Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
12,799
datasets available to search
ShareScore release 0.9.0
Dataset results
12,799 results for “Immunization”
Engineering the plant intracellular immune receptor Sr50 to restore recognition of the AvrSr50 escape mutant
<p>The datasets for '<strong>Engineering the plant intracellular immune receptor Sr50 to restore recognition of the AvrSr50 escape mutant</strong><strong>'</strong>.</p> <p> </p> <p><strong>All_docking_models.zip</strong>: molecular docking models used to derive the initial structural hypothesis (Model I, Alternative models I and II). </p> <p><strong>Zdock1.AF2.zip</strong>: includes refined, relaxed structures of Model I. </p> <p><strong>Zdock5.AF2.zip</strong>: includes refined, relaxed structures of Alternative model II. </p> <p><strong>Zdock15.AF2.zip</strong>: includes refined, relaxed structures of Alternative moel I.</p> <p><strong>Model_II.zip</strong>: includes ColabDock outputs used as Model II.</p> <p><strong>Model_III.zip</strong>: includes ColabDock outputs used as Model III.</p> <p><strong>Model_IV.zip</strong>: includes ColabFold outputs used as Model IV.</p> <p><strong>Sr50*.AF.zip</strong>: predicted structures by ColabFold for the indicated pairs of the receptors and effectors. </p> <p> </p> <p>To read more about the workflow, please refer to https://github.com/s-kyungyong/Sr50-AvrSr50</p>
The fetal programming effect of maternal immune activation (MIA) on the offspring's immune system.
<h2>Online dataset: Cytokine profile of maternal immune activation (MIA) offspring</h2> <p>In preclinical animal maternal immune activation (MIA) models, alterations in the cytokine profiles were reported for MIA exposed offspring. This <strong>online dataset</strong> is a searchable spreadsheet provinding a more thorough summary of the cytokine profile observed in MIA exposed offspring. It includes the analyzed cytokines, the utilized animal model, age of the offspring and the specific tisssue/sample used from multiple studies.</p> <p>NA; Not affected -; not detected</p>
Inflammatory bowel disease and immune-mediated inflammatory diseases (IMID) therapy
<p>Immune-mediated inflammatory diseases (IMID) and inflammatory bowel diseases share therapeutic targets and approval drugs. This table tries to summarize shared therapeutic approval drugs</p> <p>Additional information can be found at www.ibd-eii.com</p>
Transcriptome profiling associated with CARD11 overexpres-sion in Colorectal Cancer implicates a potential role for Tumour Immune Microenvironment and Cancer pathways modulation via NF-κB
<p>Images for CARD11 study in IJMS</p>
Source data sets_Figure 1, 2, 6_Salmonella cancer therapy metabolically disrupts tumours at the collateral cost of T cell immunity
<p>Flow cytometry data files associated with Copland <em>et al., </em><strong><em><span>Salmonella </span></em></strong><strong><span>cancer therapy metabolically disrupts tumours at the collateral cost of T cell immunity.</span></strong></p> <p><span>Data associated to Figures 1, 2 and 6. <br></span></p>
PCOS Combined with Obesity Aggravates the Metabolic and Immune Abnormality in Females Supplement_2_Differentially_expressed_statistics_Metabolomics
<p><span>This table represents the data of Figure 3/4. In this table, we show all the metabolites measured. Meanwhile, we show the anion mode and the cation mode separately, and on this basis, we count the differential metabolites between different combinations of PO/PN/NPN/NPO.<br>Differential metabolites were screened by fold change &gt. 1.5 or less than 0.67.</span></p>
A Novel Quantitative Approach to Immune Condition in Sepsis
<p><span>This study investigates the immune condition in sepsis by analyzing the quantitative relationships among white blood cells, lymphocytes, and neutrophils in a total of <strong><span>512</span></strong><span> </span>samples, including <strong><span>180</span></strong><span> </span>sepsis patients and 205 healthy controls. The key formula identified,<span> </span><span>WBC = 1.</span></span><span>098</span><span> × Neutrophils + 1.04</span><span>6</span><span> × Lymphocytes + 0.</span><span>1645</span><span> (RMSE: 0.</span><span>5</span><span>%),</span><span> is universally applicable to all samples, despite differences in their spatial distributions. Self-organizing feature map (SOFM) was employed to automatically cluster the sepsis sample data in the three-dimensional space represented by this formula, yielding different immune states. This study provides a novel approach to understanding the immune condition in sepsis.</span></p>
Cross-tissue human fibroblast atlas reveals myofibroblast subtypes with distinct roles in immune modulation
<p>Fibroblast single-cell processed expression data and annotations used in the study "Cross-tissue human fibroblast atlas reveals myofibroblast subtypes with distinct roles in immune modulation"</p>
Single-cell atlas of circulating immune cells over the first two months of age in extremely premature infants
Open the record for dataset details and reuse information.
Immune Condition in Sepsis-ICMx
<p>The proposed mathematical model, represented by the equation above, reveals a basic constraint boundary on the immune cell populations in both sepsis patients and healthy controls. Furthermore, the SOFM clustering approach provides a comprehensive overview of the distinct immune states observed within this constraint boundary in sepsis patients. This study lays the foundation for future work on quantifying and categorizing the immune condition in sepsis, which may ultimately contribute to the development of more objective diagnostic and treatment strategies.</p>
Data from: Specific alleles at immune genes, rather than genome-wide heterozygosity, are related to immunity and survival in the critically endangered Attwater's prairie-chicken
The negative effects of inbreeding on fitness are serious concerns for populations of endangered species. Reduced fitness has been associated with lower genome-wide heterozygosity and immune gene diversity in the wild; however, it is rare that both types of genetic measures are included in the same study. Thus, it is often unclear whether the variation in fitness is due to the general effects of inbreeding, immunity-related genes or both. Here, we tested whether genome-wide heterozygosity (20 990 SNPs) and diversity at nine immune genes were better predictors of two measures of fitness (immune response and survival) in the endangered Attwater's prairie-chicken (Tympanuchus cupido attwateri). We found that postrelease survival of captive-bred birds was related to alleles of the innate (Toll-like receptors, TLRs) and adaptive (major histocompatibility complex, MHC) immune systems, but not to genome-wide heterozygosity. Likewise, we found that the immune response at the time of release was related to TLR and MHC alleles, and not to genome-wide heterozygosity. Overall, this study demonstrates that immune genes may serve as important genetic markers when monitoring fitness in inbred populations and that in some populations specific functional genes may be better predictors of fitness than genome-wide heterozygosity.
Data from: Larval environment alters amphibian immune defenses differentially across life stages and populations
Recent global declines, extirpations and extinctions of wildlife caused by newly emergent diseases highlight the need to improve our knowledge of common environmental factors that affect the strength of immune defense traits. To achieve this goal, we examined the influence of acidification and shading of the larval environment on amphibian skin-associated innate immune defense traits, pre and post-metamorphosis, across two populations of American Bullfrogs (Rana catesbeiana), a species known for its wide-ranging environmental tolerance and introduced global distribution. We assessed treatment effects on 1) skin-associated microbial communities and 2) post-metamorphic antimicrobial peptide (AMP) production and 3) AMP bioactivity against the fungal pathogen Batrachochytrium dendrobatidis (Bd). While habitat acidification did not affect survival, time to metamorphosis or juvenile mass, we found that a change in average pH from 7 to 6 caused a significant shift in the larval skin microbial community, an effect which disappeared after metamorphosis. Additionally, we found shifts in skin-associated microbial communities across life stages suggesting they are affected by the physiological or ecological changes associated with amphibian metamorphosis. Moreover, we found that post-metamorphic AMP production and bioactivity were significantly affected by the interactions between pH and shade treatments and interactive effects differed across populations. In contrast, there were no significant interactions between treatments on post-metamorphic microbial community structure suggesting that variation in AMPs did not affect microbial community structure within our study. Our findings indicate that commonly encountered variation in the larval environment (i.e. pond pH and degree of shading) can have both immediate and long-term effects on the amphibian innate immune defense traits. Our work suggests that the susceptibility of amphibians to emerging diseases could be related to variability in the larval environment and calls for research into the relative influence of potentially less benign anthropogenic environmental changes on innate immune defense traits.
Data from: Constitutive innate immunity of tropical House Wrens varies with season and reproductive activity
In lowland Neotropical regions, where air temperature and day length remain relatively constant year-round, seasonality is determined primarily by changes in rainfall. The wet season triggers the start of breeding for many Neotropical birds, but also alters the antigenic environment, likely increasing the risk of disease transmission. We explored two hypotheses about temporal variation in constitutive innate immunity of a Neotropical bird, the House Wren (Troglodytes aedon). One hypothesis proposes that Neotropical wrens up-regulate their immune function in the wet season either in anticipation of or in response to vectors that become more prevalent. A second hypotheses proposes that during periods of putative high resource demand, such as when parents are feeding young, immune function would be compromised and downregulated. Controlling for reproductive stage, we found that microbicidal capacity of blood against Escherichia coli was higher in the wet than the dry season, consistent with the antigen response hypothesis. Phagocytosis of E.coli and Staphylococcus aureus did not differ between wet and dry seasons. Microbicidal capacity and H/L-ration of tropical House Wrens did not vary among reproductive stages, and our data offered no support for the idea that immune function is compromised during the period when parents are feeding young.
Data from: Immune response genes and pathogen presence predict migration survival in wild salmon smolts
We present the first data to link physiological responses and pathogen presence with subsequent fate during migration of wild salmonid smolts. We tagged and non-lethally sampled gill tissue from sockeye salmon (Oncorhynchus nerka) smolts as they left their nursery lake (Chilko Lake, BC, Canada) to compare gene expression profiles and freshwater pathogen loads with migration success over the first ~1150 km of their migration to the North Pacific Ocean using acoustic telemetry. Fifteen percent of smolts were never detected again after release and these fish had gene expression profiles consistent with an immune response to one or more viral pathogens compared with fish that survived their freshwater migration. Among the significantly up-regulated genes of the fish that were never detected post-release were MX (Interferon-induced GTP-binding Protein Mx) and STAT1 (Signal transducer and activator of transcription 1-alpha/beta), which are characteristic of a type I interferon response to viral pathogens. The most commonly detected pathogen in the smolts leaving the nursery lake was infectious hematopoietic necrosis virus (IHNV). Collectively, these data show that some of the fish assumed to have died after leaving the nursery lake appeared to be responding to one or more viral pathogens and had elevated stress levels that could have contributed to some of the mortality shortly after release. We present the first evidence that changes in gene expression may be predictive of some of the fresh water migration mortality in wild salmonid smolts.
Innate and adaptive immune genes associated with MERS-CoV infection in dromedaries
<p>The recent SARS-CoV-2 pandemic has refocused attention to the betacoronaviruses, only eight years after the emergence of another zoonotic betacoronavirus, the Middle East respiratory syndrome coronavirus (MERS-CoV). While the wild source of SARS-CoV-2 may be disputed, for MERS-CoV, dromedaries are considered as source of zoonotic human infections. Testing 100 immune- response genes in 121 dromedaries from United Arab Emirates (UAE) for potential association with present MERS-CoV infection, we identified candidate genes with important functions in the adaptive, MHC-class I (HLA-A-24-like) and II (HLA-DPB1-like), and innate immune response (PTPN4, MAGOHB), and in cilia coating the respiratory tract (DNAH7). </p>
Supplemental tables for: A periventricular gradient of innate immune cell activation in Multiple Sclerosis
<p><span><span><span><span><span><span><span><span><span><span><span><b>Objectives:</b> To explore <i>in-vivo</i> innate immune cell activation as a function of the distance from ventricular CSF in patients with Multiple Sclerosis (MS) using [18F]-DPA714 PET, and to investigate its relationship with periventricular microstructural damage, evaluated by magnetization transfer ratio (MTR), and with trajectories of disability worsening.</span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span><b>Methods: </b>Thirty-seven MS patients and nineteen healthy controls underwent MRI and [18F]-DPA714 TSPO dynamic PET, from which individual maps of voxels characterized by innate immune cell activation (DPA+) were generated. White matter (WM) was divided in 3mm-thick concentric rings radiating from the ventricular surface toward the cortex, and the percentage of DPA+ voxels and mean MTR were extracted from each ring. Two-year trajectories of disability worsening were collected to identify patients with and without recent disability worsening.</span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span><b>Results: </b>The percentage of DPA+ voxels was higher in patients compared to controls in the periventricular WM (<span><span>p=6.10e-6</span></span>), and declined with increasing distance from ventricular surface, with a steeper gradient in patients compared to controls (<span><span>p=0.001</span></span>). This gradient was found both in periventricular lesions and normal-appearing WM. In the total WM, it correlated with a gradient of microstructural tissue damage measured by MTR (<span><span>r<sub>s</sub>=-0.65, p=1.0e-3</span></span>). When compared to clinically stable patients, patients with disability worsening were characterized <span><span>by a higher percentage of DPA+ voxels </span></span>in the periventricular normal-appearing WM (<span><span>p=0.025</span></span>).</span></span></span></span></span></span></span></span></span></span></span></p> <p><span><span><span><span><span><span><span><span><span><span><span><b>Conclusions: </b>Our results demonstrate that in MS the innate immune cell activation predominates in periventricular regions and associates with microstructural damage and disability worsening. This could result from the diffusion of pro-inflammatory CSF-derived factors into surrounding tissues.</span></span></span></span></span></span></span></span></span></span></span></p>
Immune Evasion and Epithelial-to-Mesenchymal Transition in Fallopian Tube as an Early Event for Ovarian Cancer Development in Women with Germline BRCA1 Mutation
<p>The single cell RNA-seq and TCR-seq data of BRCA1 mutation carriers and normal controls</p>
Data from: Pro-inflammatory immune response is linked to wintering habitat in a migratory shorebird
<p><span>Migratory shorebirds (Charadrii) show a strong dichotomy in their breeding and wintering strategies: Arctic-breeding species typically spend the wintering season in marine habitats, while more southerly breeding species tend to do so in freshwater habitats where pathogens and parasites, particularly vector-borne blood parasites, are generally more abundant. Thus, it has been hypothesized that the former group may reduce their investment in immunity, but experimental data supporting this hypothesis are lacking. Moreover, whether this contrasting habitat selection can shape investments in immunocompetence among populations within a species is uncertain. We experimentally tested the hypothesis that there is a significant association between habitat occupancy and the strength of a pro-inflammatory immune response in Dunlins <i>Calidris alpina</i>, a widely distributed long-distance migratory shorebird that breeds in (sub-)arctic areas and winters mainly, but not exclusively, in coastal habitats. Overwintering Dunlins occupying inland freshwater and marine habitats at a similar latitude were captured and acclimated under identical conditions in outdoor aviaries. After an acclimation period, they were challenged with phytohemagglutinin to assess the pro-inflammatory immune response and its associated energetic costs, measured by basal metabolic rate (BMR) and body mass changes. We found that freshwater Dunlins exhibited a higher (63%) pro-inflammatory immune response than marine Dunlins. Although this difference did not involve significant BMR changes, the time course of body mass response differed between freshwater and marine individuals. Our findings point to the existence of different pro-inflammatory immune and energetic strategies associated to the wintering habitat. These intraspecific differences are likely due to population adaptation rather than phenotypic plasticity, where not only disease risk but also physiological adaptations to different salinity levels could play an important role. </span></p>
Evidence for reduced immune gene diversity and activity during the evolution of termites
<p class="Normal tm5 tm6">This dataset contains data from a termite immunity related study described in the paper: "He Shulin, Sieksmeyer Thorben, Che Yanli, Mora M. Alejandra Esparza, Stiblik Petr, Banasiak Ronald, Harrison Mark C., Šobotník Jan, Wang Zongqing, Johnston Paul R. and McMahon Dino P. 2021Evidence for reduced immune gene diversity and activity during the evolution of termitesProc. R. Soc. B.288:20203168.http://doi.org/10.1098/rspb.2020.3168". </p> <p class="Normal tm5 tm6">The study investigates the evolution of termite molecular immune system: evolution of immune gene family along a constructed phylogeny, different individual immune response between three termite castes, a subsocial cockroach and a non-social cockroach, the caste specific expression of immune genes, different social immune response between a social termite species and a non-social cockroach species.</p> <p class="Normal tm5 tm6">In the first experiment, we de novo sequenced 18 cockroach and termite species, spanning the full spectrum of solitary and social lifestyles, including two solitary cockroach species, two species of subsocial <em><span class="tm7">Cryptocercus</span></em> wood-feeding cockroaches and 14 termite species. We exploited a transcriptomic approach to compare the immune gene repertoire of these sequenced species.</p> <p class="Normal tm5 tm6">In the second experiment, we compared individual immune responses in a solitary cockroach, <em><span class="tm7">B. orientalis</span></em>, a subsocial wood-feeding roach, <em><span class="tm7">Cryptocercus meridianus</span></em>, and each caste of a social termite, <em><span class="tm7">Neotermes castaneus</span></em>, following direct injection with heat-killed microbes.</p> <p class="Normal tm5 tm6">In the third experiment, we explored total gene expression differences between castes without immune challenge.</p> <p class="Normal tm5 tm6">In the fourth experiment, we studied gene expression changes in each caste of <em><span class="tm7">N. castaneus</span></em> following colony exposure to immune-challenged nestmates, and compared these with gene expression changes in the solitary cockroach, <em><span class="tm7">B. orientalis</span></em>, following group exposure to immune-challenged conspecifics.</p> <p class="Normal tm5 tm6">Main results of the experiments are that (1) immune gene families show contractions and expansions during temite evolution; (2) compared with cockroaches, termites showed weak individual immune response; (3) termites have caste-specific constitutive immunity; (4) Compared with cockroach, termite showed a stronger gene expression changes in response to a social immune challenge.</p>
Data from: Evolution of the immune system influences speciation rates in teleost fishes
Teleost fishes constitute the most species-rich vertebrate clade and exhibit extensive genetic and phenotypic variation, including diverse immune defense strategies. The genomic basis of a particularly aberrant strategy is exemplified by Atlantic cod, in which a loss of major histocompatibility complex (MHC) II functionality coincides with a marked expansion of MHC I genes. Through low-coverage genome sequencing (9–39×), assembly and comparative analyses for 66 teleost species, we show here that MHC II is missing in the entire Gadiformes lineage and thus was lost once in their common ancestor. In contrast, we find that MHC I gene expansions have occurred multiple times, both inside and outside this clade. Moreover, we identify an association between high MHC I copy number and elevated speciation rates using trait-dependent diversification models. Our results extend current understanding of the plasticity of the adaptive immune system and suggest an important role for immune-related genes in animal diversification.
ScienceDex guides
Understand access before you commit
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.