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185 results for “Serology”
Image-based & machine learning-guided multiplexed serology test for SARS-CoV-2
<p>Single-cell extracted imaging features created in project "Image-based & machine learning-guided multiplexed serology test for SARS-CoV-2". The dataset includes train (with annotations) and test features used in the manuscript. Four SARS-CoV-2 antigens (S, N, R, M) were imaged separately with serum samples presenting IgG, IgA and IgM antibodies.</p>
Supplementary dataset to publication: Approaching the complexity of Crimean-Congo hemorrhagic fever virus serology: a study in swine
<p>For the detection of anti-CCHFV antibodies in swine, we established a swine-specific in-house ELISA, indirect immunofluorescence assay and a virus neutralization test. Uploaded data contains sample performance in each test. Samples used in this study include swine serum samples from Germany and Spain.</p>
A common NFKB1 variant detected through antibody analysis in UK Biobank predicts risk of infection and allergy: Summary statistics - Serology
<p>Infectious agents contribute significantly to the global burden of diseases, through both acute infection and their chronic sequelae. We leveraged the UK Biobank to identify genetic loci that influence humoral immune response to multiple infections. From 45 genome-wide association studies in 9,611 participants from UK Biobank, we identified NFKB1 as a locus associated with quantitative antibody responses to multiple pathogens including those from the herpes, retro- and polyoma-virus families. An insertion-deletion variant thought to affect NFKB1 expression (rs28362491), was mapped as the likely causal variant. This variant has persisted throughout hominid evolution and could play a key role in regulation of the immune response. Using 121 infection and inflammation related traits in 487,297 UK Biobank participants, we show that the deletion allele was associated with an increased risk of infection from diverse pathogens but had a protective effect against allergic disease. We propose that altered expression of NFKB1, as a result of the deletion, modulates haematopoietic pathways, and likely impacts cell survival, antibody production, and inflammation. Taken together, we show that disruptions to the tightly regulated immune processes may tip the balance between exacerbated immune responses and allergy, or increased risk of infection and impaired resolution of inflammation. </p> <p>-------------------------------------------------------------------------------------</p> <p>This dataset contains GWAS summary statistics for quantitative antibody responses in 9611 individuals and results for a meta-analysis of UK Biobank and CoLaus/PsyCoLaus antibody responses.</p> <p> </p>
Fig. 2 in Besnoitia tarandi in Canadian woodland caribou - Isolation, characterization and suitability for serological tests
Fig. 2. Growth of Besnoitia besnoiti Bb-EvoraCl2 (triangles) and Besnoitia tarandi Bt-CA-Quebec1 (crosses) as assessed by real-time PCR on in-vitro cultivated MARC-145 cells 24, 48 or 72 h p.i. Linear regression revealed that B. tarandi BtCA-Quebec1 grew faster than B. besnoiti BbEvoraCl2.
Figure 1 in Serological prevalence of hepatitis B virus (HBV) in Mardan district, Khyber Pakhtunkhwa, Pakistan
Figure 1. Map of the Khyber Pakhtunkhwa (KP), Pakistan. The district Mardan in encircled, where the present study was conducted for determining the prevalence of active HCV infection and genotypic distribution in the year from 2017-2020.
Fig. 1 in Toxoplasma gondii exposure in arctic-nesting geese: A multi-state occupancy framework and comparison of serological assays
Fig. 1. Comparison of seroprevalence estimates for Ross's Geese and Lesser Snow Geese generated by naïve and multi-state occupancy estimators (seroprevalence = Ψ1 × Ψ2).
Fig. 1 in Serological evidence of Toxoplasma gondii infection in Melanosuchus niger (Spix, 1825) and Caimam crocodilus (Linnaeus, 1758)
Fig. 1. Venn diagram displaying positivity of alligator serum samples to Toxoplasma gondii analyzed by serological methods MAT and IHA.
Fig. 1 in Detection of Dirofilaria immitis via integrated serological and molecular analyses in coyotes from Texas, United States
Fig. 1. Texas locations where samples were collected, including Webb, Maverick, Jim Hogg, Haskell, Throckmorton, Hutchinson, Roberts, Reeves, and Loving counties.
Mapping SARS-CoV-2 antigenic relationships and serological responses
<p>During the SARS-CoV-2 pandemic, multiple variants escaping pre-existing immunity emerged, causing concerns about continued protection. Here, we use antigenic cartography to analyze patterns of cross-reactivity among a panel of 21 variants and 15 groups of human sera obtained following primary infection with 10 different variants or after mRNA-1273 or mRNA-1273.351 vaccination. We find antigenic differences among pre-Omicron variants caused by substitutions at spike protein positions 417, 452, 484, and 501. Quantifying changes in response breadth over time and with additional vaccine doses, our results show the largest increase between 4 weeks and >3 months post-2nd dose. We find changes in immunodominance of different spike regions depending on the variant an individual was first exposed to, with implications for variant risk assessment and vaccine strain selection.</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>
Supplementary data for article "Reduced B-cell antigenicity of Omicron lowers host serologic response"
<p>This repository contains five supplementary data files for the research article "<strong>Reduced B-cell antigenicity of Omicron lowers host serologic response</strong>". For more information, please refer to the article preprint https://doi.org/10.1101/2022.02.15.480546 and upcoming article at Cell Reports.</p> <p> </p> <ol> <li><strong>Table_hCoV229E.xlsx:</strong> list of hCoV229E RBD sequences, with associated isolate and collection date identifiers, and ScanNet antigenicity score for reproducing <strong>Figure 3A</strong>. Aligned sequences and templates are also provided.</li> <li><strong>table_artificial_variants.csv</strong>: List of artificial RBD sequences generated by an evolutionary-based sequence generative model for reproducing <strong>Figure 3B</strong>, <strong>Supplementary Figure S6H</strong>.</li> <li><strong>MSA_RBD.fasta:</strong> Multiple Sequence Alignment of RBD sequences and sample weights used for training the sequence generative model used in <strong>Figure 3B</strong>, <strong>Supplementary Figures S2C, S6</strong>.</li> <li><strong>table_antibody_hit_rate_RBD.csv</strong>: Empirical epitope distribution for the RBD, as determined from the Protein Data Bank and raw data for <strong>Supplementary Figure S1</strong>).</li> <li><strong>RBD_virtual_DMS.xlsx</strong>: virtual Deep Mutational Scan performed with ScanNet and the sequence generative model shown in <strong>Supplementary Figure S2</strong>.</li> </ol> <p> </p> <p> </p>
Multiplexed On-Yeast Serological Assay for Immune Escape Screening of SARS-CoV-2 Variants
<p>Experimental data and scripts used for the development of a Yeast-based serological Assay:</p> <ol> <li>The<strong> Python scripts</strong> folder includes all scripts used in this study to analyze sera titers and plotting data.</li> <li>The<strong> Raw data</strong> folder includes: <ol> <li>The Y<strong>east Immunoassay development</strong> folder includes the flow cytometric data for serum depletion and reduction of ligand depletion effects.</li> <li>The <strong>Yeast serological data folder</strong> includes the raw data of all tested sera and related data for their analyses.</li> </ol> </li> <li>The <strong>Snapgene plasmid maps </strong>folder includes the plasmid maps for the three SARS-CoV-2 VOCs for Snapgene.</li> </ol> <p> </p> <p> </p>
Serological Response to SARS-Cov-2 Virus in Personnel of the Institut Bergonié in the Context of the COVID-19 Pandemic
ClinicalTrials.gov study NCT04426006. IPD Sharing: NO. Countries: 1. Publications: 1.
Serologic Assay Validation, Proficiency Testing, Safety and Immunogenicity of Norovirus GI.1/GII.4 Bivalent Virus-Like Particle Vaccine
ClinicalTrials.gov study NCT02475278. IPD Sharing: Not stated. Countries: 1. Publications: 3.
Mapping SARS-CoV-2 antigenic relationships and serological responses
Open the record for dataset details and reuse information.
A method for characterizing disease emergence curves from paired pathogen detection and serology data
Open the record for dataset details and reuse information.
Serological dataset and R code for: Patterns and processes of pathogen exposure in gray wolves across North America
<p>The presence of many pathogens varies in a predictable manner with latitude, with infections decreasing from the equator towards the poles. We investigated the geographic trends of pathogens infecting a widely distributed carnivore: the gray wolf (<i>Canis lupus</i>). We compiled a large serological dataset of nearly 2000 wolves from 17 study areas, spanning 80º longitude and 50º latitude. Generalized linear mixed models were constructed to predict the probability of seropositivity of four important viruses: canine adenovirus, herpesvirus, parvovirus, and distemper virus – and two parasites: <i>Neospora caninum </i>and <i>Toxoplasma gondii</i>.</p> <p>Canine adenovirus and herpesvirus were the most widely distributed pathogens, whereas <i>N. caninum</i> was relatively uncommon. Canine parvovirus and distemper had high annual variation, with western populations experiencing more frequent outbreaks than eastern populations. Seroprevalence of all infections increased as wolves aged, and denser wolf populations had a greater risk of exposure. Probability of exposure was positively correlated with human density, suggesting that dogs and synanthropic animals may be important pathogen reservoirs. Pathogen exposure did not appear to follow a latitudinal gradient, with the exception of <i>N. caninum</i>. Instead, clustered study areas were more similar: wolves from the Great Lakes region had lower odds of exposure to the viruses, but higher odds of exposure to <i>N. caninum</i> and <i>T. gondii</i>; the opposite was true for wolves from the central Rocky Mountains. Overall, mechanistic predictors were more informative of seroprevalence trends than latitude and longitude. Individual host characteristics as well as inherent features of ecosystems determined pathogen exposure risk on a large scale.</p> <p>Here we provide the serological dataset and the R code used in Brandell et al. 2021. See the README file for a description of the dataset and generalized linear mixed models (GLMM); see Brandell et al. 2021 main text and Supplementary Information for additional information about data collection and cleaning, research permits, and variable descriptions and rationales.</p>
Serological surveillance of COVID-19 in the general population of Moldova
<p>Results of population-based age stratified seroepidemiological investigation in Moldova</p>
COVIDIAGNOSTIX - Health Technology Assessment in Covid serological diagnostics - Data OPBG
<p><strong>COVIDIAGNOSTIX - Health Technology Assessment in Covid serological diagnostics</strong>.</p> <p>SARS-COV-2 serologcal results, obtained in serial evaluations at 0,1,3,6 months from the first dose of anti-Sars-CoV-2 vaccine, in the healthcare workers of the Bambino Gesù Children' Hospital. The antibody dosage was performed with the Roche (anti-N and anti-S) and DiaSorin (anti-S Trimeric) assays.</p> <p><em><strong>COVID-2020-12371619 funded by the Italian Ministry of Health - </strong></em>Codice CUP C49C20000080001</p> <p> </p>
Clinical, Virological, Serological and Immunological Characteristics During and Following COVID-19 Hospitalization
ClinicalTrials.gov study NCT05274373. IPD Sharing: Not stated. Countries: 1. Publications: 1.
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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.