250 to 5000) .</p> <p><br> Files '<a href="https://zenodo.org/api/files/340806c1-e040-4036-bcbf-09d44c7f6f29/SDG_SSP5-85_exploration_sc10000.tar.gz">SDG_SSP1-26_exploration_sc10000.tar.gz</a>' to '<a href="https://zenodo.org/api/files/340806c1-e040-4036-bcbf-09d44c7f6f29/SDG_SSP5-85_exploration_sc10000.tar.gz">SDG_SSP5-85_exploration_sc10000.tar.gz</a>' include exploratory analysis experiments of the five SSP-RCP combinations over time.</p>
Acceleration time histories and road elevation profiles
<p><span><span><span><span><span><span><span><span><span><span><span><span><span>Low-cost smartphone-based sensing approaches have recently emerged as an alternative to the traditional and oftentimes expensive or laborious road surface monitoring technologies. </span></span>We develop an approach, resting on a rigorously derived mechanistic and stochastic model in spectral domain, that relates the vertical acceleration signal measured by a smartphone positioned in a moving car to road surface roughness metrics. <span><span>We illustrate that the inferred roughness metrics from the acceleration data sets, acquired with different smartphones and vehicle types, are in good agreement with the ones obtained from the expensive laser measurements.</span></span> The data set we used for our analysis is hence comprised of (I) acceleration signals recorded by smartphones placed at different locations of the vehicle, and (II) laser-measured road longitudinal profiles. <span><span>The validation analysis is performed for two test tracks: </span></span> (1) 13.8 km of a thoroughfare with a dominating inner-city component with poor ride quality, and (2) 11.6 km of a highway with good ride quality. The coordinates (latitude and longitude) of the two test tracks are also available in the provided data set.</span></span></span></span></span></span></span></span></span></span></span></p>
Data from: Accelerated degradation of polyetheretherketone and its composites in the deep sea
The performance of polymer composites in seawater under high hydrostatic pressure (typically few tens of MPa), for simulating exposures at great depths in seas and oceans, has been little studied. In this paper, PEEK and its composites reinforced by carbon fibers and glass fibers were prepared, respectively. And the seawater environments with different seawater hydrostatic pressure ranging from normal pressure to 40 MPa was simulated with special equipment, in which the seawater absorption and wear behaviors of PEEK and PEEK-based composites were examined in situ. The effects of seawater hydrostatic pressure on the mechanical properties, wear resistance and microstructure of PEEK and its composites were focused on. The results showed that seawater absorption of PEEK and its composites were greatly accelerated by increased hydrostatic pressure in the deep sea. And affected by seawater absorption, both for neat PEEK and composites, the degradation on mechanical properties, wear resistance and crystallinity were induced, the degree of which were increasingly serious with the hydrostatic pressure of seawater environment increasing. And there existed a good correlation in an identical form of exponential function between the wear rate and the seawater hydrostatic pressure. Moreover, the corresponding mechanisms of the effects of deep-sea hydrostatic pressure were also discussed.
Data from: Cell migration through three-dimensional confining pores: speed accelerations by deformation and recoil of the nucleus
Directional cell migration in dense three-dimensional (3D) environments critically depends upon shape adaptation and is impeded depending on the size and rigidity of the nucleus. Accordingly, the nucleus is primarily understood as a physical obstacle, however, its pro-migratory functions by step-wise deformation and reshaping remain unclear. Using atomic force spectroscopy, time-lapse fluorescence microscopy and shape change analysis tools, we determined nuclear size, deformability, morphology and shape change of HT1080 fibrosarcoma cells expressing the Fucci cell cycle indicator or being pre-treated with chromatin-decondensating agent TSA. We show oscillating peak accelerations during migration through 3D collagen matrices and microdevices that occur during shape reversion of deformed nuclei (recoil), and increase with confinement. During G1 cell cycle phase, nucleus stiffness was increased and yielded further increased speed fluctuations together with sustained cell migration rates in confinement as compared to interphase populations, or to periods of intrinsic nuclear softening in the S/G2 cell cycle phase. Likewise, nuclear softening by pharmacological chromatin decondensation or after lamin A/C depletion reduced peak oscillations in confinement. In conclusion, deformation and recoil of the stiff nucleus contributes to saltatory locomotion in dense tissues.
Data from: Evolutionary dynamics of Rh2 opsins in birds demonstrate an episode of accelerated evolution in the New World warblers (Setophaga)
Low rates of sequence evolution associated with purifying selection can be interrupted by episodic changes in selective regimes. Visual pigments are a unique system in which we can investigate the functional consequences of genetic changes, therefore connecting genotype to phenotype in the context of natural and sexual selection pressures. We study the RH2 and RH1 visual pigments (opsins) across 22 bird species belonging to two ecologically convergent clades, the New World warblers (Parulidae) and Old World warblers (Phylloscopidae) and evaluate rates of evolution in these clades along with data from 21 additional species. We demonstrate generally slow evolution of these opsins: both Rh1 and Rh2 are highly conserved across Old World and New World warblers. However, Rh2 underwent a burst of evolution within the New World genus Setophaga, where it accumulated substitutions at 6 amino acid sites across the species we studied. Evolutionary analyses revealed a significant increase in dN/dS in Setophaga, implying relatively strong selective pressures to overcome long-standing purifying selection. We studied the effects of each substitution on spectral tuning and found they do not cause large spectral shifts. Thus, substitutions may reflect other aspects of opsin function, such as those affecting photosensitivity and/or dark–light adaptation. Although it is unclear what these alterations mean for colour perception, we suggest that rapid evolution is linked to sexual selection, given the exceptional plumage colour diversification in Setophaga.
Data from: Accelerated rate of molecular evolution for vittarioid ferns is strong and not due to selection
Molecular evolutionary rate heterogeneity—the violation of a molecular clock—is a prominent feature of many phylogenetic datasets. It has particular importance to systematists not only because of its biological implications, but also for its practical effects on our ability to infer and date evolutionary events. Here we show, using both maximum likelihood and Bayesian approaches, that a remarkably strong increase in substitution rate in the vittarioid ferns is consistent across the nuclear and plastid genomes. Contrary to some expectations, this rate increase is not due to selective forces; the vittarioids bear no signature of the change in the relative strengths of selection and drift that one would expect if the rate increase was caused by altered fixation rates. Instead, the substitution rate increase appears to stem from an elevated supply of mutations, perhaps limited to the vittarioid ancestral branch. This generalized rate increase is accompanied by extensive fine-scale heterogeneity in rates across loci, genomes, and taxa. Our analyses demonstrate the power and flexibility of trait-free investigations of rate heterogeneity within a model selection framework, emphasize the importance of explicit tests for signatures of selection prior to invoking selection-related or demography-based explanations for patterns of rate variation, and illustrate some unexpected nuances in the behavior of relaxed clock methods for modeling rate heterogeneity, with implications for our ability to confidently date divergence events. In addition, our data provide strong support for the monophylly of Adiantum, and for the position of Calciphilopteris in the cheilanthoid ferns, two relationships for which convincing support was previously lacking.
Data from: Dioecy does not consistently accelerate or slow lineage diversification across multiple genera of angiosperms
Dioecy, the sexual system in which male and female organs are found in separate individuals, allows greater specialization for sex-specific functions and can be advantageous under various ecological and environmental conditions. However, dioecy is rare among flowering plants. Previous studies identified contradictory trends regarding the relative diversification rates of dioecious lineages vs their nondioecious counterparts, depending on the methods and data used. We gathered detailed species-level data for dozens of genera that contain both dioecious and nondioecious species. We then applied a probabilistic approach that accounts for differential speciation, extinction, and transition rates between states to examine whether there is an association between dioecy and lineage diversification. We found a bimodal distribution, whereby dioecious lineages exhibited higher diversification in certain genera but lower diversification in others. Additional analyses did not uncover an ecological or life history trait that could explain a context-dependent effect of dioecy on diversification. Furthermore, in-depth simulations of neutral characters demonstrated that such bimodality is also found when simulating neutral characters across the observed trees. Our analyses suggest that – at least for these genera with the currently available data – dioecy neither consistently places a strong brake on diversification nor is a strong driver.
Data from: Light accelerates plant responses to warming
Competition for light has profound effects on plant performance in virtually all terrestrial ecosystems. Nowhere is this more evident than in forests, where trees create environmental heterogeneity that shapes the dynamics of forest-floor communities1,2,3. Observational evidence suggests that biotic responses to both anthropogenic global warming and nitrogen pollution may be attenuated by the shading effects of trees and shrubs4,5,6,7,8,9. Here we show experimentally that tree shade is slowing down changes in below-canopy communities due to warming. We manipulated levels of photosynthetically active radiation, temperature and nitrogen, alone and in combination, in a temperate forest understorey over a 3-year period, and monitored the composition of the understorey community. Light addition, but not nitrogen enrichment, accelerated directional plant community responses to warming, increasing the dominance of warmth-preferring taxa over cold-tolerant plants (a process described as thermophilization6,10,11,12). Tall, competitive plants took greatest advantage of the combination of elevated temperature and light. Warming of the forest floor did not result in strong community thermophilization unless light was also increased. Our findings suggest that the maintenance of locally closed canopy conditions could reduce, at least temporarily, warming-induced changes in forest floor plant communities.
Data from: Modeling site heterogeneity with posterior mean site frequency profiles accelerates accurate phylogenomic estimation
Proteins have distinct structural and functional constraints at different sites that lead to site-specific preferences for particular amino acid residues as the sequences evolve. Heterogeneity in the amino acid substitution process between sites is not modeled by commonly used empirical amino acid exchange matrices. Such model misspecification can lead to artefacts in phylogenetic estimation such as long-branch attraction. Although sophisticated site-heterogeneous mixture models have been developed to address this problem in both Bayesian and maximum likelihood (ML) frameworks, their formidable computational time and memory usage severely limits their use in large phylogenomic analyses. Here we propose a posterior mean site frequency (PMSF) method as a rapid and efficient approximation to full empirical profile mixture models for ML analysis. The PMSF approach assigns a conditional mean amino acid frequency profile to each site calculated based on a mixture model fitted to the data using a preliminary guide tree. These PMSF profiles can then be used for in-depth tree-searching in place of the full mixture model. Compared with widely used empirical mixture models with k classes, our implementation of PMSF in IQ-TREE (http://www.iqtree.org) speeds up the computation by approximately k /1.5-fold and requires a small fraction of the RAM. Furthermore, this speedup allows, for the first time, full nonparametric bootstrap analyses to be conducted under complex site-heterogeneous models on large concatenated data matrices. Our simulations and empirical data analyses demonstrate that PMSF can effectively ameliorate long-branch attraction artefacts. In some empirical and simulation settings PMSF provided more accurate estimates of phylogenies than the mixture models from which they derive.
Raw acceleration data with behaviour classes from two captive foxes
<p></p> <ol> <li> <p><b>Remotely tracking distinct behaviours of animals using acceleration data and machine learning has been carried out successfully in several species in captive settings. In order to study the ecology of animals in natural habitats, such behaviour classification models need to be transferred to wild individuals. However, at present the development of those models usually requires direct observation of the target animals.</b></p> </li> <li> <p><b>The goal of this study was to infer behaviour of wild, free roaming animals from acceleration data by training behaviour classification models on captive individuals, without the necessity to observe their wild conspecifics. We further sought to develop methods to validate the credibility of the resulting behaviour extrapolations.</b></p> </li> <li> <p><b>We trained two machine learning algorithms proposed by the literature, Random Forest (RF) and Support Vector Machine (SVM), on data from captive red foxes (Vulpes vulpes) and later applied them to data from wild foxes. We also tested a new advance for behaviour classification, by applying a moving window to an Artificial Neural Network (ANN). Finally, we investigated four strategies to validate our classification output.</b></p> </li> <li> <p><b>While all three machine learning algorithms performed well under training conditions (Kappa values: RF (0.82) , SVM (0.78), ANN (0.85)), the established methods, RF and SVM, failed in classifying distinct behaviours when transferred from captive to wild foxes. Behaviour classification with the ANN and a moving window, in contrast, inferred distinct behaviours and showed consistent results for most individuals. </b></p> </li> <li> <p><b>Our approach is a substantial improvement over the methods previously proposed in the literature as it generated plausible results for wild fox behaviour. We were able to infer the behaviour of wild animals that have never been observed in the wild and to further illustrate the outputs credibility. This framework is not restricted to foxes but can be applied to infer the behaviour of many other species and thus empowers new advances in behavioural ecology.</b></p> </li> </ol>
Data from: Multiplicity of infection does not accelerate infectivity evolution of viral parasites in laboratory microcosms
Coinfection with multiple parasite genotypes (multiplicity of infection) creates within-host competition and opportunities for parasite recombination, and is therefore predicted to be important for both parasite and host evolution. We tested for a difference in the infectivity of viral parasites (lytic phage Φ2) and resistance of their bacterial hosts (Pseudomonas fluorescens SBW25) under both high and low multiplicity of infection (MOI) during coevolution in laboratory microcosms. Results show that MOI has no effect on infectivity and resistance evolution during coevolution over approximately 80 generations of host growth, and this is true when the experiment is initiated with wild-type viruses and hosts, or with viruses and hosts that have already been coevolving for ~330 generations. This suggests that MOI does not have a net effect of accelerating parasite adaptation to hosts through recombination, or retarding adaptation to hosts through between-parasite conflict in this system.
Data from: Here's to the losers: evolvable residents accelerate the evolution of high fitness invaders
Recent work has shown that evolvability plays a key role in determining the long-term population dynamics of asexual clones. However, simple considerations suggest that the evolvability of a focal lineage of bacteria should also be influenced by the evolvability of its competitors. First, evolvable competitors should accelerate evolution by impeding the fixation of the focal lineage through a clonal interference–like mechanism. Second, evolvable competitors should increase the strength of selection by rapidly degrading the environment, increasing selection for adaptive mutations. Here we tested these ideas by allowing a high-fitness clone of the bacterium Pseudomonas aeruginosa to invade populations of two low-fitness resident clones that differ in their evolvability. Both competition from mutations in the resident lineage and environmental degradation lead to faster adaptation in the invader through fixing single mutations with a greater fitness advantage. The results suggest that competition from mutations in both the successful invader and the unsuccessful resident shapes the adaptive trajectory of the invader through both direct competition and indirect environmental effects. Therefore, to predict evolutionary outcomes, it will be necessary to consider the evolvability of all members of the community and the effects of adaptation on the quality of the environment. This is particularly relevant to mixed microbial communities where lineages differ in their adaptive potential, a common feature of chronic infections.
Data from: Behavioral classification of low frequency acceleration and temperature data from a free ranging small mammal
1. The miniaturization and affordability of new technology is driving a biologging revolution in wildlife ecology with use of animal-borne data logging devices. Among many new biologging technologies, accelerometers are emerging as key tools for continuously recording animal behavior. Yet a critical, but under-acknowledged consideration in biologging is the trade-off between sampling rate and sampling duration, created by battery- (or memory-) related sampling constraints. This is especially acute among small animals, causing most researchers to sample at high rates for very limited durations.Here, we show that high accuracy in behavioral classification is achievable when pairing low frequency acceleration recordings with temperature. 2. We conducted 84 hours of direct behavioral observations on 67 free-ranging red squirrels (200-300 g) that were fitted with accelerometers (2 g) recording tri-axial acceleration and temperature at 1 Hz. We then used a random forest algorithm and a manually-created decision tree, with variable sampling window lengths, to associate observed behavior with logger recorded acceleration and temperature. Finally, we assessed the accuracy of these different classifications using an additional 60 hours of behavioral observations, not used in the initial classification. 3. The accuracy of the manually-created decision tree classification using observational data varied from 70.6% to 91.6% depending on the complexity of the tree, with increasing accuracy as complexity decreased. Short duration behavior like running had lower accuracy than long duration behavior like feeding. The random forest algorithm offered similarly high overall accuracy, but the manual decision tree afforded the flexibility to create a hierarchical tree, and to adjust sampling window length for behavioral states with varying durations. 4. Low frequency biologging of acceleration and temperature allows accurate behavioral classification of small animals over multi-month sampling durations. Nevertheless, low sampling rates impose several important limitations, especially related to assessing the classification accuracy of short duration behavior.
Data from: Accelerating adaptive inverse distance weighting interpolation algorithm on a graphics processing unit
This paper focuses on designing and implementing parallel adaptive inverse distance weighting (AIDW) interpolation algorithms by using the graphics processing unit (GPU). The AIDW is an improved version of the standard IDW, which can adaptively determine the power parameter according to the data points' spatial distribution pattern and achieve more accurate predictions than those predicted by IDW. In this paper, we first present two versions of the GPU-accelerated AIDW, i.e. the naive version without profiting from the shared memory and the tiled version taking advantage of the shared memory. We also implement the naive version and the tiled version using two data layouts, structure of arrays and array of aligned structures, on both single and double precision. We then evaluate the performance of parallel AIDW by comparing it with its corresponding serial algorithm on three different machines equipped with the GPUs GT730M, M5000 and K40c. The experimental results indicate that: (i) there is no significant difference in the computational efficiency when different data layouts are employed; (ii) the tiled version is always slightly faster than the naive version; and (iii) on single precision the achieved speed-up can be up to 763 (on the GPU M5000), while on double precision the obtained highest speed-up is 197 (on the GPU K40c). To benefit the community, all source code and testing data related to the presented parallel AIDW algorithm are publicly available.
Data from: Accelerated redevelopment of vocal skills is preceded by lasting reorganization of the song motor circuitry
Complex motor skills take considerable time and practice to learn. Without continued practice the level of skill performance quickly degrades, posing a problem for the timely utilization of skilled motor behaviors. Here we quantified the recurring development of vocal motor skills and the accompanying changes in synaptic connectivity in the brain of a songbird, while manipulating skill performance by consecutively administrating and withdrawing testosterone. We demonstrate that a songbird with prior singing experience can significantly accelerate the re-acquisition of vocal performance. We further demonstrate that an increase in vocal performance is accompanied by a pronounced synaptic pruning in the forebrain vocal motor area HVC, a reduction that is not reversed when birds stop singing. These results provide evidence that lasting synaptic changes in the motor circuitry are associated with the savings of motor skills, enabling a rapid recovery of motor performance under environmental time constraints.
Data from: Facilitation among plants can accelerate density-dependent mortality and steepen self-thinning lines in stressful environments
The speed and slope of plant self-thinning are all affected by plant-plant interactions across environmental gradients. Possible mechanisms driving the self-thinning dynamics include the relative strength of root vs. shoot competition, and the interplay between competition and facilitation. Although these mechanisms often act in concert, their relative importance has not yet been fully explored. We used both a one-layer and a two-layer zone-of-influence (ZOI) model to examine how competition and facilitation drive self-thinning across stress gradients. As a development of the traditional ZOI model, the two-layer version explicitly models shoot and root growth and neighbor interactions, and thus the overall size-symmetry of competition is regulated by the relative strength of root vs. shoot competition. One-layer model simulations revealed that increasingly asymmetric competition accelerated thinning, and steepened (slope ranged from about -1 to -4/3) and lowered self-thinning lines. Stress slowed down density-dependent mortality considerably when competition was not completely symmetric. Stress significantly decreased the self-thinning intercept, while facilitation simply counteracted stress effects. Both stress and facilitation showed little effect on the slope. In the two-layer model, both stress and facilitation affected mortality in the same way as in the one-layer version when competition was not completely symmetric. Different from the one-layer model, the two-layer version showed that the effects of stress and facilitation on the self-thinning slope were mediated by the asymmetry of competition. As stress increased, the overall asymmetry of competition shifted from asymmetric to symmetric due to increased relative strength of root competition. High stress thus dramatically flattened self-thinning lines, whereas the inclusion of facilitation counteracted stress and led to steeper self-thinning lines. Our two-layer model is based on the current knowledge of plant-plant interactions, and better represents ecological realities. It can help elaborate experiments for testing the role of competition and facilitation in driving plant population dynamics.
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.