Dataset - Omics, Proteomics, Transcriptomics, Metabolomics, Lipidomics Omics-Lethal Human Viruses, Influenza A Experiment IM103

Last updated on 2023-01-30T00:09:57+00:00 by LN Anderson

Influenza A Virus Experiment IM103

The purpose of this experiment was to evaluate the host response to wild-type Influenza A/Vietnam/1203/2004 (H5N1; "VN1203") virus infection and mock infection. Sample data was obtained for mouse lung tissue for mRNA, miRNA, proteomics, metabolomics, and lipidomics expression analysis. 

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. Leveraging unique high-resolution Omics capabilities for proteomics, metabolomics, lipidomics, and transcriptomics dataset downloads each have a direct relationship to a primary sample submission corresponding to a specific Influenza A virus infection.

Accessible Digital Data Downloads

Transcriptomics

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

Proteomics, Metabolomics, Lipidomics

1. Protein quantification by liquid chromatography mass spectrometry (LC-MS)
2. Metabolite quantification by gas chromatography mass spectrometry (GC-MS)
3. Lipid quantification by liquid chromatography mass spectrometry (LC-MS)

Reference Citation

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, Influenza A Experiment IM103. United States. 2021. PNNL DataHub (Web). DOI: 10.25584/LHVIM103/1661919

Linked Primary Data Accessions

NCBI BioProject (s):  PRJNA292023 (mRNA, ArrayStar), PRJNA292022 (miRNA, ArrayStar); PRJNA292712 (mRNA, AmbryGenetics), PRJNA294791 (miRNA, AmbryGenetics)

GEO Series: GSE71759 (ArrayStar - mRNA transcriptome response), GSE71760 (ArrayStar - miRNA transcriptome response); GSE72008 (AmbryGenetics - mRNA transcriptome response), GSE72365 (AmbryGenetics - miRNA transcriptome response)

MassIVE Accession(s): MSV000080027 (lipidome response), MSV000079469 (proteome response), MSV000079327 (metabolome 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-SA 4.0 (secondary dataset download DOIs), CC0 1.0 (project metadata and PNNL DataHub policy default)