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Series GSE40012 Query DataSets for GSE40012
Status Public on Aug 15, 2012
Title Blood transcriptome of human bacterial and influenza A pneumonia
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Introduction: Diagnosis of severe influenza pneumonia remains challenging because of the lack of correlation between presence of influenza virus and patient’s clinical status. We conducted gene expression profiling in the whole blood of critically ill patients to identify a gene signature that would allow clinicians to distinguish influenza infection from other causes of severe respiratory failure (e.g. bacterial pneumonia, non-infective systemic inflammatory response syndrome). Methods: Whole blood samples were collected from critically ill individuals and assayed on Illumina HT-12 gene expression beadarrays. Differentially expressed genes were determined by linear mixed model analysis and over-represented biological pathways determined using GeneGo MetaCore. Results: The gene expression profile of H1N1 influenza A pneumonia was distinctly different from bacterial pneumonia and systemic inflammatory response syndrome. The influenza gene expression profile is characterized by up-regulation of genes from cell cycle regulation, apoptosis and DNA-damage response pathways. In contrast, no distinctive gene-expression signature was found in patients with bacterial pneumonia or systemic inflammatory response syndrome. The gene expression profile of influenza infection persisted through five days of follow-up. Furthermore, in patients with primary H1N1 influenza A infection who subsequently developed bacterial co-infection, the influenza gene-expression signature remained unaltered, despite the presence of a super-imposed bacterial infection. Conclusions: The whole blood expression profiling data indicates that the host response to influenza pneumonia is distinctly different from that caused by bacterial pathogens. This information may speed up identification of the cause of infection in patients presenting with severe respiratory failure, allowing appropriate patient care to be undertaken more rapidly.
 
Overall design Daily PAXgene samples for up to 5 days for; influenza A pneumonia patients (n=8), bacterial pneumonia patients (n=16), mixed bacterial and influenza A pneumonia patients (n=3), systemic inflammatory response patients (SIRS, n=13). Days 1 and 5 PAXgene samples for healthy control individuals
 
Contributor(s) Parnell GP, Tang BM
Citation(s) 22898401
Submission date Aug 09, 2012
Last update date Aug 16, 2018
Contact name Grant Parnell
E-mail(s) gpar3109@uni.sydney.edu.au
Organization name University of Sydney
Department Nepean Clinical School
Lab Intensive Care
Street address Nepean Hospital
City Kingswood
State/province NSW
ZIP/Postal code 2747
Country Australia
 
Platforms (1)
GPL6947 Illumina HumanHT-12 V3.0 expression beadchip
Samples (190)
GSM983403 PAXgene whole blood, SIRS,Day_3,ID=23
GSM983404 PAXgene whole blood, SIRS,Day_2,ID=23
GSM983405 PAXgene whole blood, SIRS,Day_1,ID=23
Relations
BioProject PRJNA172391

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE40012_RAW.tar 6.2 Mb (http)(custom) TAR
GSE40012_non-normalized.txt.gz 59.8 Mb (ftp)(http) TXT
Processed data included within Sample table
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