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126 results for “Information integration”
Supporting information for: Integrating morphological, molecular, and cytogenetic data for F2 sea turtle hybrids diagnosis revealed balanced chromosomal sets
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Integration of genomic and ecologic methods inform management of an undescribed, yet highly exploited, sardine species
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Integrating acoustic telemetry and demographic modeling to inform cisco (Coregonus artedi) restoration in Keuka Lake, New York
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Supplementary information: Integrative taxonomy unravels the true identity of Linnaeus’ <em>Termes fatalis</em> (Isoptera: Termitidae), the source of termites’ name
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Confocal microscopy image stacks from "Temporal integration of auxin information for the regulation of patterning"
<p>This dataset contains raw images in CZI format (Zeiss) of shoot apical meristems (SAM) from <em>Arabidopsis thaliana </em>transgenic lines <strong>qDII-pCLV3-pDR5</strong> or <strong>qDII-pCLV3-PIN1</strong>. See <em>(Galvan-Ampudia and Cerutti et al.) </em>for detailed information. This data constitutes the input of the <strong>sam_spaghetti</strong> pipeline (<a href="https://gitlab.inria.fr/mosaic/publications/sam_spaghetti">https://gitlab.inria.fr/mosaic/publications/sam_spaghetti</a>) and can be processed using the scripts and examples provided in the package.</p> <p> </p> <p><strong>File information:</strong></p> <p>File names containing qDII-CLV3-DR5 have the following data:</p> <ul> <li>Channel 1: <em>DII-VENUS-N7</em></li> <li>Channel 2: <em>pDR5:2xmTurquoise2</em></li> <li>Channel 3: <em>pRPS5a:TagBFP-SV40</em></li> <li>Channel 4: <em>pCLV3:mCherry-N7</em></li> </ul> <p>File names containing qDII-CLV3-PIN1-PI have the following data:</p> <ul> <li>Channel 1: <em>DII-VENUS-N7</em></li> <li>Channel 2: <em>pPIN1:PIN1-GFP</em></li> <li>Channel 3: <em>Propidium Iodide (cell walls)</em></li> <li>Channel 4: <em>pRPS5a:TagBFP-SV40</em></li> <li>Channel 5: <em>pCLV3:mCherry-N7</em></li> </ul> <p>Time-lapse sequences are identified as follows:</p> <ul> <li><strong>qDII-CLV3-DR5-E27-LD-SAM7.czi</strong></li> <li><strong>qDII-CLV3-DR5-E27-LD-SAM7-T5.czi</strong></li> <li><strong>qDII-CLV3-DR5-E27-LD-SAM7-T10.czi</strong></li> </ul> <p>where:</p> <ul> <li><strong>qDII-CLV3-DR5</strong> indicates the line</li> <li><strong>E$$-LD</strong> (e.g. E25-LD, E27-LD, etc) indicates independent biological replicas</li> <li><strong>SAM$</strong> is the meristem (technical replica)</li> <li><strong>T$</strong> indicates the time elapsed after the first image (in hours)</li> </ul> <p>For example <strong>qDII-CLV3-DR5-E27-LD-SAM7-T5.czi</strong> is an image of the 7th SAM of the set E27, acquired 5 hours after the first image.</p>
Supplementary information for integrating sequence capture and restriction-site associated DNA sequencing to resolve recent radiations of Pelagic seabirds
<p><b>The diversification of modern birds has been shaped by a number of radiations. Rapid diversification events make reconstructing the evolutionary relationships among taxa challenging due to the convoluted effects of incomplete lineage sorting (ILS) and introgression. Phylogenomic datasets have the potential to detect patterns of phylogenetic incongruence, and to address their causes. However, the footprints of ILS and introgression on sequence data can vary between different phylogenomic markers at different phylogenetic scales depending on factors such as their evolutionary rates or their selection pressures. We show that combining phylogenomic markers that evolve at different rates, such as paired-end double-digest restriction site-associated DNA (PE-ddRAD) and ultraconserved elements (UCEs), allows a comprehensive exploration of the causes of phylogenetic discordance associated with short internodes at different timescales. We used thousands of UCE and PE-ddRAD markers to produce the first well-resolved phylogeny of shearwaters, a group of medium-sized pelagic seabirds amongst the most phylogenetically controversial and endangered bird groups. We found that phylogenomic conflict was mainly derived from high levels of ILS due to rapid speciation events. We also documented a case of introgression, despite the high philopatry of shearwaters to their breeding sites, which typically limits gene flow. We integrated state-of-the-art concatenated and coalescent-based approaches to expand on previous comparisons of UCE and RAD-Seq datasets for phylogenetics, divergence time estimation and inference of introgression, and we propose a strategy to optimise RAD-Seq data for phylogenetic analyses. Our results highlight the usefulness of combining phylogenomic markers evolving at different rates to understand the causes of phylogenetic discordance at different timescales.</b></p>
Data from: Time-integrated habitat availability is a resource attribute that informs patterns of use in intertidal areas
In dynamic environments, resource availability may change by several orders of magnitude, over hours to months, but the duration of resource availability is not often included as a characteristic attribute of resources even though temporal resource dynamics might limit patterns of use. In our study of wading birds foraging in intertidal areas, tides cause large changes in the areal extent of shallow-water foraging habitat (i.e., the resource), but tides also constrain the duration of availability, which is often overlooked. We hypothesized that temporal constraints on habitat availability from tides would be reflected in patterns of habitat use by foraging birds. We estimated the time-integrated habitat availability and compared it to traditional habitat attributes (seagrass cover, substrate type, instantaneous water depth, and proximity to mangrove islands or deep water) that have strong evidential support for influencing patterns of use. To evaluate our hypotheses, we quantified habitat attributes at intertidal areas in the Florida Keys, U.S.A, where wading birds were observed foraging (Little Blue Heron, Egretta caerulea: N=183; Great White Heron, Ardea herodias occidentalis: N=162). We tested for non-random use by sampling habitat attributes at two spatial scales around the observed feeding locations and we analyzed the data using a conditional logistic regression model. There was no evidence that seagrass cover or substrate explained patterns of use. The proximity of foraging locations relative to mangroves and to deep water were important at both spatial scales but had lower effect sizes (odds-ratios) than time-integrated habitat availability and water depth, and the latter may only serve as a physical constraint on access. We found support that time-integrated habitat availability was a distinct resource attribute, had the greatest effect size (4-8-fold change in relative probability of use), and best explained patterns of habitat use at the largest spatial scale. In studies of resource use where changes in resource availability are non-linear or when strong constraints on access are imposed by behavior, incorporating time-integrated estimates of resource availability into analyses can improve insights into spatiotemporal patterns of resource use.
NicheNet-v2 ligand-receptor networks: integrated information from Omnipath
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Benchmark dataset for protein function prediction that integrates various protein information
<p>This research was funded by the National Science Centre in Poland (grant number 2021/41/N/ST6/01919)</p>
Integrating the interconnections between groundwater and land surface processes through the coupled NASA Land Information System and ParFlow environment
<p>This is a dataset used in the paper entitled "Integrating the interconnections between groundwater and land surface processes through the coupled NASA Land Information System and ParFlow environment" by Maina et al., 2024</p>
Supporting Information: Environmental benefits of large-scale second-generation bioethanol production in the EU: An integrated supply chain network optimization and Life Cycle Assessment approache
<p>This supporting information provides all input data of the model, the assumptions made and the literature and database references for the publication<em> Environmental benefits of large-scale second-generation bioethanol production in the EU: An integrated supply chain network optimization and Life Cycle Assessment approache</em>. The environmental data is based on life cycle assessments, with full information on the life cycle inventory and the results of the life cycle impact assessment based on the ReCiPe method. It also includes detailed results for all objective functions in all scenarios (optimization of 18 midpoints, 3 endpoints, and economic optimization in 5 tax scenarios and 2 feedstock scenarios), and detailed results of the sensitivity analysis and Pareto optimization.</p>
Information integration for nutritional decision-making in desert locusts
<p>Swarms of the migratory desert locust can extend over several hundred square kilometres, and starvation compels this ancient pest to devour everything in its path. Theory suggests that gregarious behaviour benefits foraging efficiency over a wide range of spatial food distributions. However, despite the importance of identifying the processes by which swarms locate and select feeding sites to predict their progression, the role of social cohesion during foraging remains elusive. We investigated the evidence accumulation and information integration processes that underlie locusts' nutritional decision-making by employing a Bayesian formalism on high-resolution tracking data from foraging locusts. We tested individual gregarious animals and groups of different sizes in a 2-choice behavioural assay in which food patch qualities were either different or similar. We then predicted the decisions of individual locusts based on personally acquired and socially derived evidence by disentangling the relative contributions of each information class. Our study suggests that locusts balance incongruent evidence but reinforce congruent ones, resulting in more confident assessments when evidence aligns. We provide new insights into the interplay between personal experience and social context in locust foraging decisions which constitute a powerful empirical system to study local individual decisions and their consequent collective dynamics.</p>
SMILE: mutual information learning for integration of single-cell omics data
<p>Processed PBMC data for integration tutorial in https://github.com/rpmccordlab/SMILE.</p>
Measures to Support Inclusive Access to Information + Information Integrity. Good Practices Brazil
<p>Disinformation poses significant challenges to democracy an societal peace worldwide. Protecting the information space from distortions and hate speech and promoting information integrity requires holistic, whole-of-society approaches. During her recent research stay in Brazil, supported by the PRODIGEES project, Anita Breuer met numerous organizations that are committed to promoting inclusive access to quality information. In this video, she shares insights from good practices.</p> <p> </p> <p>Originally published on Youtube on 23 August 2024: https://www.youtube.com/watch?v=F8YcBHbjhIw</p>
Integration of Health Information Technology and Promotion of Personhood in Family-Centered Dementia Care
ClinicalTrials.gov study NCT04571502. IPD Sharing: NO. Countries: 1. Publications: 12.
Discovering Patterns in the Gut Microbiota Associated With the Risk of Stroke and the Outcome After a Stroke and Integration of These Data With Genomic Information to Find New Drug Targets and New Tre
ClinicalTrials.gov study NCT04795687. IPD Sharing: YES. Countries: 1. Publications: 1.
Integrative Therapeutic Programme to Regulate Expressed Emotions Among Informal Caregivers of People With Dementia
ClinicalTrials.gov study NCT07305415. IPD Sharing: NO. Countries: 1. Publications: 27.
Data from: Time-integrated habitat availability is a resource attribute that informs patterns of use in intertidal areas
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Information integration for nutritional decision-making in desert locusts
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Supplementary information for integrating sequence capture and restriction-site associated DNA sequencing to resolve recent radiations of Pelagic seabirds
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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.