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105 results for “Omicron”
SARS-CoV-2 infection of Lung Organoids Reveals Conserved Use of Tetraspanin-8 by Ancestral-, Delta-, and Omicron- Variants
GEO Series GSE211562. Homo sapiens. 4 samples. Type: Expression profiling by high throughput sequencing.
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>
Simulation files - Reconstructing relative transmission rates in Bayesian phylodynamics: Two-fold transmission advantage of Omicron in Berlin, Germany during December 2021
<p>Simulation XML files and log files for scenarios 1–10. </p> <p>Ariane Weber, Sanni Översti, Denise Kühnert</p> <p>"Reconstructing relative transmission rates in Bayesian phylodynamics: Two-fold transmission advantage of Omicron in Berlin, Germany during December 2021" </p> <p><em>Virus Evolution</em>, Volume 9, Issue 2, 2023, vead070, https://doi.org/10.1093/ve/vead070 </p>
Two-component intranasal vaccine against SARS-CoV-2 Omicron variant
GEO Series GSE279004. Mus musculus. 6 samples. Type: Expression profiling by high throughput sequencing; Other.
Phytochemicals from AYUSH-64 screened against main protease and spike protein of Omicron variant of SARS-CoV-2 using ensemble docking and molecular dynamics approach
<p>Data for "Phytochemicals from AYUSH-64 screened against main protease and spike protein of Omicron variant of SARS-CoV-2 using ensemble docking and molecular dynamics approach" </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.