A Meta-Analysis of Multiple Whole Blood Gene Expression Data Unveils a Diagnostic Host-Response Transcript Signature for Respiratory Syncytial Virus

International Journal of Molecular Sciences
Ruth Barral-ArcaAntonio Salas

Abstract

Respiratory syncytial virus (RSV) is one of the major causes of acute lower respiratory tract infection worldwide. The absence of a commercial vaccine and the limited success of current therapeutic strategies against RSV make further research necessary. We used a multi-cohort analysis approach to investigate host transcriptomic biomarkers and shed further light on the molecular mechanism underlying RSV-host interactions. We meta-analyzed seven transcriptome microarray studies from the public Gene Expression Omnibus (GEO) repository containing a total of 922 samples, including RSV, healthy controls, coronaviruses, enteroviruses, influenzas, rhinoviruses, and coinfections, from both adult and pediatric patients. We identified > 1500 genes differentially expressed when comparing the transcriptomes of RSV-infected patients against healthy controls. Functional enrichment analysis showed several pathways significantly altered, including immunologic response mediated by RSV infection, pattern recognition receptors, cell cycle, and olfactory signaling. In addition, we identified a minimal 17-transcript host signature specific for RSV infection by comparing transcriptomic profiles against other respiratory viruses. These multi-genic sig...Continue Reading

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Citations

Apr 25, 2020·International Journal of Molecular Sciences·Ruth Barral-ArcaAntonio Salas
Sep 28, 2020·The Lancet Infectious Diseases·Miriam Cebey-López, Antonio Salas
May 26, 2021·Proceedings of the National Academy of Sciences of the United States of America·Julia di IulioAmalio Telenti
Apr 15, 2021·American Journal of Physiology. Lung Cellular and Molecular Physiology·Ruchir GuptaSurender Rajasekaran
Nov 9, 2021·Frontiers in Cellular and Infection Microbiology·Mohamed OmarMohamed Tarek Badr

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Datasets Mentioned

BETA
GSE68310

Methods Mentioned

BETA
PCA
exome sequencing

Software Mentioned

COCONUT COmbat CO - Normalization Using
PReMS
R package limma
Oligo
Ingenuity pathway analysis ( IPA )
R package pROC
PANTHER Classification System
Reactome
Lumi
R

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