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855 results for “model system”
Trained Surface Layer Models and Metrics for "Evidential Deep Learning: Enhancing Predictive Uncertainty Estimation for Earth System Science Applications"
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Simulation output of the reference setup in "The comparative role of physical system processes in Hudson Strait ice stream cycling: a comprehensive model-based test of Heinrich event hypotheses"
<p>This supplementary material for "The comparative role of physical system processes in Hudson Strait ice stream cycling: a comprehensive model-based test of Heinrich event hypotheses" contains the simulation output of the 20 reference runs. Additional data is available upon request from the corresponding author.</p>
Active Regions of Secondary Ice Production in a Modeled Tropical Mesoscale Convective System
<p>The animations of the modeled tropical mesoscale convective system (MCS). The red regions indicate the cloud regions with the secondary ice production rate dNice/dt >10<sup>5</sup> m<sup>-3</sup> s<sup>-1</sup>. The numerical simulation of the MCS was performed with the help of the Environment and Climate Change Canada's (ECCC) Global Environmental Multiscale (GEM) model.</p> <p>For details see Korolev, A., Z. Qu, J. Milbrandt, I. Heckman, M. Cholette, M. Wolde, C. Nguyen, G. M. McFarquhar, P. Lawson, and A. M. Fridlind: High ice water content in tropical mesoscale convective systems (a conceptual model). Atmos. Chem. Phys., 2024.</p>
Reproduction package for the paper "BH-BH mergers with & without EM counterpart: A model for stable tertiary mass transfer in hierarchical triple systems"
<p>This is a reproduction package for the paper "BH-BH mergers with & without EM counterpart: A model for stable tertiary mass transfer in hierarchical triple systems" by Kummer et al. (2024). It aims to provide the most important data products and reproduce the Figures of the paper.</p> <p> </p>
Data from: Boechera, a model system for ecological genomics
The selection and development of a study system for evolutionary and ecological functional genomics (EEFG) depends on a variety of factors. Here we present the genus Boechera as an exemplary system with which to address ecological and evolutionary questions. Our focus on Boechera is based on several characteristics: 1) native populations in undisturbed habitats where current environments reflect historical conditions over several thousand years; 2) functional genomics benefitting from its close relationship to Arabidopsis thaliana; 3) inbreeding tolerance enabling development of recombinant inbred lines, near-isogenic lines, and positional cloning; 4) interspecific crosses permitting mapping for genetic analysis of speciation; 5) apomixis (asexual reproduction by seeds) in a genetically tractable diploid; and 6) broad geographic distribution in North America, permitting ecological genetics for a large research community. These characteristics, along with the current sequencing of three Boechera species by the Joint Genome Institute, position Boechera as a rapidly advancing system for EEFG studies.
Modeling System Behaviour from Log Analysis Using Meta-Heuristic Search
<p>Dataset used to perform the experiments in our paper on <em>Modeling System Behaviour from Log Analysis Using Meta-Heuristic Search </em>(BSc. thesis, 2021).</p>
Inferring Log-Based Behavioural System Models using Markov Chains
<p>The datasets we used for the bachelor thesis <em><strong>Inferring Log-Based Behavioural System Models using Markov Chains</strong></em>, consisting of log traces of the XRP Ledger Conensus Protocol split into 5 different datasets.</p>
Data from: How biological attention mechanisms improve task performance in a large-scale visual system model
How does attentional modulation of neural activity enhance performance? Here we use a deep convolutional neural network as a large-scale model of the visual system to address this question. We model the feature similarity gain model of attention, in which attentional modulation is applied according to neural stimulus tuning. Using a variety of visual tasks, we show that neural modulations of the kind and magnitude observed experimentally lead to performance changes of the kind and magnitude observed experimentally. We find that, at earlier layers, attention applied according to tuning does not successfully propagate through the network, and has a weaker impact on performance than attention applied according to values computed for optimally modulating higher areas. This raises the question of whether biological attention might be applied at least in part to optimize function rather than strictly according to tuning. We suggest a simple experiment to distinguish these alternatives.
Viet Nam Technology catalogue for power generation and storage. Input for power system modelling
<p>The first Viet Nam Technology Catalogue was published in 2019. This new version includes all the technologies from the 2019 version that have been reviewed and updated where necessary. A main focus of the update has been to add new subcategories of technologies (roof-top solar PV, floating offshore wind, low wind speed turbines, improved flexibility of coal fired plants and pollution prevention technologies for coal power) as well as completely new technology descriptions and data sheets (tidal power, wave power, carbon capture and storage, coal CFB boilers and industrial cogeneration).</p> <p>This publication is developed under the Danish-Vietnamese Energy Partnership.</p> <p>The technologies described in this catalogue cover both very mature technologies and emerging technologies, which<br> are expected to improve significantly over the coming decades, both with respect to performance and cost. This<br> implies that the cost and performance of some technologies may be estimated with a rather high level of certainty<br> whereas, in the case of other technologies, both cost and performance today and in the future is associated with a<br> high level of uncertainty. All technologies have been grouped within one of four categories of technological<br> development described in the section on research and development indicating their technological progress, their<br> future development perspectives and the uncertainty related to the projection of cost and performance data.</p> <p>The technologies in the catalogue include the power production unit and the connection to the grid. This means<br> that the boundary for both cost and performance data are the generation assets plus the infrastructure required to<br> deliver the energy to the main grid. For electricity, this is the nearest substation of the transmission grid. This<br> implies that a MW of electricity represents the net electricity delivered, i.e. the gross generation minus the auxiliary<br> electricity consumed at the plant. Hence, efficiencies are also net efficiencies.</p> <p>The text and data have been edited based on Vietnamese cases to represent local conditions. For the mid- and long-<br> term future (2030 and 2050) international references have been relied upon for most technologies since Vietnamese<br> data is expected to converge to these international values. In the short run differences may exist, especially for the<br> emerging technologies. Differences in the short run can be caused by e.g. current rules and regulations and level of<br> market maturity of the technology. Differences in both the short and long run can be caused by local physical<br> conditions, e.g. seabed material and offshore conditions can affect costs of offshore wind farms and wind speed can<br> affect the dimensioning of rotor vs. generator which can influence the cost, or domestic coal quality can affect<br> efficiency and variable cost of coal-fired plants as well.</p> <p>Land use is assessed but the cost of land is not included in the total cost assessment since this depends on local<br> conditions.</p>
Two new hybrid populations expand the swordtail hybridization model system
<p>Natural hybridization events provide unique windows into the barriers that keep species apart as well as the consequences of their breakdown. Here we characterize hybrid populations formed between the northern swordtail fish Xiphophorus cortezi and X. birchmanni from collection sites on two rivers. We use simulations and new genetic reference panels to develop sensitive and accurate local ancestry calling in this novel system. Strikingly, we find that hybrid populations on both rivers consist of two genetically distinct subpopulations: a cluster of pure X. birchmanni individuals and one of phenotypically intermediate hybrids that derive ~85-90% of their genome from X. cortezi. Simulations suggest that initial hybridization occurred ~150 generations ago at both sites, with little evidence for contemporary gene flow between subpopulations. This population structure is consistent with strong assortative mating between individuals of similar ancestry. The patterns of population structure uncovered here mirror those seen in hybridization between X. birchmanni and its sister species, X. malinche, indicating an important role for assortative mating in the evolution of hybrid populations. Future comparisons will provide a window into the shared mechanisms driving the outcomes of hybridization not only among independent hybridization events between the same species but also across distinct species pairs.</p>
The moisture plasticizing effect on enzyme-catalyzed reactions in model and real systems in view of legume ageing and their hard to cook development
<p>Data used for the figures in the article</p>
FIGURE 1. A. Phylogenetic relationships derived from 18 in Systematic ambiguity in the well-established model system insect Scathophaga stercoraria (Diptera: Scathophagidae): sister species S. soror revealed by molecular evidence
FIGURE 1. A. Phylogenetic relationships derived from 18'002 Bayesian trees based on combined COI, 12S rDNA, 16S rDNA, and ITS2 sequences as established between 21 Scathophagidae species. The tree is a 50% majority rule consensus tree; values of posterior probabilities over 50% are indicated above branches (branches with probabilities less than 50% are collapsed). Scathophaga soror is evidenced in bold. B. Excerpt from a gene tree (Neighbour Joining, Kimura 2 parameters, COI gene) illustrating the sister group relationship between the monophyletic S. stercoraria and S. soror clades. Bootstrap values (for 1000 pseudo-replicates) are indicated above branches.
Fig. 2 in Insights Into the Establishment of Introduced Species Using Coccinellines (Coleoptera: Coccinellidae) as a Model System
Fig. 2. Summary of factors to assess within the proposed categorization to increase predictability of establishment success.
Fig. 1 in Insights Into the Establishment of Introduced Species Using Coccinellines (Coleoptera: Coccinellidae) as a Model System
Fig. 1. Categorization of factors to assess establishment success of introduced species. Invasibility is defined as the characteristics of a habitat that makes it vulnerable to be invaded by introduced species. Invasiveness is defined as those characteristics or traits of introduced species that enable them to establish in a new area. Stochastic events are events that may or may not change invasibility and invasiveness affecting the establishment process. We predict the rate of successful establishment will increase at the mid-point where all three categories overlap. However, in the absence of stochastic events that would influence the establishment process, we may predict the success rate of establishment by assessing only the species' match in invasiveness with invasibility of the recipient ecosystem.
FIGURES 8–9 in A sketch-based system for modeling 3D objects: Applications to taxonomy
FIGURES 8–9. Examples of usages of our system. Fig. 8. Sketching, visualization and reconstruction of an open contour. (a) Haken's gordian knot (adapted from Fish & Lisitsa 2014); (b) our sketch traced over the original drawing (adapted from Burton
FIGURE 14 in A sketch-based system for modeling 3D objects: Applications to taxonomy
FIGURE 14. Male terminalia of Chrysopilus (Diptera, Rhagionidae): (a) Epandrium, dorsal view, of C. phaeopterus (from Santos & Amorim 2007); (b) our sketch traced over the original illustration; and (c) The 3D resulting model.
FIGURE 1 in A sketch-based system for modeling 3D objects: Applications to taxonomy
FIGURE 1. Categories supported as inputs for the reconstruction of a chromosome. Input strokes belong to three categories: (a) open contours and their respective 3D reconstruction; (b) closed contours and 3D surface reconstruction; (c) stripes sketched using our system and interactions and their 3D reconstruction; and (d) final 3D model combining the three categories.
FIGURE 16 in A sketch-based system for modeling 3D objects: Applications to taxonomy
FIGURE 16. Head of Austroleptis papaveroi (Diptera, Austroleptidae): (a) photograph using a microscope (from Fachin et al. 2018); (b) our closed contour selection based on the photograph; (c) colored layers; and (d)–(f) resulting 3D model.
FIGURES 2–7 in A sketch-based system for modeling 3D objects: Applications to taxonomy
FIGURES 2–7. Creation, visual enhancement and 3D reconstruction. Fig. 2. Strokes: (a) raw stroke; (b) default smoothing applied three times; (c) smoothing applied nine times; (d) oversketching through drawing a new curve near the original one; and (e) replacing the current sketch with the new curve. Fig. 3. Selection operation: (a) cross selection (green) for a closed contour; (b) brush selection (red) by painting the segments belonging to the same contour. Fig. 4. Reconstruction process of a 3D stripe: (a) lines drawn with twist annotation using inverted colors for stripe sides; (b) automatic creation of stripe twists; (c) 3D parametric reconstruction of the stripe. Fig. 5. Sketch inference: (a) triangles created combining points; (b) "headlight beam" effect created by painting triangles according to their angle. Fig. 6. Different depth effects: (a) contours using gray-scale to depict different layers; (b) halo effect; (c) hatching effect; (d) layer coloring from blue to yellow. Fig. 7. Smoothing operations of an open contour. (a) one time; (b) ten times; (c) fifty times; (d) one hundred times; and (e) two hundred times.
FIGURE 15 in A sketch-based system for modeling 3D objects: Applications to taxonomy
FIGURE 15. Male terminalia of Chrysopilus (Diptera, Rhagionidae): (a) hypopygium, ventral view, of C. balbii (from Santos & Amorim 2017); (b)–(c) our sketch traced over the original illustration; and (d)–(f) The resulting 3D model.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.