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107 results for “mechanistic model”
Data and model code for study: Mechanistic modelling of marsh seedling establishment provides a positive outlook for coastal wetland restoration under global climate change
<p>This folder will include data and model code for study: Mechanistic modelling of marsh seedling establishment provides a positive outlook for coastal wetland restoration under global climate change.</p>
Mechanistic models project bird invasions with accuracy
<p>This ZIP file contains all 1) input data [occurrence data and environmental predictors] used, 2) all R scripts used, and 3) all model outputs.</p>
Data from: Emergent global patterns of ecosystem structure and function from a mechanistic General Ecosystem Model
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Data from: Higher rates of pre‐breeding condition gain positively impacts clutch size: a mechanistic test of the condition‐dependent individual optimization model
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Data from: A mechanistic and empirically-supported lightning risk model for forest trees
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A structural and mechanistic model for BSEP dysfunction in PFIC2 cholestatic disease
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Experimental evidence of warming-induced disease emergence and its prediction by a trait-based mechanistic model
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Data from: Combining correlative and mechanistic niche models with human activity data to elucidate the invasive potential of a sub-Antarctic insect
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Dataset of Paper "Mechanistic modelling of wastewater disinfection by the photo-Fenton process at circumneutral pH"
<p>Datasets of Paper “Mechanistic modelling of wastewater disinfection by the photo-Fenton process at circumneutral pH”:</p> <ul> <li>Optical properties of the Simulated Wastewater at different iron concentrations</li> <li>Optical parameters of dispersed iron in the simulated wastewater</li> <li>Modelled and experimental data of <em>E. coli </em>solar disinfection</li> <li>Experimental data of <em>E. coli</em> photo-Fenton disinfection</li> <li>Modelled data of <em>E. coli</em> photo-Fenton disinfection</li> </ul> <p>.</p>
Data: Experimental evidence of warming-induced disease emergence and its prediction by a trait-based mechanistic model
<p>Predicting the effects of seasonality and climate change on the emergence and spread of infectious disease remains difficult, in part because of poorly understood connections between warming and the mechanisms driving disease. Trait-based mechanistic models combined with thermal performance curves arising from the Metabolic Theory of Ecology (MTE) have been highlighted as a promising approach going forward; however, this framework has not been tested under controlled experimental conditions that isolate the role of gradual temporal warming on disease dynamics and emergence. Here, we provide experimental evidence that a slowly warming host – parasite system can be pushed through a critical transition into an epidemic state. We then show that a trait-based mechanistic model with MTE functional forms can predict the critical temperature for disease emergence, subsequent disease dynamics through time, and final infection prevalence in an experimentally warmed system of <i>Daphnia </i>and a microsporidian parasite. Our results serve as a proof of principle that trait-based mechanistic models using MTE sub-functions can predict warming-induced disease emergence in data-rich systems – a critical step towards generalizing the approach to other systems.</p>
A mechanistic model of functional response provides new insights into indirect interactions among arctic tundra prey
Prey handling processes are considered a dominant mechanism leading to short-term positive indirect effects between prey that share a predator. However, a growing body of research indicates that predators are not necessarily limited by such processes in the wild. Density-dependent changes in predator foraging behavior can also generate positive indirect effects but they are rarely included as explicit functions of prey densities in functional response models. With the aim of untangling proximate mechanisms of species interactions in natural communities and improving our ability to quantify interaction strength, we extended the multi-prey version of the Holling disk equation by including density-dependent changes in predator foraging behavior. Our model, based on species traits and behavior, was inspired by the vertebrate community of the arctic tundra, where the main predator (the arctic fox) is an active forager feeding primarily on cyclic small rodent (lemming) and eggs of various tundra-nesting bird species. Short-term positive indirect effects of lemmings on birds have been documented over the circumpolar Arctic but the underlying mechanisms remain poorly understood. We used a unique data set, containing high-frequency GPS tracking, accelerometer, behavioral, and experimental data to parameterize the multi-prey model, and a 15-year time series of prey densities and bird nesting success to evaluate interaction strength between species. We found that: (i) prey handling processes play a minor role in our system and (ii) changes in arctic fox daily activity budget and distance traveled can partly explain the predation release on birds observed during lemming peaks. These adjustments in predator foraging behavior with respect to the main prey density thus appear as the dominant mechanism leading to positive indirect effects commonly reported among arctic tundra prey. Density-dependent changes in functional response components have been little studied in natural vertebrate communities and deserve more attention to improve our ability to quantify the strength of species interactions.
Fig. 1 in Modelling sympatric speciation by means of biologically plausible mechanistic processes as exemplified by threespine stickleback species pairs
Fig. 1 Flow diagram of the individual based genetic algorithm
Data from: Mechanistic model of evolutionary rate variation en route to a nonphotosynthetic lifestyle in plants
Because novel environmental conditions alter the selection pressure on genes or entire subgenomes, adaptive and nonadaptive changes will leave a measurable signature in the genomes, shaping their molecular evolution. We present herein a model of the trajectory of plastid genome evolution under progressively relaxed functional constraints during the transition from autotrophy to a nonphotosynthetic parasitic lifestyle. We show that relaxed purifying selection in all plastid genes is linked to obligate parasitism, characterized by the parasite's dependence on a host to fulfill its life cycle, rather than the loss of photosynthesis. Evolutionary rates and selection pressure coevolve with macrostructural and microstructural changes, the extent of functional reduction, and the establishment of the obligate parasitic lifestyle. Inferred bursts of gene losses coincide with periods of relaxed selection, which are followed by phases of intensified selection and rate deceleration in the retained functional complexes. Our findings suggest that the transition to obligate parasitism relaxes functional constraints on plastid genes in a stepwise manner. During the functional reduction process, the elevation of evolutionary rates reaches several new rate equilibria, possibly relating to the modified protein turnover rates in heterotrophic plastids.
Supplemental data for "Patterns of West Nile virus in the Northeastern United States using negative binomial and mechanistic trait-based models"
<p>Supplemental data files for "Patterns of West Nile virus in the Northeastern United States using negative binomial and mechanistic trait-based models"</p> <p><strong>S1 Table File.</strong> A table containing the probability of obtaining a result of 0 WNV cases in 20 years based on the group-estimated negative binomial model for each county with no cases reported.</p> <p><strong>S2 Table File.</strong> A table containing the county temperature inputs used in this study, and the associated relative R0 predictions</p> <p><strong>S3. Table File.</strong> A table containing the negative binomial probabilities by county, including group identity and group populations.</p>
DFT Calculated xyz in Support of "Computational Modelling and Mechanistic Insight into Light-driven CO Dissociation of square-planar Rh(I) Complexes"
<p>The C-H activation of alkanes mediated by electron-rich metal complexes, such as Rh(I) complexes, has drawn considerable attention in recent decades. In order to interact with the C-H bond, most Rh complexes, such as <em>trans-</em>Rh(PMe<sub>3</sub>)<sub>2</sub>(CO)(Cl) need to be activated through irradiation, which leads to the photocleavage of the Rh-CO bond and the formation of the active species Rh(PMe<sub>3</sub>)<sub>2</sub>(Cl). To elucidate the details of the photochemistry of <em>trans-</em>Rh(PMe<sub>3</sub>)<sub>2</sub>(CO)(Cl), we here present a computationally derived picture as obtained at the density functional level of theory (DFT) in combination with multireference wavefunction-based methods. We have identified that the photocleavage of CO proceeds via the metal-centered excited state, which is populated through intersystem crossing (ISC) from the dipole-allowed excited state S<sub>1</sub>. Moreover, the present study unraveled the reasons for the low C-H activation efficiency when using Rh featuring the bidentate ligand 1,2-bis(dimethylphosphino)ethane (dmpe), namely due to its unfavorable photochemical properties, i.e., the small driving force for light-induced CO loss and the fast deactivation of <sup>3</sup>MC state back to the singlet ground state. In this study, we provide theoretical insight into mechanistic details underlying the light-induced CO dissociation process, for Rh complexes featuring PMe<sub>3</sub> and dmpe ligands.</p>
Syngas Conversion over Co4 Cluster Grafted on HZSM-5 Zeolite: Mechanistic Insights from DFT Modeling
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Research on the Complex Scientific Mechanisms Underlying Exercise and Health: Construction and Application of a Mechanistic Model and Public Database（CISS）
ClinicalTrials.gov study NCT06936982. IPD Sharing: NO. Countries: 1. Publications: 0.
Data from: Evolution of defense against depletion of local food resources in a mechanistic foraging model
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Data from: Testing the molecular clock using mechanistic models of fossil preservation and molecular evolution
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A mechanistic model of functional response provides new insights into indirect interactions among arctic tundra prey
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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.