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150
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ShareScore release 0.9.0
Dataset results
150 results for “host microbiome”
Development of Non-invasive Methods to Study Gut Microbiome - Nutrition - Host Interactions
ClinicalTrials.gov study NCT05949411. IPD Sharing: YES. Countries: 1. Publications: 2.
The Effect of Leukocyte Dna mEthylation and micRoBIOME Diversity on Host Defense Mechanisms During Community-acquired Pneumonia (ELDER-BIOME)
ClinicalTrials.gov study NCT02928367. IPD Sharing: Not stated. Countries: 1. Publications: 3.
Sex-differential Host-microbiome CVD Risk - A Longitudinal Cohort Approach
ClinicalTrials.gov study NCT05334888. IPD Sharing: Not stated. Countries: 1. Publications: 3.
The Role of Synbiotics in Modulating Host Physiology Via the Gut Microbiome
ClinicalTrials.gov study NCT06480812. IPD Sharing: NO. Countries: 1. Publications: 1.
Parasites, niche modification and the host microbiome: A field survey of multiple parasites
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Data from: Land cover and forest connectivity alter the interactions among host, pathogen and skin microbiome
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Data from: Foliar-feeding insects acquire microbiomes from the soil rather than the host plant
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Phylogenetically under‐dispersed gut microbiomes are not correlated with host genomic heterozygosity in a genetically diverse reptile community
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Data from: Moving beyond the host: unravelling the skin microbiome of endangered Costa Rican amphibians
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Data from: Vaginal host immune-microbiome interactions in a cohort of primarily African-American women who ultimately underwent spontaneous preterm birth or delivered at term
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Data from: Gut microbiome composition and metabolomic profiles of wild western lowland gorillas (Gorilla gorilla gorilla) reflect host ecology
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Host genetics, phenotype and geography structure the microbiome of a foundational seaweed
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Host identity and symbiotic association affects the genetic and taxonomic diversity of the clownfish-hosting sea anemone microbiome
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Data from: The host response to the lung microbiome in Chromic Obstructive Pulmonary Disease
Rationale: The relatively sparse but diverse microbiome in human lungs may become less diverse in chronic obstructive pulmonary disease (COPD). This article examines the relationship of this microbiome to emphysematous tissue destruction, number of terminal bronchioles, infiltrating inflammatory cells, and host gene expression. Methods: Culture-independent pyrosequencing microbiome analysis was used to examine the V3–V5 regions of bacterial 16S ribosomal DNA in 40 samples of lung from 5 patients with COPD (Global Initiative for Chronic Obstructive Lung Disease [GOLD] stage 4) and 28 samples from 4 donors (controls). A second protocol based on the V1–V3 regions was used to verify the bacterial microbiome results. Within lung tissue samples the microbiome was compared with results of micro–computed tomography, infiltrating inflammatory cells measured by quantitative histology, and host gene expression. Measurements and Main Results: Ten operational taxonomic units (OTUs) was found sufficient to discriminate between control and GOLD stage 4 lung tissue, which included known pathogens such as Haemophilus influenzae. We also observed a decline in microbial diversity that was associated with emphysematous destruction, remodeling of the bronchiolar and alveolar tissue, and the infiltration of the tissue by CD4+ T cells. Specific OTUs were also associated with neutrophils, eosinophils, and B-cell infiltration (P < 0.05). The expression profiles of 859 genes and 235 genes were associated with either enrichment or reductions of Firmicutes and Proteobacteria, respectively, at a false discovery rate cutoff of less than 0.1. Conclusions: These results support the hypothesis that there is a host immune response to microorganisms within the lung microbiome that appears to contribute to the pathogenesis of COPD.
Data from: Microbiome interactions shape host fitness
Gut bacteria can affect key aspects of host fitness, such as development, fecundity, and lifespan, while the host, in turn, shapes the gut microbiome. However, it is unclear to what extent individual species versus community interactions within the microbiome are linked to host fitness. Here, we combinatorially dissect the natural microbiome of Drosophila melanogaster and reveal that interactions between bacteria shape host fitness through life history tradeoffs. Empirically, we made germ-free flies colonized with each possible combination of the five core species of fly gut bacteria. We measured the resulting bacterial community abundances and fly fitness traits, including development, reproduction, and lifespan. The fly gut promoted bacterial diversity, which, in turn, accelerated development, reproduction, and aging: Flies that reproduced more died sooner. From these measurements, we calculated the impact of bacterial interactions on fly fitness by adapting the mathematics of genetic epistasis to the microbiome. Development and fecundity converged with higher diversity, suggesting minimal dependence on interactions. However, host lifespan and microbiome abundances were highly dependent on interactions between bacterial species. Higher-order interactions (involving three, four, and five species) occurred in 13–44% of possible cases depending on the trait, with the same interactions affecting multiple traits, a reflection of the life history tradeoff. Overall, we found these interactions were frequently context-dependent and often had the same magnitude as individual species themselves, indicating that the interactions can be as important as the individual species in gut microbiomes.
Quantitative metaproteomics and activity-based protein profiling of patient fecal microbiomes identifies host and microbial serine-type endopeptidase activity associated with ulcerative colitis
<p>Supplemental files associated with patient ulcerative colitis metaproteomics study including protein fasta files, protein group (CD-HIT cluster) files, label free quantification output, de novo-database peptide comparison output tables, ComPIL database search output PSM files, 16S amplicon sequencing data, and Interproscan annotations.</p>
Effect of Bismuth Subsalicylate on the Gut Microbiome and Host Response in Healthy Adults
ClinicalTrials.gov study NCT05930197. IPD Sharing: NO. Countries: 1. Publications: 0.
Data from: The host response to the lung microbiome in Chromic Obstructive Pulmonary Disease
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Data from: Microbiome interactions shape host fitness
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Metabolic modeling reveals the aging-associated decline of host–microbiome metabolic interactions in mice
GEO Series GSE262290. Mus musculus. 156 samples. Type: Expression profiling by high throughput sequencing.
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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.