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2,992 results for “influenza”
Phylogenetic Analysis of the Influenza H5 hemagglutinins.
<p>These are the complete files for the phylogenetic analysis of all of the H5 hemagglutinin segments available from the NCBI influenza resource in June 2015. This includes the sequences downloaded from the database in fasta format. The sequences after alignment with MAFFT and the tree files generated by FastTree2.1.</p>
Phylogenetic analysis of the influenza N8 neuraminidases
<p>These are the complete files for the phylogenetic analysis of all of the N8 neuraminidase segments available from the NCBI influenza resource in June 2015. This includes the sequences downloaded from the database in fasta format. The sequences after alignment with MAFFT and the tree files generated by FastTree2.1.</p>
USEARCH Clustering Data for the Influenza Internal Genes
<p>These are the aligned sequence clusters and centroid datasets for the USEARCH clustering of the influenza A internal genes. </p>
Aracena et al- Epigenetic variation impacts individual differences in the transcriptional response to influenza infection
<p>-Inputs for Github code</p><p>-Full methylation results</p><p>-Full QTL results</p>
H-2020 MOOD Scoping review of Leptospirosis, Influenza A and Chikungunya on the environmental covariates
<p>The dataset contains quantitative data on the environmental covariates associated with influenza A, Chikungunya, and Leptospirosis retrieved from scientific papers through a standardized search on PubMed, Embase, Web of Science, and Scopus. Inclusion criteria were data on the association between disease and covariates, language (English or other EU languages), time frame (30 years), geographical location (Europe), and publication type. Studies without data or with non-original or duplicated data (reviews, editorials, letters, modeling studies with no data), lacking denominators or reference populations, unavailable full-texts, referring to data older than 2000 or gathered outside Europe, were excluded. The final time frame covered a period from 2000 to 2022.</p> <p>The important environmental covariates were extracted with the associated quantitative information, and the related information on the diseases. The covariates were submitted to a revision process to label them according to a labeling system agreed upon among a group of experts within the MOOD (grant agreement No 874850; <a href="https://mood-h2020.eu/" target="_blank" rel="noopener noreferrer">https://mood-h2020.eu/</a>) project consortium.</p>
Supplemental Material: High serological barriers may contribute to restricted Influenza-A-virus transmission between pigs and humans
<p>Human-to-swine (reverse zoonotic) transmission of seasonal and pandemic human influenza A viruses (IAV) to pigs primarily replenishes the vast reservoir of genetically and antigenically heterogeneous swine (sw) IAV maintained in domestic pigs worldwide. Sporadic but regularly observed cases of pig-to-human (zoonotic) infections with swIAV tend to be discovered by chance, with children being affected disproportionately often.</p> <p>Here, a total of 3070 porcine and 333 human nasal swab samples from 135 swine farms in Germany were investigated for IAV by real time RT-PCR and full genome sequencing. In addition, swIAV sequences generated in the frame of this study were analyzed to determine potential mutations for human MxA and BTN3A3 escape. </p> <div> <p><strong>01_Table S1: </strong>Summary of information of swine holdings and RT-qPCR results. 1 indicates applicable; 0 indicates not applicable; n.d. indicates not determined.</p> <p><strong>02_Table S2</strong>: Summary of information about human samples and. 1 indicates applicable; 0 indicates not applicable; n.d. indicates not determined.</p> <p><strong>03_Table S3: A.</strong> Comparison of relevant mutations in the genome of MWP/21, swine-MWP/21, and NRW/22 generated by Flusurver (http://flusurver.bii.a-star.edu.sg). 1 indicates the presence of mutation(s), 0 indicates the absence of those mutation(s).<strong> B.</strong> Visualization of the AA differences of affected segments of the zoonotic case MWP/21 and the corresponding sequence (sw-MWP/21) generated from pigs of the related herd. </p> <p><strong>04_Table S4: </strong>Accession number (EPI_ISL) of sequences analyzed in the frame of this study. All sequences are available on GISAID EpiFLU.</p> <p><strong>05_Table S5: </strong>Amino acids on positions in the nucleoprotein (NP) sequence associated with MxA resistance and BTN3A3 resistance of selected swIAV NP sequences. "av) indicates genome segments phylogenetically associated with the avian-derived H1 (1C), "pdm" indicates those of the human pandemic A/H1N1 2009 lineage (1A). </p> <p><strong>06_Figure S1: </strong>Phylogenic tree of swIAV H1 HA gene of the clades 1A, 1B and 1C annotated by global H1-lineage nomenclature by Anderson et al. (2016). Swine derived swIAV sequences generated in the frame of this study are colored in red, zoonotic cases MWP/21 and NRW/22 are colored in green. The reverse-zoonotic case is highlighted in violet with its closest related human sequence colored in green.<strong> </strong></p> <p><strong>07_Material and Methods:</strong> Description of material used and specification of applied methods in the frame of this study.</p> <p><strong>08_Questinonaire human participants:</strong> Questionaire used in the frame of this study.</p> <p><strong>09_Questinonaire swine farms:</strong> Questionaire used in the frame of this study.</p> </div> <p> </p>
Data complementing the Avian influenza overview December 2021 – March 2022
<p>The Annexes contain data and information on highly pathogenic avian influenza outbreaks in poultry and detections in wild birds in Europe</p> <p>Annex A – Characteristics of the HPAI A(H5Nx)-positive poultry establishments</p> <p>Annex B – Applied prevention and control measures on avian influenza</p> <p>Annex C – Data on wild birds</p>
Genome graphs detect human polymorphisms in active epigenomic states during influenza infection: code and processed data
<p>Manuscript, figure, and analysis code and processed data for the Groza et al (2022) preprint.</p>
Global dissemination of Influenza A virus is driven by wild bird migration through arctic and subarctic zones
<p><span>Influenza A viruses (IAV) circulate endemically among many wild aquatic bird populations that seasonally migrate between wintering grounds in southern latitudes to breeding ranges along the perimeter of the circumpolar arctic. </span>Arctic and subarctic zones are hypothesized to serve as ecologic drivers of the intercontinental movement and reassortment of IAVs <span>due to high densities of disparate populations of long distance migratory and native bird species present during breeding season</span>s. <span>Iceland</span> is a staging ground that connects <span>the East Atlantic and </span><span>North Atlantic</span><span> American flyways, providing a unique study system for characterizing viral flow between eastern and western hemispheres. Using Bayesian phylodynamic analyses, we sought to evaluate the </span><span>viral connectivity of Iceland to proximal regions and how inter-species transmission and reassortment dynamics in this region influence the geographic spread of low and highly pathogenic IAVs. </span><span>Findings demonstrate that IAV movement in the arctic and subarctic follows seabird migration around the perimeter of the circumpolar north, favoring short-distance flights between proximal regions rather than long distance flights over the polar interior. Iceland connects virus movement between mainland Europe and North America, particularly due to the westward migration of wild birds from mainland Europe to Northeastern Canada and Greenland. Though virus diffusion rates were similar among avian taxonomic groups in Iceland, g</span>ulls act as recipients and not sources of IAVs to other avian hosts prior to onward migration. <span>These data identify patterns of virus movement in northern latitudes and inform future surveillance strategies related to seasonal and emergent IAVs with pandemic potential</span>.</p>
Influenza A virus liquid condensates can undergo pharmacological hardening
<p>Data generated and codes used for the publication titled "Influenza A virus liquid condensates can undergo pharmacological hardening"</p>
Antigen-specific memory NK cell responses against HIV and influenza utilize the NKG2/HLA-E axis
<p>For over a decade, multiple studies have disputed the notion of natural killer (NK) cells as purely innate lymphocytes by demonstrating that they are capable of putative antigen-specific immunological memory against multiple infectious agents including two critical global health priorities – human immunodeficiency virus (HIV) and influenza. However, the mechanisms underlying antigen specificity remain unknown. Herein, we demonstrate that antigen-specific human NK cell memory develops upon exposure to both HIV and influenza, unified by a conserved and epitope-specific targetable mechanism largely dependent on the activating CD94/NKG2C receptor and its ligand HLA-E, and confirm these findings by three rigorous assays. We validated the permanent acquisition of antigen-specificity by individual memory NK cells by single-cell cloning. We identified biomarkers of antigen-specific NK cell memory through complex immunophenotyping by 30-parameter flow cytometry showing elevated expression of KLRG1, a4b7, and NKG2C. Finally, we show individual HLA-E-restricted peptides that may constitute the dominant NK cell response in HIV-1- and influenza-infected persons in vivo. Our findings clarify the mechanisms behind antigen-specific memory NK cell responses, and suggest they could be targeted for future vaccines, cure strategies, or other therapeutic interventions.</p>
Source ELISA data for the manuscript "Restrained expansion of the recall germinal center response as biomarker of protection for influenza vaccination in mice"
<p>This repository contains the source ELISA data for the manuscript "Restrained expansion of the recall germinal center response as biomarker of protection for influenza vaccination in mice" currently under review by PLOS ONE.</p> <p>It supports the following figures:</p> <p>Fig 4A: rHA ELISA data miniHA study.xlsx<br> Fig 4B: Competition ELISA data miniHA study.xlsx<br> S7 Fig: Competition ELISA data POC study.xlsx</p> <p> </p> <p>Files include Raw OD's per plate and reported values analysis. </p> <p> </p>
Excel mapping tool for 2019 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>
Out of the blue: Detection of a unique highly pathogenic avian influenza virus of subtype H7N5 in Germany: Data sets on phylogenetic analyses
<div> <p><span>In June 2024, a highly pathogenic avian influenza virus of subtype H7N5 was detected in a single laying hen holding in Germany. Closest relatives of the eight viral genome segments were among recent low pathogenic (LP) viruses from Asia and Europe. No further detections of this unique virus or its presumed LP precursor have been made in poultry or wild birds.</span></p> </div>
The Efficacy of Azithromycin in the Treatment of Influenza A infection: A Systematic Review
<p>Background:</p> <p>The WHO recommendation against the use of macrolides reflects the little low-quality evidence about the effect of azithromycin (AZ) on influenza A infection. Considering recent reports about AZ use despite the WHO's unfavorable recommendations, we aimed to test the evidence for the usage of AZ in the treatment of influenza A infection.</p> <p>Methods:</p> <p>Various online databases were searched till August 2023 and thorough text and evidence evaluation resulted in selecting 7 studies.</p> <p>Results:</p> <p>The selected reports included randomized control trials (two), cohort (three), case/control (one) studies, and one case report. Pooling of the results was unattainable due to the variability among studies in patient criteria, study outcomes, and study designs. Based on the limited reports with insufficient evidence, a recommendation for the use of AZ in the treatment regimen was not possible despite the associated reduction in inflammatory cytokines by AZ administration and the absence of significant adverse effects or mortality in hospital-admitted or ICU patients. While these findings support the current guidelines for the treatment of influenza A infection, the evidence behind these guidelines and treatment characteristics were illustrated.</p> <p>Conclusion:</p> <p>AZ shows a potential symptom improvement and pro-inflammatory laboratory indices in influenza A patients. Another positive aspect is the absence of complications associated with AZ administration to critically ill patients and acceptable prognosis. However, it is crucial to have more quality research on this matter that focuses on the indication of the use of AZ, and the timing of initiation, dosage, and duration of treatment while monitoring adverse events.</p>
Avian influenza markers
<p><span>The spreadsheets summarizing the identified AIV zoonotic markers </span></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 - Cyprus
<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 - Iceland
<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 - Estonia
<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 - Croatia
<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>
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)
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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.