A curated collection of transcriptome datasets to study the transcriptional response in blood and nasal samples following viral respiratory inoculation and vaccination

Lan, Z.; Zhang, T.; Zhang, Y.; Sun, X.; Liu, C.; Liu, P.; Tang, M.; Fu, M.; Hagood, J. S.; Pickles, R. J.; Zou, F.; Zheng, X.

doi:10.1101/2024.09.23.614262

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bioRxiv · 10.1101/2024.09.23.614262

A curated collection of transcriptome datasets to study the transcriptional response in blood and nasal samples following viral respiratory inoculation and vaccination

Lan, Z.·Zhang, T.·Zhang, Y.·Sun, X.·Liu, C.·Liu, P.·Tang, M.·Fu, M.·Hagood, J. S.·Pickles, R. J.·Zou, F.·Zheng, X.

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Abstract

Our understanding of the human immune systems response to viral respiratory tract infections (VRTIs) and vaccines, including the molecular mechanisms and correlates of protection, remains incomplete. Extensive transcriptomic data from inoculation and vaccination studies have been deposited in publicly available databases. However, these studies are often separate and difficult to locate. We provide a curated compendium of public gene expression data repositories for researchers to reanalyze transcriptomes from human whole blood, peripheral blood mononuclear cells (PBMCs), and nasal swab samples. This enables the study of transcriptional responses to viral inoculation or vaccination. This collection includes 18 datasets from inoculation studies and 37 datasets from vaccination studies, sourced from the NCBI Gene Expression Omnibus (GEO), ImmPort Shared Data, and ArrayExpress.

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Lan, Z., Zhang, T., Zhang, Y., Sun, X., Liu, C., Liu, P., Tang, M., Fu, M., Hagood, J. S., Pickles, R. J., Zou, F., Zheng, X.. 2024-09-24. A curated collection of transcriptome datasets to study the transcriptional response in blood and nasal samples following viral respiratory inoculation and vaccination. https://doi.org/10.1101/2024.09.23.614262

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