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5 results for “Intra-host”
Intra-host quasispecies reconstructions resemble inter-host variability in transmitted chronic Hepatitis B Virus strains (Dataset)
<p>Data used for publication "Intra-host quasispecies reconstructions resemble inter-host variability in transmitted chronic Hepatitis B Virus strains" submitted to the <em>Journal of Medical Virology</em>. Includes example code and selected sequence, tree, and data files.</p>
Intra-host single-genome sequences of SARS-CoV-2 spike from people without HIV and people living with HIV
<p>Supporting data and code for the study "Rapid Intra-host Diversification and Evolution of SARS-CoV-2 in Advanced HIV Infection" (2024) by Ko & Radecki et al.</p> <p>See <a href="https://github.com/niaid/UMI-pacbio-pipeline/releases/tag/SC2-HIV-demo">the GitHub</a> for demo of SGS and haplotype generation using example data from the study.</p> <p>Raw sequencing data are deposited at <a href="https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1055920">PRJNA1055920</a>.</p> <p>READMEs are available within individual folders and releases.</p>
Data from: Effects of genetic similarity on the life history strategy of co-infecting trematodes: are parasites capable of intra-host kin recognition?
Open the record for dataset details and reuse information.
Assessment of Hepatitis B Virus Intra-host Population and Host-specific Immune Marker Diversity
ClinicalTrials.gov study NCT02148562. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Dataset for "Vaccination Effects on SARS-CoV-2 Intra-Host Evolution During São Paulo's Delta and Omicron Waves"
<p><span>The COVID-19 pandemic, driven by SARS-CoV-2, has led to intensive vaccination campaigns worldwide. Despite widespread vaccination, the potential for vaccine escape variants necessitates ongoing research into the virus’s intra-host evolutionary dynamics. In this study we investigated the effects of vaccination on SARS-CoV-2 intra-host evolution during the Delta and Omicron waves in São Paulo, Brazil, analyzing 700 SARS-CoV-2 positive samples collected through the LabMovel initiative, from August 2021 to March 2022. Samples were categorized based on vaccination status (Unvaccinated, Spike protein-based vaccines, and Whole inactivated virus vaccine), enabling comparison of intra-host viral diversity across vaccinated and unvaccinated individuals for both Delta and Omicron VOCs. We evaluated intra-host genetic diversity by measuring intra-host single nucleotide variants (iSNVs), Faith's Phylogenetic Diversity (PD), and haplotype diversity using Normalized Shannon Entropy. For Delta, vaccinated groups exhibited higher haplotype diversity, yet no statistically significant difference was observed in the total number of iSNVs between vaccinated and unvaccinated individuals. Selective pressures in the Delta VOC showed neutral selection in vaccinated individuals, contrasting with purifying selection in unvaccinated individuals, though effect sizes were minimal. For Omicron, a bimodal distribution in Faith's PD across all groups suggests genetic drift events, aligning with Omicron’s rapid spread and high transmissibility. Observed intra-host diversity patterns were variant-specific, with Spike-based vaccines associated with a lower number of haplotypes in Omicron cases. These findings suggest that vaccination modulates SARS-CoV-2’s intra-host evolution, likely contributing to its mutational landscape in a variant-dependent manner. The results highlight variant-specific responses to vaccination, emphasizing the complex role of selective pressures in SARS-CoV-2 intra-host evolution. Our findings support ongoing genomic surveillance to understand vaccination's evolutionary impact on intra-host viral dynamics, particularly as new variants emerge.</span></p>
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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.