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2,992 results for “influenza”
AI results complementing the 2020 Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Switzerland
<p>This dataset contains the results of the surveillance activities conducted in 2020, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund</li> </ul>
AI results complementing the 2020 Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - The United Kingdom
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2020, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund</li> </ul> <p>Disclaimer: Data collected by the UK at national level prior to 31/01/2020 has been used in EFSA data reports as is related to a period in which this country was still a European Union Member State.</p>
AI results complementing the 2020 Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Austria
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2020, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
AI results complementing the 2020 Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Hungary
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2020, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
AI results complementing the 2020 Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - France
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2020, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
AI results complementing the 2020 Annual Report on surveillance for Avian Influenza in poultry and wild birds in Member States of the European Union - Czechia
<p>This dataset contains the results of the EU co-funded surveillance activities conducted in 2020, which consisted of:</p> <ul> <li>Serological surveys to monitor the circulation of AIV subtypes H5 and H7 in poultry (active surveillance). These surveys should preferentially target poultry species or production systems with increased risk for introduction of avian influenza (AI).</li> <li>Passive surveillance aiming at the virological detection of AI in wild birds found dead or moribund.</li> </ul>
Supplementary data for "Timely vaccine strain selection and genomic surveillance improves evolutionary forecast accuracy of seasonal influenza A/H3N2"
<p>Supplementary materials associated with the manuscript by Huddleston and Bedford titled "Timely vaccine strain selection and genomic surveillance improves evolutionary forecast accuracy of seasonal influenza A/H3N2".</p>
Data for "Reinfections and cross-protection in the 1918/19 influenza pandemic: Revisiting a survey among male and female factory workers"
<p>Dataset underlying the analysis of the paper: "Reinfections and cross-protection in the 1918/19 influenza pandemic: Revisiting a survey among male and female factory workers"</p> <p>The dataset includes the following variables:</p> <ul> <li>Sex - male, female</li> <li>Age2 - age in full years</li> <li>Grippe - influenza (oui = yes, non=no)</li> <li>Times_grippe - how often did the influenza occur (0-3)</li> <li>Reinfection - 0=no, 1=yes</li> <li>Reinfection_forte - was the reinfection stronger or the same (1) or weaker (0) as the first infection?</li> <li>Severeness - 1=mild, 2 and 3 = strong</li> <li>reinf_v1 - reinfection first wave 0=no, 1=yes</li> <li>vage1 - infection first wave 0=no, 1=yes</li> <li>reinf_v2 - reinfection second wave 0=no, 1=yes</li> <li>vage2 - infection second wave 0=no, 1=yes</li> <li>reinf_v3 - reinfection third wave 0=no, 1=yes</li> <li>vage3 - infection third wave 0=no, 1=yes</li> <li>reinf_y1919 - reinfection winter 1919 0=no, 1=yes</li> <li>vage_1919 - infection winter 1919 0=no, 1=yes</li> <li>Grippe1890 - illness 1890 0=no, 1=yes</li> </ul> <p> </p> <p> </p>
Excel mapping tool for 2022 avian influenza data reporting
<p>Data collection is an important task of the European Food Safety Authority (EFSA) and a fundamental component of risk assessment (Articles 22 and 23 of Regulation (EC) No 178/2002). EFSA receives a large volume of data from Member States (MSs) that is used in support of its risk assessment mission.</p> <p>Council Directive 2005/94/EC and Commission Decision 2010/367/EU lay down the guidelines for monitoring and reporting avian influenza surveillance data on poultry and wild birds by European Union (EU) MSs. EFSA has been assigned the task of collating, validating, analysing, and summarising in an annual report the results from the avian influenza surveillance programmes in poultry and wild birds. For the reporting of data, EFSA provides a Data Collection Framework that allows data providers to submit data in eXtensible Markup Language (XML) format through a web interface or a web service. Here, a data model describing the format, and the content requested when submitting data through the DCF, is provided.</p> <p>The data model supports the reporting of laboratory testing results for avian influenza in both wild birds, and poultry. The use of this reporting standard ensures that reported results are comparable between reporting countries. Data reported in this format will be used to generate epidemiological updates on the avian influenza surveillance testing carry out in Europe, and to provide scientific advice to the European Commission.</p>
dhaw/fluCodeImperial: Using real-time data to guide decision-making during an influenza pandemic: a modelling analysis
<p><strong>All codes and data used for "Using real-time data to guide decision-making during an influenza pandemic: a modelling analysis" are included in this folder. The file "runExamples.m" contains a step-by-step method for reproducing figures and running model fits. Ensure that all data and code files are in the same directory, then a single execution of “runExamples” on the command line will generate all main and supplementary figures in the manuscript. There is one line of code per figure, clearly marked, that can be commented out as desired. In order to run the MCMC adaptive algorithm, a single line of code, also clearly marked, must be commented back in. Instructions to change the single-state example are given at the top of the file “runExamples.m”. The saved state selection of California (“state=1”) is consistent with all results presented in the manuscript. </strong></p> <p><strong> </strong></p> <p><strong>Plots make use of files from the following sources, with some modifications:</strong></p> <p><strong>Holger Hoffmann (2022). Violin Plot (https://www.mathworks.com/matlabcentral/fileexchange/45134-violin-plot);</strong></p> <p><strong>Evan (2022). Plot Groups of Stacked Bars (https://www.mathworks.com/matlabcentral/fileexchange/32884-plot-groups-of-stacked-bars);</strong></p> <p><strong>John Onofrey (2022). Shaded Plots and Statistical Distribution Visualizations (https://www.mathworks.com/matlabcentral/fileexchange/69203-shaded-plots-and-statistical-distribution-visualizations)</strong></p>
Data complementing the Avian influenza overview September– December 2022
<p>Annex A – Characteristics of the HPAI A(H5Nx)-positive poultry establishments</p> <p>The Annex contains table with the characteristics of the HPAI A(H5Nx)-positive poultry establishments by affected EU Member State from 3 September- 18 November 2022. In addition, the Netherlands reported on the characteristics of the HPAI A(H5Nx)-positive poultry establishments affected before 3 September that were not included in the previous published report; this information is also included in Annex A.</p> <p>Annex B – Applied prevention and control measures on avian influenza</p> <p>The Annex contains an overview of specific prevention and control measures applied in Belgium, Bulgaria, Croatia, Denmark, France, Germany, Hungary, Ireland, Moldova, Norway, the Netherlands, Poland, Portugal, Spain from 3 September- 18 November 2022. in relation to HPAI outbreaks in poultry and in wild birds.</p> <p>Annex C – Data on wild birds</p> <p>The Annex contains tables and plots on HPAI virus notifications in wild birds in Europe.</p>
Data for "From pandemic to endemic: Spatial-temporal patterns of influenza-like-illness incidence in a Swiss canton, 1918-1924"
<p>Datasets underlying the analysis of the paper: "From pandemic to endemic: Spatial-temporal patterns of influenza incidence in a Swiss canton, 1918-1924"</p> <ul> <li><strong>Cofactors_1918.xlsx</strong> : Ecological cofactors for each bernese municipility</li> <li><strong>Data_Influenza_Bern.xlsx: </strong>Influenza data (1920-1924)</li> <li><strong>Data_Spanishflu.xlsx: </strong>"Spanish flu" data (1918-1919)</li> <li><strong>Data_Population.xlsx: </strong>Population for each municipality</li> <li><strong>Tb_death.xlsx : </strong>Number of tuberculosis death</li> <li><strong>Fabrik_Statistik_1929.xlsx : </strong>Information about the factories</li> </ul>
Inhibition of cellular RNA methyltransferase abrogates influenza virus capping and replication
<p>Raw data of the paper titled "Inhibition of cellular RNA methyltransferase abrogates influenza virus capping and replication".</p>
Data complementing the Avian influenza overwiew December 2022- March 2023
<p>The Annex contains tables and figures on wild birds species and movements and HPAI virus detections in birds. </p> <p> </p> <p> </p>
Data from: Postnatal administration of S-adenosylmethionine restores developmental AHR activation-induced deficits in CD8+ T cell function during influenza A virus infection
<p>Abstract Developmental exposures can influence life-long health; yet, counteracting negative consequences is challenging due to poor understanding of cellular mechanisms. The aryl hydrocarbon receptor (AHR) binds many small molecules, including numerous pollutants. Developmental exposure to the signature environmental AHR ligand 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD) significantly dampens adaptive immune responses to influenza A virus (IAV) in adult offspring. CD8+ cytotoxic T lymphocytes (CTL) are crucial for successful infection resolution, which depends on the number generated and the complexity of their functionality. Prior studies showed developmental AHR activation significantly reduced the number of virus-specific CD8+ T cells, but impact on their functions is less clear. Other studies showed developmental exposure was associated with differences in DNA methylation in CD8+ T cells. Yet, empirical evidence that differences in DNA methylation are causally related to altered CD8+ T cell function is lacking. The two objectives were to ascertain whether developmental AHR activation affects CTL function, and whether differences in methylation contribute to reduced CD8+ T cell responses to infection. Developmental AHR triggering significantly reduced CTL polyfunctionality, and modified the transcriptional program of CD8+ T cells. S-adenosylmethionine (SAM), which increases DNA methylation, but not Zebularine, which diminishes DNA methylation, restored polyfunctionality and boosted the number of virus-specific CD8+ T cells. These findings suggest that diminished methylation, initiated by developmental exposure to an AHR-binding chemical, contributes to durable changes in antiviral CD8+ CTL functions later in life. Thus, deleterious consequence of development exposure to environmental chemicals are not permanently fixed, opening the door for interventional strategies to improve health.</p>
Primer sequences for H3N2 canine influenza virus full-length amplification, polymerase activity assay, and rescue
<p><span>Influenza A viruses in animal reservoirs repeatedly cross species barriers to infect humans. Once an animal-borne virus with novel antigenicity acquired the efficient human-to-human transmissibility, it will become epidemic in the population. Dogs are the closest animal companions to humans, and canine respiratory tract expresses both SAα2,3-(avian type) and α2,6-Gal (human type) receptors. However, the role of dogs in the ecology of influenza viruses is unclear. H3N2 avian influenza viruses were transmitted to dogs around 2006 and have formed stable lineages. The long-term epidemic of avian-origin H3N2 virus in canines offers the best models to investigate the effect of dogs on the evolution of influenza viruses. Here, we carried out a systematic and comparative identification of the biological characteristics of H3N2 canine influenza viruses (CIVs) isolated in worldwide</span> <span>over 10 years. We found that during the adaptation of H3N2 CIVs to dogs, H3N2 CIVs became to recognize the human-like SAα2,6-Gal receptor, gradually increased HA acid stability and replication ability in human airway epithelial cells, and acquired a 100% transmission rate via respiratory droplet in ferret model, which were essential hallmarks of being adapted to humans. We also identified that the frequency of substitutions related to human adaptation has gradually increased in H3N2 CIVs and determined four cumulative molecular changes responsible for the increased airborne transmission ability in ferrets. Our results suggested that canines may serve as an intermediate for the adaptation of avian influenza virus to humans. Continuous surveillance coordinated with risk assessment for CIVs is necessary.</span></p>
Remote sensing and ecological variables related to Influenza A prevalence and subtype diversity in wild birds in the Lluta wetland of northern Chile
<p>Supplemental material for manuscript, tables 1 and 2</p>
Data complementing the Avian influenza overview March – April 2023
<p>Annex A – Data on wild bird species, movements and HPAI detections in birds</p> <p>The annex contains tables and figures on wild bird species and movements and HPAI virus detections in birds.</p> <p>Annex B – Applied prevention and control measures on avian influenza</p> <p>The annex contains an overview of specific prevention and control measures applied in AAustria, Belgium, Bulgaria, Cyprus, Czechia, Denmark, Estonia, France, Hungary, Ireland, Italy, Moldova, the Netherlands, Poland, Romania, Slovakia, Slovenia, Spain, Sweden and Switzerland from 18 November 2022 to 3 April 2023 in relation to avian influenza outbreaks in poultry and in wild birds.</p> <p>Annex C – Characteristics of the HPAI A(H5Nx)-positive poultry establishments</p> <p>The Annex contains table with the characteristics of the HPAI A(H5Nx)-positive poultry establishments by affected EU Member State from 18 November 2022 - 3 April 2023. </p> <p>Annex D- Data on virus sequences</p> <p>The annex contains information on authors, originating and submitting laboratories of the sequences from GISAID’s EpiFlu™ Database on which this research is based. All submitters of data may be contacted directly via <a href="https://www.gisaid.org.">www.gisaid.org.</a></p> <p> </p>
Estimated mortality of the Highly Pathogenic Avian Influenza (HPAI) pandemic on Northern gannets (Morus bassanus) in southwest Ireland
<p><span>The 2022 Highly Pathogenic Avian Influenza (HPAI) outbreak that occurred in 2022 in many European countries affected several seabird species. Among them, Northern gannets (<em>Morus</em> <em>bassanus</em>), were particularly impacted. We conducted aerial surveys in waters around the two largest gannet colonies in Ireland (Little Skellig and Bull Rock, together representing 87% of the national population) in September 2022. During surveys, 184 dead gannets were recorded on survey effort, representing 3.74% of the total number of gannets recorded. We estimated the abundance of dead gannets in the surveyed area at 1,526 (95% CIs 1,299–1,793) individuals. The percentage of dead gannets observed was used to estimate a minimum local population mortality of 3,118 individuals across both colonies. Aerial surveys proved a reliable methodology providing key information on gannet mortality derived from HPAI at sea. The study provides the first estimate of gannet mortality in the two largest gannetries in Ireland.</span></p>
Ecogeographic drivers of the spatial spread of highly pathogenic avian influenza outbreaks in Europe and North America, 2016–2022
<p>H5Nx highly pathogenic avian influenza (HPAI) viruses of clade 2.3.4.4 have caused outbreaks in Europe among wild and domestic birds since 2016 and were introduced to North America via wild migratory birds in December 2021. We examined the spatiotemporal extent of HPAI viruses across continents and characterize ecological and environmental predictors of virus spread between geographic regions through constructing a Bayesian phylodynamic generalized linear model (phylodynamic-GLM). Findings demonstrate localized epidemics of H5Nx throughout Europe in the first several years of the epizootic, followed by a singular branching point where H5N1 viruses were introduced to North America, likely via stopover locations throughout the North Atlantic. Once in the US, H5Nx viruses spread at a greater rate between US-based regions and no evidence demonstrated spread back to any European region. We establish that geographic proximity is a predictor of virus spread between regions, which implies that inter-continental transport across the Atlantic Ocean is relatively rare. Increase in mean ambient temperature over time was predictive of reduced H5Nx virus spread, which may reflect the effect of climate change on declines in host species abundance, decreased persistence of the virus in the environment, or changes in migratory patterns due to ecological alterations. Our data provide new knowledge about the spread and directionality of H5Nx virus dispersal in Europe and North America during an actively evolving inter-continental outbreak, including predictors of virus movement between regions, which will contribute to surveillance and mitigation strategies as the outbreak unfolds, and in future instances of uncontained avian spread of HPAI viruses.</p>
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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.