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2,135 results for “stabling”
Raw data and analysis code for "Higher-order Process Matrix Tomography of a passively-stable Quantum SWITCH"
<p>This folder contains the raw data and analysis coded need to reproduce all of the major results in the manuscript "Higher-order Process Matrix Tomography of a passively-stable Quantum SWITCH". </p>
Suppression force-fields and diffuse competition: Competition de-escalation is an evolutionarily stable strategy
<p><span>Competition theory is founded on the premise that individuals benefit from harming their competitors, which helps them secure resources and prevent inhibition by neighbours. When multiple individuals compete, however, competition has complex indirect effects that reverberate through competitive neighbourhoods. The consequences of such "diffuse" competition are poorly understood. For example, competitive effects may dilute as they propagate through a neighbourhood, weakening benefits of neighbour suppression. Another possibility is that competitive effects may rebound on strong competitors, as their inhibitory effects on their neighbours benefit other competitors in the community. Diffuse competition is unintuitive in part because we lack a clear conceptual framework for understanding how individual interactions manifest in communities of multiple competitors. Here, I use mathematical and agent-based models to illustrate that diffuse interactions—as opposed to direct pairwise interactions—are likely the dominant mode of interaction among multiple competitors. Consequently, competitive effects may regularly rebound, incurring fitness costs under certain conditions, especially when kin-kin interactions are common. These models provide a powerful framework for investigating competitive ability and its evolution and produce clear predictions in ecologically realistic scenarios.</span></p>
Dataset for "An air-stable Cu(I) metal-organic framework for hydrogen storage"
<p>Dataset for "An air-stable Cu(I) metal-organic framework for hydrogen storage"</p> <p>Raw data set of the electronic structure calculations and inputs for the GCMC calculations relating to above publication.</p>
Stable isotopes reveal intertidal fish and crabs use shellfish farms as foraging habitat in Puget Sound, Washington
<p>This is the dataset used for my second thesis chapter. The data consists of carbon and nitrogen stable isotope data collected in 3 locations in North Puget Sound in 2020-2022. Locations are Samish Bay, Padilla Bay, and Drayton Harbor. Stable isotope data is presented in standard permil format, with values referenced from the Vienna Pee Dee Belemnite and atmospheric nitrogen standards, which are the international reference standards commonly used as isotopic references for carbon and nitrogen. </p> <p>Primary productivity samples, snails, oysters, and clams were collected by hand at low tide. Fish and crabs were collected via beach seine and crab pots deployed concurrently with seining. </p> <p>Samples were collected either within bivalve farms, or within eelgrass meadow reference sites outside of farmed areas.</p> <p>All code and data necessary to reproduce the analysis is available via my Github page. </p> <p>The metadata spreadsheet contains descriptions of each column in the datasheet.</p> <p>For more information, see my chapter 2 thesis.</p>
Anaerobic Methane Oxidation is Quantitatively Important in Deeper Peat Layers of Boreal Peatlands: Evidence from in situ Stable Isotopes Depth Profiles, Anaerobic Incubations, and Microbial Communities
<p>Dataset contains complete result of laboratory anaerobic incubations with peat samples from 3 West Siberian peatlands.</p> <p>Before the incubation, the peat samples were thoroughly mixed to ensure homogeneity. Aliquots (140 ± 1 g) were mixed with distilled water at a ratio of 1:2 by weight, and then placed into sterile 500 ml glass bottles, flushed with pure argon (99.9999%, Voessen, Russia) for 5 min to remove any oxygen and sealed with butyl rubber septa to maintain anaerobic conditions. The bottles were kept at +5°C for 1 day to allow the equilibration between the peat and the headspace. Then bottles were again thoroughly flushed with argon for 5 min, sealed, and an additional 5 ml of argon was added to prevent air diffusion into the bottle headspace. The incubation was performed in two different ways: i) unamended control, and ii) amended with 10 ml of CH<sub>3</sub>F to inhibit acetotrophic methanogenesis. Peat samples from the depths of 15-20 and 40-50 cm were incubated at 15° and 10°C, respectively, for a period of 60 days, whereas deeper peat samples were incubated at 5°С, representing the temperature of the deeper peat layers of Mukhrino bog during the snow-free period for 150 days. Gas (1 mL for Н<sub>2</sub>, CH<sub>4</sub> and CO<sub>2</sub> concentration, 1 mL for stable isotope compositions) and liquid (1 mL for organic acids) samples were taken for analysis every two weeks after manually shaking the bottles for approximately 5 s to equilibrate the gaseous and aqueous phases. At the end of the incubation, methane headspace concentrations ranged from 1 to 3 % for deeper samples. The incubations with and without CH<sub>3</sub>F addition were carried out in three replicates for samples from Mukhrino bog and in two replicates for Chistoe and Lempino bogs. Net methane and CO<sub>2</sub> production were calculated from the gas concentrations, the volume of the gas space, and the water volume using the ideal gas law. Gas solubility was calculated using Henry’s law. The reported net methane and CO<sub>2</sub> production are the averages of 2-3 replicates.</p> <p>See further details in a paper with the same title and the first author.</p>
Atlantic cod individual spatial behaviour and stable isotope associations in a no-take marine reserve
<ol> <li>Foraging is a behavioural process and, therefore, individual behaviour and diet are theorized to covary. However, few comparisons of individual behaviour type and diet exist in the wild.</li> <li>We tested whether behaviour type and diet covary in a protected population of Atlantic cod, <em>Gadus</em> <em>morhua</em>. </li> <li>Working in a no-take marine reserve, we could collect data on natural behavioural variation and diet choice with minimal anthropogenic disturbance. We inferred behaviour using acoustic telemetry and diet from stable isotope compositions (expressed as δ<sup>13</sup>C and δ<sup>15</sup>N values). We further investigated whether behaviour and diet could have survival costs.</li> <li>We found cod with shorter diel vertical migration distances fed at higher trophic levels. Cod δ<sup>13</sup>C and δ<sup>15</sup>N values scaled positively with body size. Neither behaviour nor diet predicted survival, indicating phenotypic diversity is maintained without survival costs for cod in a protected ecosystem.</li> <li>The links between diet and diel vertical migration highlight that future work is needed to understand whether the shifts in this behaviour during environmental change (e.g. fishing or climate), could lead to trophic cascades. </li> </ol>
Discovery of sparse, reliable omic biomarkers with Stabl
<p><span>Adoption of high-content omic technologies in clinical studies, coupled with computational </span><span>methods, have yielded an abundance of candidate biomarkers. However, translating such find</span><span>ings into bona fide clinical biomarkers remains challenging.</span> <span>To facilitate this process, we </span><span>introduce Stabl, a general machine learning framework that identifies a sparse, reliable set </span><span>of biomarkers by integrating noise injection and a data-driven signal-to-noise threshold into </span><span>multivariable predictive modeling.</span> <span>Evaluation of Stabl on synthetic datasets and five inde</span><span>pendent clinical studies demonstrates improved biomarker sparsity and reliability compared to </span><span>commonly used sparsity-promoting regularization methods while maintaining predictive per</span><span>formance; it distills datasets containing 1,400 to 35,000 features down to 4 to 34 candidate </span><span>biomarkers. Stabl extends to multi-omic integration tasks, enabling biological interpretation of </span><span>complex predictive models, as it hones in on a shortlist of proteomic, metabolomic, and cyto</span><span>metric events predicting labor onset, microbial biomarkers of preterm birth, and a pre-operative </span><span>immune signature of post-surgical infections.</span></p>
Pattern of seasonal variation in rates of predation between spider families is temporally stable in a food web with widespread intraguild predation
<p>Intraguild predation (IGP) – predation between generalist predators (IGPredator and IGPrey) that potentially compete for a shared prey resource – is a common interaction module in terrestrial food webs. Understanding temporal variation in webs with widespread IGP is relevant to testing food web theory. We investigated temporal constancy in the structure of such a system: the spider-focused food web of the forest floor. Multiplex PCR was used to detect prey DNA in 3,300 adult spiders collected from the floor of a deciduous forest during spring, summer, and fall over four years. Because only spiders were defined as consumers, the web was tripartite, with 11 consumer nodes (spider families) and 22 resource nodes: 11 non-spider arthropod taxa (order- or family-level) and the 11 spider families. Most (99%) spider-spider predation was on spider IGPrey, and ~90% of these interactions were restricted to spider families within the same broadly defined foraging mode (cursorial or web-spinning spiders). Bootstrapped-derived confidence intervals (BCI's) for two indices of web structure, restricted connectance and interaction evenness, overlapped broadly across years and seasons. A third index, % IGPrey (% IGPrey among all prey of spiders), was similar across years (~50%) but varied seasonally, with a summer rate (65%) ~1.8x higher than spring and fall. This seasonal pattern was consistent across years. Our results suggest that extensive spider predation on spider IGPrey that exhibits consistent seasonal variation in frequency, and that occurs primarily within two broadly defined spider-spider interaction pathways, must be incorporated into models of the dynamics of forest-floor food webs. </p>
The Influence of Smoking Status on Prasugrel and Clopidogrel Treated Subjects Taking Aspirin and Having Stable Coronary Artery Disease
ClinicalTrials.gov study NCT01260584. IPD Sharing: YES. Countries: 1. Publications: 1.
Suppression force-fields and diffuse competition: Competition de-escalation is an evolutionarily stable strategy
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Free‐living and symbiotic lifestyles of a thermotolerant coral endosymbiont display profoundly distinct transcriptomes under both stable and heat stress conditions
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Data for: Landscape diversity promotes stable food web architectures in large rivers
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Stable isotope analysis reveals shifts in diet of a breeding montane bird
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Tracing 600 years of long-distance Atlantic cod trade in medieval and post-medieval Oslo using stable isotopes and ancient DNA
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Red-footed and masked boobies stable isotope data
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Supporting information for: Age-specific sensitivity analysis of stable, stochastic and transient growth for stage-classified populations
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Radiometric dating of sediment cores from three alpine lakes in Utah, United States, with stable isotope data
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Exploring variability in the diet of depredating sperm whales in the Gulf of Alaska through stable isotope analysis
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Pattern of seasonal variation in rates of predation between spider families is temporally stable in a food web with widespread intraguild predation
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Supporting data for tiger beetle stable isotope analysis
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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.