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Series GSE89953 Query DataSets for GSE89953
Status Public on Apr 30, 2017
Title Transcriptomics of Human Alveolar Macrophages and Peripheral Blood Monocytes in Acute Respiratory Distress Syndrome
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Rationale: Serial measurements of genome-wide transcriptional changes in alveolar macrophages (AM) and peripheral blood monocytes (PBM) from patients with acute respiratory distress (ARDS) could clarify the biologic programs activated in ARDS and the relationship of these changes to clinical outcomes.
Objectives: To identify transcriptional programs activated in purified AM and PBM over the course of ARDS, and determine the relationship of these programs with patient outcomes.
Methods: We performed transcriptional profiling of total RNA isolated from AMs and PBMs purified from bronchoalveolar lavage fluid (BALF) and peripheral blood respectively, collected from patients (n = 26) with ARDS previously enrolled in a phase-II clinical trial. Cells were obtained at baseline (day 0) after enrollment.
Measurements and Main Results: Using an unbiased gene set enrichment analysis (GSEA), we found highly divergent patterns of gene expression in AMs and PBMs. Notably, immuno-inflammatory gene sets were enriched in AMs isolated on day 0 in those who survived and had more ventilator-free days (VFD); however, this association between inflammatory and immune gene sets and good outcomes was not seen in PBMs.
Conclusion: Transcriptional responses during ARDS are remarkably different between AMs and PBMs.
Rationale: Serial measurements of genome-wide transcriptional changes in alveolar macrophages (AM) and peripheral blood monocytes (PBM) from patients with acute respiratory distress (ARDS) could clarify the biologic programs activated in ARDS and the relationship of these changes to clinical outcomes.
Objectives: To identify transcriptional programs activated in purified AM and PBM over the course of ARDS, and determine the relationship of these programs with patient outcomes.
Methods: We performed transcriptional profiling of total RNA isolated from AMs and PBMs purified from bronchoalveolar lavage fluid and peripheral blood respectively, collected from patients (n = 26) with ARDS previously enrolled in a phase-II clinical trial. Cells were obtained at baseline (day 0) after enrollment.
Measurements and Main Results: Using an unbiased gene set enrichment analysis (GSEA), we found highly divergent patterns of gene expression in AMs and PBMs. Notably, immuno-inflammatory gene sets were enriched in AM isolated on day 0 in those who survived and had more ventilator-free days (VFD); however, this association between inflammatory and immune gene sets and good outcomes was not seen in PBMs. Conclusion: Transcriptional responses during ARDS are remarkably different between AM and PBM.
 
Overall design 1. Total RNA from human alveolar macrophages was isolated and hybridized to Illumina HumanRef-8 BeadChip (n = 26) 2. Total RNA from human peripheral monocytes was isolated and hybridized to Illumina HumanRef-8 BeadChip (n = 26)
 
Contributor(s) Gharib SA, Morrell ED
Citation(s) 28708019, 32343675, 36821369
Submission date Nov 16, 2016
Last update date May 12, 2023
Contact name Sina Gharib
E-mail(s) sagharib@uw.edu
Organization name University of Washington
Department Medicine
Street address 850 Republican St.
City Seattle
State/province WA
ZIP/Postal code 98109
Country USA
 
Platforms (1)
GPL6883 Illumina HumanRef-8 v3.0 expression beadchip
Samples (52)
GSM2544450 human AM from ARDS day 1 [AM_B1_10]
GSM2544451 human AM from ARDS day 1 [AM_B1_11]
GSM2544452 human AM from ARDS day 1 [AM_B1_15]
Relations
BioProject PRJNA354312

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
GSE89953_Non-normalized_data.txt.gz 4.6 Mb (ftp)(http) TXT
GSE89953_RAW.tar 3.9 Mb (http)(custom) TAR
Processed data included within Sample table

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