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11,506 results for “Dynamics”
Ocean Dynamics in the DOE Energy, Exascale, Earth System Model (E3SM)
<p>Climate research at the U.S. Department of Energy (DOE) includes the development of ocean, sea-ice, atmosphere, land-vegetation and land-ice models. The ability to run high-resolution global simulations efficiently on the world’s largest computers is a priority for the DOE. This movie shows simulations from the variable-resolution ocean model, the Model for Prediction Across Scales (MPAS-Ocean), which is developed at Los Alamos National Laboratory. MPAS-Ocean is a component of the DOE’s newly released Energy, Exascale, Earth System Model (E3SM). Applications of E3SM include the simulation of 20th-century and future climate scenarios, as well as special configurations where model resolution is enhanced in regions of particular interest, like coastal areas, the Arctic, or below Antarctic ice shelves.</p> <p>Website: <a href="https://e3sm.org">https://e3sm.org</a>. </p>
Supplementary material 1 from: Balestrini R, Delconte C, Buffagni A, Fumagalli A, Freppaz M, Calvo E, Buzzetti I (2019) Dynamic of nitrogen and dissolved organic carbon in an alpine forested catchment: atmospheric deposition and soil solution trends. In: Mazzocchi MG, Capotondi L, Freppaz M, Lugliè A, Campanaro A (Eds) Italian Long-Term Ecological Research for understanding ecosystem diversity and functioning. Case studies from aquatic, terrestrial and transitional domains. Nature Conservation 34: 41-66. https://doi.org/10.3897/natureconservation.34.30738
: Data type: statistical data
Training Data From : "Squishing skyrmions: symmetry guided dynamic transformation of polar topologies under compression"
<ul> <li>Zip file contains folder of training data in XSF Format </li> <li>.nn files are neural network binary parameter files</li> <li>.nn_asc files neural network parameter text files </li> </ul> <p>.nn files were generated and can be read by the AENET software (http://ann.atomistic.net/) </p> <p> </p>
SolSysELTs2022 Part II: Revealing Venus' dynamics with the ELT
<p>Invited talk: presentation and video recording</p>
A Dynamic MaxSAT-based Approach to Directed Feedback Vertex Sets - Results
<p>The Results for the paper of the same name, published at ALENEX 2023.</p>
Linking population dynamics models with empirically derived models through phytoplankton primary production
<p>There are alternative methods for estimation of phytoplankton primary production (PP) that are fundamentally different in the calculation approach. The process-oriented PP model is a mechanistic, empirically derived method based on the photosynthesis–light relationships. The population dynamics-based PP calculation, which is a synthetic method, provides a production estimate based on population dynamics of phytoplankton. These alternative methods were here compared with regard to production estimates and linked to enhance the performance of the existing models of population dynamics applied to a wide variety of lakes worldwide in terms of morphometry, nutrient status, and light environments. Estimates of primary production were shown to be sensitive to changes in phytoplankton sinking and zooplankton grazing rates in both methods. Production estimates in the process-oriented PP model were also sensitive to light-associated parameters such as day length. Although the production estimated from the population dynamics-based PP calculation tended to be lower than that from the process-oriented PP model irrespective of lake morphometry, production estimates calculated from both methods with standard parameterization were comparable when production was estimated on an annual timescale. However, it was also shown that the alternative methods could produce different production estimates when estimated on shorter timescales such as cyanobacterial blooms in summer. Cyanobacteria with low mortality due to grazing and sinking losses have been considered as trophic bottlenecks, but there is increasing evidence that their mortality is, to a considerable extent, due to parasitic pathogens. In the case of cyanobacterial blooms, an addition of parasite-related loss term (19–33% of standing stock) resulted in a resolution of the difference in production estimates between the methods. These analyses theoretically support the critical role of parasitism and resolve the bottleneck problem in aquatic ecosystem metabolism.</p>
Raw data of "On-chip generation and dynamic piezo-optomechanical rotation of single photons"
<p>Raw data used to produce figures of the main paper and its supplementary materials.</p>
Smartphone-Based Incentive Framework for Dynamic Network-Level Traffic Congestion Management Project H3
<p>Task 2 numerical experiment results</p>
Spatial datasets for Victorian kelp dynamics
<p class="MsoNormal"><strong><span>Aim:</span></strong><span> Kelp forests throughout temperate regions of the world serve as foundation species that play a critical role in sustaining the health and function of marine ecosystems but are experiencing declines in abundance due to loss in resilience as the ocean clim</span><span>ate changes. Ocean warming along southeast Australia</span> has already been linked to dramatic losses of kelp species and is contributing to the range expansion and population increases of two species of sea urchin. The purpose of this research is to understand the impact of multiple stressors on the decline in kelps in this region.</p> <p class="MsoNormal"><strong>Location:</strong> Coastal waters off Victoria, Australia</p> <p class="MsoNormal"><strong>Methods:</strong> <span>In this study, we use long-term (> 20 years) datasets on biological observations across Victorian waters to determine trends in coverage and the impact of multiple environmental variables (temperature, habitat, currents, waves, connectivity, urchin abundances) on two important kelps that serve as foundation species (<em>Phyllospora comosa</em> and <em>Ecklonia radiata) </em>using boosted regression trees. These models were then used to develop predictive distribution models for each species and also to predict areas of future risk. </span></p> <p class="MsoNormal"><strong><span>Results:</span></strong><span> We found that both kelp species are decreasing in percent coverage over time and multiple environmental variables, including increasing temperatures, intensifying wave energy, changes in currents and recruitment patterns, and increases in urchin populations are all contributing to the declines of kelps. Additionally, future projections of temperature and wave energy show that these species will likely continue to decrease across 71% of Victorian waters. </span></p> <p><strong><span>Main Conclusions:</span></strong><span><strong> </strong>This information can help to better manage these important foundation species by providing maps of their current and past distributions, along with projections of climate change, to target different areas for urchin culling or macroalgae restoration to reduce future losses.</span></p>
Morphological (body shape) and biting-dynamics quantitative data of parrotfishes Scarus ghobban and Scarus perrico from the Gulf of California
<p>Datasets generated during the development of the paper titled “Body shape is related to locomotion, microhabitat use, and ecological role in two sympatric parrotfish species (<em>Scarus ghobban</em> and <em>Scarus perrico</em>) from the Gulf of California” (currently submitted to the journal "Marine Biology"), an ecomorphological study that evaluates a potential divergence between the body shapes of the two most abundant and widespread parrotfishes in the Eastern Pacific/Gulf of California, <em>S. ghobban </em>and <em>S. perrico</em>, and its relationship with their microhabitat use, considering several behavioural/ecological aspects of their feeding behaviour in situ, e.g. swimming mode, type of substratum, biting dynamics. </p> <p> </p> <p>The first dataset displays the coordinates of the 13 landmarks analysed in the geometric morphometric analysis (GMA) used to mathematically represent/compare the body forms of the <em>S. ghobban</em> (n = 33) and <em>S. perrico</em> (n = 17) adult specimens. Landmarks: (1) anterior tip of the snout; (2) point of intersection between the dorsal margin of the head and a hypothetical vertical line crossing the center of the eye; (3) anterior insertion of the dorsal fin; (4) posterior insertion of the dorsal fin; (5) dorsal insertion of the caudal fin; (6) ventral insertion of the caudal fin; (7) posterior insertion of the anal fin; (8) anterior insertion of the anal fin; (9) origin of the pelvic fin; (10) origin of the isthmus; (11) posteriormost end of the operculum; (12) upper insertion of the pectoral fin; (13) lower insertion of the pectoral fin. </p> <p> </p> <p>The second dataset exhibits the three biting dynamics parameters of both <em>S. ghobban </em>(n = 62) and <em>S. perrico</em> (n = 73) adult individuals feeding in situ, quantified via video recording. Parameters: (1) number of bites within a feeding foray (BFF); (2) feeding rate (FR); (3) bite duration (BD). The total length (TL) of each individual is also provided, since a potential relationship between TL and each of these three parameters was also evaluated within the study.</p>
Molecular dynamics trajectory files
<p>Molecular dynamics trajectory files</p>
Source Dynamics - Top 5 - Financial Literacy
<p>Repository of image and support table, part of PhD Thesis in Management.</p>
Data from: Thermal plasticity in behavioral traits mediates mating and reproductive dynamics in an ectotherm.
<p>Environmental temperatures potentially influence reproductive performance and sexual selection by restricting opportunities for activity. However, explicit tests of the behavioral mechanisms linking thermal variation to mating and reproductive performance are rare. We address this gap in a temperate lizard by combining social network analysis with molecular pedigree reconstruction in a large-scale thermal manipulation experiment. Populations exposed to cool thermal regimes presented fewer high activity days compared to populations exposed to a warmer regime. While plasticity in thermal activity responses in males masked overall differences in activity levels, prolonged restriction nevertheless affected the timing and consistency of male-female interactions. Females were less capable than males of compensating for lost activity time under cold stress, and less active females in this group were significantly less likely to reproduce. While sex-biased activity suppression appeared to limit male mating rates, this did not correspond to a heightened intensity of sexual selection or shifts in the targets of sexual selection. In many populations facing thermal activity restriction, sexual selection on males may play a limited role relative to other thermal performance traits in facilitating adaptation. </p>
Supplementary material 4 from: Rusch JC, Strand DA, Laurendz C, Andersen T, Johnsen SI, Edsman L, Vrålstad T (2022) Exploring the eDNA dynamics of the host-pathogen pair Pacifastacus leniusculus (Decapoda) and Aphanomyces astaci (Saprolegniales) under experimental conditions. NeoBiota 79: 1-29. https://doi.org/10.3897/neobiota.79.82793
R-script of MCOCC occupancy analysis
Supplementary material 3 from: Rusch JC, Strand DA, Laurendz C, Andersen T, Johnsen SI, Edsman L, Vrålstad T (2022) Exploring the eDNA dynamics of the host-pathogen pair Pacifastacus leniusculus (Decapoda) and Aphanomyces astaci (Saprolegniales) under experimental conditions. NeoBiota 79: 1-29. https://doi.org/10.3897/neobiota.79.82793
R-Script of GLM analysis
Supplementary material 2 from: Rusch JC, Strand DA, Laurendz C, Andersen T, Johnsen SI, Edsman L, Vrålstad T (2022) Exploring the eDNA dynamics of the host-pathogen pair Pacifastacus leniusculus (Decapoda) and Aphanomyces astaci (Saprolegniales) under experimental conditions. NeoBiota 79: 1-29. https://doi.org/10.3897/neobiota.79.82793
ddPCR and qPCR data from the mesocosm experiments
Supplementary material 1 from: Rusch JC, Strand DA, Laurendz C, Andersen T, Johnsen SI, Edsman L, Vrålstad T (2022) Exploring the eDNA dynamics of the host-pathogen pair Pacifastacus leniusculus (Decapoda) and Aphanomyces astaci (Saprolegniales) under experimental conditions. NeoBiota 79: 1-29. https://doi.org/10.3897/neobiota.79.82793
Primers and probes used in the present study
Supplementary material 5 from: Rusch JC, Strand DA, Laurendz C, Andersen T, Johnsen SI, Edsman L, Vrålstad T (2022) Exploring the eDNA dynamics of the host-pathogen pair Pacifastacus leniusculus (Decapoda) and Aphanomyces astaci (Saprolegniales) under experimental conditions. NeoBiota 79: 1-29. https://doi.org/10.3897/neobiota.79.82793
Results of the GLMM model
Molecular Dynamics Simulations of HADDOCK-predicted Complex Structures of apoE2 and Factor H
<p>Input and output data for the molecular dynamics simulations of the FH5–7/ApoE2 complex. Initial structures generated with the HADDOCK v2.4 web server with 3 nm distance restraints for lysine pairs that were experimentally found to be cross-linked with DSS. </p> <p>Five clusters and the four representative structures provided by HADDOCK were then used for atomistic molecular dynamics simulations. These structures were solvated and simulated with both CHARMM36m and Amber FF14SB force fields for 250 ns each using GROMACS 2021. The recommended simulation parameters were used for both force fields, and they are available in the mdp files. </p> <p>For each of these 5 (clusters) x 4 (structures per cluster) x 2 (force fields) = 40 simulations, the outputs and inputs are provided; the trajectory (xtc), energy file (edr), final structure (gro), run parameter file (tpr), and continue point (cpt) are system-specific, whereas a single topology (top) and index file (ndx) is shared among all simulations with the same force field. The molecule definitions (itp) referred to in the topology are provided in the compressed files.</p>
Ex vivo tissue perturbations coupled to single cell RNA-seq reveal multi-lineage cell circuit dynamics in human lung fibrogenesis
<p>Processed count tables of scRNA-seq data generated for this study.</p>
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.