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3,139 results for “fitting”
Data from: Analysis of statistical correlations between properties of adaptive walks in fitness landscapes
The fitness landscape metaphor has been central in our way of thinking about adaptation. In this scenario, adaptive walks are an idealized dynamics that mimics the uphill movement of an evolving population towards a fitness peak of the landscape. Recent works in experimental evolution have demonstrated that the constraints imposed by epistasis are responsible for reducing the number of accessible mutational pathways towards fitness peaks. Here we exhaustively analyze the statistical properties of adaptive walks for two empirical fitness landscapes and for theoretical NK landscapes. Some general scenario can be drawn from our simulation study. Regardless the dynamics, we observe that the shortest paths are more regularly used. Although the accessibility of a given fitness peak is reasonably correlated to the number of monotonic pathways towards it, the two quantities are not exactly proportional. A negative correlation predictability and mean path divergence is established, and so with the decrease of the number of effective mutational pathways ensues the convergence of the attraction basin of fitness peaks. On the other hand, other features are not conserved among fitness landscapes, such as the relationship between accessibility and predictability.
Data from: Female lizards choose warm, moist nests that improve embryonic survivorship and offspring fitness
1. The fitness consequence of maternal nest-site choice has attracted increasing scientific attention, but field studies identifying the long-term effects of nest-site choice on offspring survival and reproductive success are still rare in vertebrates. 2. To investigate the consequences of nest-site choice in lizards, we quantified the thermal and hydric conditions of nest sites that were chosen by female toad-headed agama (Phrynocephalus przewalskii) in the desert steppe of northern China. We also determined the effect of nest-site choice on embryonic development and survival and on offspring growth, survival, and maturity by comparing the embryos and offspring from maternally and randomly chosen nest sites. 3. We found that female toad-headed agama chose warm and moist nest sites that improved the developmental rate and survivorship of embryos and promoted the post-hatching growth, sexual maturity, reproduction, and fitness of offspring, thereby improving their reproductive success. 4. Such studies on short-lived lizards across multiple stages of embryonic and postembryonic ontogeny are critical for fully understanding the fitness consequences of nest-site choice.
Data from: Post-hatching parental care masks the effects of egg size on offspring fitness: a removal experiment on burying beetles
Parents can increase the fitness of their offspring by allocating nutrients to eggs and/or providing care for eggs and offspring. Although we have a good understanding of the adaptive significance of both egg size and parental care, remarkably little is known about the co-evolution of these two mechanisms for increasing offspring fitness. Here, we report a parental removal experiment on the burying beetle Nicrophorus vespilloides in which we test whether post-hatching parental care masks the effect of egg size on offspring fitness. As predicted, we found that the parent's presence or absence had a strong main effect on larval body mass, while there was no detectable effect of egg size. Furthermore, egg size had a strong and positive effect on offspring body mass in the parent's absence, while it had no effect on offspring body mass in the parent's presence. These results support the suggestion that the stronger effect of post-hatching parental care on offspring growth masks the weaker effect of egg size. We found no correlation between the number and size of eggs. However, there was a negative correlation between larval body mass and brood size in the parent's presence, but not in its absence. These findings suggest that the trade-off between number and size of offspring is shifted from the egg stage towards the end of the parental care period, and that post-hatching parental care somehow moderates this trade-off.
Data from: Kin-bias, breeding site selection, and female fitness in a cannibalistic Neotropical frog
Resource availability influences sexual selection within populations and determines whether behaviours such as territoriality or resource sharing are adaptive. In Thoropa taophora, a frog endemic to the Atlantic Coastal Rainforest of Brazil, males compete for and defend limited breeding sites while females often share breeding sites with other females; however, sharing breeding sites may involve costs due to cannibalism by conspecific tadpoles. We studied a breeding population of T. taophora to determine (i) whether this species exhibits polygynous mating involving female choice for territorial males and limited breeding resources; (ii) whether limited breeding resources create the potential for male–male cooperation in defence of neighbouring territories; and (iii) whether females sharing breeding sites exhibit kin-biased breeding site choice, possibly driven by fitness losses due to cannibalism among offspring of females sharing sites. We used microsatellites to reconstruct parentage and quantify relatedness at eight breeding sites in our focal population, where these sites are scarce, and in a second population, where sites are abundant. We found that at localities where the appropriate sites for reproduction are spatially limited, the mating system for this species is polygynous, with typically two females sharing a breeding site with a male. We also found that females exhibit negative kin-bias in their choice of breeding sites, potentially to maximize their inclusive fitness by avoiding tadpole cannibalism of highly related kin. Our results indicate that male territorial defence and female site sharing are likely important components of this mating system, and we propose that kinship-dependent avoidance in mating strategies may be more general than previously realized.
Are Smartphones and Fitness Apps Fit For Purpose? An experimental study.
<p>Data set for treadmill and fitness apps study</p>
Evolutionary "crowdsourcing": alignment of fitness landscapes allows for cross-species adaptation of a horizontally transferred gene
<p>This repository accompanies the publication of <i><strong>Evolutionary "crowdsourcing": alignment of fitness landscapes allows for cross-species adaptation of a horizontally transferred gene</strong></i> by Kosterlitz et. al. This research project explores the cross-species adaptation of a horizontally transferred gene through evolutionary "crowdsourcing." The repository provides all relevant data, code, and figures associated with the publication, enabling users to replicate the results and explore the findings in-depth.</p>
Swift/BAT-GUANO upper limits fits map for S231029y
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Swift/BAT-GUANO upper limits fits map for S231102w
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Swift/BAT-GUANO upper limits fits map for S231118an
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Swift/BAT-GUANO upper limits fits map for S231118d
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Swift/BAT-GUANO upper limits fits map for S231114n
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Swift/BAT-GUANO upper limits fits map for S231113bb
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Swift/BAT-GUANO upper limits fits map for S231129ac
<p>r</p>
Predation of mesopelagic fish on tuna eggs and larvae: fitness benefits of synchronizing spawning with the moon
<p>This repository contains all data and R code used in the research article "Model of mesopelagic fish predation on eggs and larvae shows benefits of tuna spawning under full moon" - https://aslopubs.onlinelibrary.wiley.com/doi/full/10.1002/lno.12465</p><p>Data and code are originally structured in folders and can be found in GitHub - https://github.com/dottmann/moon_light</p>
Swift/BAT-GUANO upper limits fits map for S231206cc
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Swift/BAT-GUANO upper limits fits map for S231206ca
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Swift/BAT-GUANO upper limits fits map for S231224e
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Data from: Crossed effects of helminth infection and lead exposure on fitness: an experimental study in feral pigeons (Columba livia)
<p><span>Living organisms are exposed to multiple environmental factors that can affect their fitness. The effects of these simultaneous stressors can be additive or can interact in negative synergistic or antagonistic ways to affect the health of exposed individuals. Parasites can accumulate pollutants in their own tissues and have been shown to increase the tolerance of their hosts to different pollutants (antagonistic interaction between parasites and pollutants). We tested the existence of combined antagonistic effects between intestinal parasites and lead exposure on urban feral pigeons (<em>Columba livia</em>) which are known to be exposed to trace metal pollution and harbor a wide variety of internal and external parasites. </span><span>We experimentally exposed feral pigeons to two treatments: an anthelmintic treatment to eliminate intestinal nematode parasites; an exposure to lead for a period of 6 months. We tested the effects of these crossed treatments on several components of fitness: immunocompetence, reproduction, and body mass. </span><span>Our findings suggest that the overall effects of lead exposure, either alone or in combination with the presence of intestinal parasites (without </span><span>anthelmintic </span><span>treatment) were negative, through either additive or synergistic means. </span><span>In the absence of putative antagonistic effects between lead exposure and with helminths, the detoxification hypothesis could not be confirmed. </span><span>Our results reveal the existence of negative combined effects between pollutant exposure and intestinal parasites, highlighting the importance of accounting for multiple stress factors when studying the effects of exposure to pollutants and/or other environmental stressors on the fitness of organisms.</span></p>
Transneptunian Binary Orbit Fits
<p>A set of Keplerian and non-Keplerian fits to the orbits of 45 individual TNO binaries. We provide full MCMC chains of our fits, as well as all diagnostics and outputs. We have verified that all Keplerian fits are converged. Non-Keplerian fits are not converged in almost all cases, but were run for a set amount of steps to try and identify targets for longer, converged analyses. A full paper about these fits and a discussion of their implications will soon be submitted to the Planetary Science Journal (PSJ).</p> <p>We provide these fits to allow anyone to fully examine the outputs of our fitting process. They can also be used a starting point for future analyses as the MCMC chains contain a full posterior distribution of the orbital properties of each TNO binary. A readme is contained within the dataset describing the outputs and the use of the MCMC chains. For any further assistance, please contact us.</p> <p>A "frozen" version of MultiMoon compatible with the dataset is also included.</p>
FLIGHTED: Inferring Fitness Landscapes from Noisy High-Throughput Experimental Data (Part 1)
<p>Data for FLIGHTED (Inferring Fitness Landscapes from Noisy High-Throughput Experimental Data). This data contains the model weights for FLIGHTED-Selection and FLIGHTED-DHARMA, the training data for both, and fits on the GB1 landscape. It does not contain anything related to the TEV protease landscape.</p> <p>The data is arranged in the following folders:</p> <ol> <li>DHARMA_Input: contains the input for the DHARMA models, with the canvas sequence, the DHARMA reads, and the FACS data.</li> <li>DHARMA_Models: contains the weights, hyperparameters, and model training history for the FLIGHTED-DHARMA model.</li> <li>Fitness_Landscapes: the GB1 landscape, with and without FLIGHTED, as well as splits published by FLIP.</li> <li>Landscape_Models: models trained on the GB1 landscape with and without FLIGHTED under the various FLIP splits. Each model folder contains hyperparameters, training history, and predictions on the test set which can be used to evaluate model performance. Raw model parameters are not provided for fine-tuned models due to size; contact us if you want them.</li> <li>FLIGHTED_Selection: contains the weights, hyperparameters, and model training history for the FLIGHTED-Selection model.</li> <li>Selection_Simulations: contains the simulated training data for the FLIGHTED-Selection model.</li> </ol>
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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.