Dataset - Omics, Transcriptomics Omics-Lethal Human Viruses, West Nile Experiment WGCN002

Last updated on 2024-02-11T22:41:43+00:00 by LN Anderson

West Nile Virus Experiment WGCN002

The purpose of this experiment was to evaluate the host response to West Nile virus (strain WNV-NY99) wild-type clone 382 and mutant 382-E218A virus infection. Sample data was obtained from mouse (strain C57BL/6J) granule cell neuron tissue for mRNA and miRNA expression analysis. See Experiment WGCN003 for corresponding independent biological replicate study conducted in the same conditions and processed independently. 

Secondary host-associated viral dataset downloads contain one or more statistically processed (normalization data transformation) quantitative dataset collections resulting in qualitative expression analyses of primary host-pathogen experimental study designs. Transcriptomics dataset downloads have a direct relationship to a primary sample submission corresponding to a specific West Nile virus (strain NY-99) infection.

Accessible Digital Data Downloads

Transcriptomics

1. Expression profiling by array (mRNA) 
2. Non-coding RNA profiling by array (miRNA)

Data Download Reference Citations

1. Anderson, Lindsey N, Eisfeld, Amie J, Waters, Katrina M, and Modeling Host Responses to Understand Severe Human Virus Infections Program Project. Omics-Lethal Human Viruses, West Nile Experiment WGCN002. United States. 2021. PNNL DataHub (Web). DOI: 10.25584/LHVWGCN002/1661957
2. Eisfeld, A.J., Anderson, L.N., Fan, S. et al. A compendium of multi-omics data illuminating host responses to lethal human virus infections. Sci Data 11, 328 (2024). https://doi.org/10.1038/s41597-024-03124-3

Linked Primary Data Accessions

NCBI BioProject(s): PRJNA282548 (mRNA), PRJNA282547 (miRNA)

GEO Series: GSE68380 (mRNA transcriptome response), GSE68381 (miRNA transcriptome response)

Acknowledgment of Federal Funding

The data described here was funded in whole or in part by the National Institute of Allergy and Infectious Diseases, of the National Institutes of Health under award number U19AI106772 and is a contribution of the "Modeling Host Responses to Understand Severe Human Virus Infections" Project at Pacific Northwest National Laboratory. Data generated by the Omics-LHV Core for proteomics, metabolomics, and lipidomics analyses for were performed at Pacific Northwest National Laboratory in the Environmental Molecular Sciences Laboratory, a national scientific user facility sponsored by the Department of Energy’s (DOE) Office, operating under the Battelle Memorial Institute for the DOE under contract number DE-AC05-76RLO1830. 

Citation Policy

In efforts to enable discovery, reproducibility, and reuse of NIH-funded project dataset citations, we ask that all reuse of project data and metadata download materials acknowledge all primary and secondary dataset citations where applicable and direct corresponding journal articles (Grant U19AI106772) where allowable in accordance with best practices outlined by the FORCE11 Joint Declaration of Data Citation Principles in alignment with NIH acknowledgement requirements.

Data Licensing

CC BY 4.0 (dataset DOI downloads), CC0 1.0 (PNNL DataHub policy default)