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Series GSE37058 Query DataSets for GSE37058
Status Public on Sep 27, 2012
Title Tobacco smoke exposure-related pathway gene expression signature in the bronchial airway epithelium
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Using primary human bronchial epithelial cells collected at bronchoscopy, we have perturbed signaling pathways important in regulation of response to tobacco smoke exposure and cancer development: ATM, BCL2, GPX1, NOS2, IKBKB, and SIRT1
Using gene expression profiles generated for each pathway and four independent gene expression datasets, we show that SIRT1 activity is significantly up-regulated in cytologically normal airway epithelial cells from active smokers compared to non-smokers; and in contrast, this activity is strikingly down-regulated in non-small cell lung cancer.
 
Overall design 52 samples were run on Affymetrix Human Exon 1.0 ST microarrays (n=7 for ATM, n=8 for GPX1, n=7 for SIRT1, n=7 for NOS2, n=7 for IKBKB, n=8 for BCL2, and n=8 for GFP). The CEL files were processed using RMA and the ENTREZ Gene CDF file. 13 samples were removed either because of a low Pearson correlation between samples (n=1 SIRT1 sample) or a strong batch effect (n=2 ATM, n=2 BCL2, n=2 GFP, n=2 GPX1, n=1 IKBKB, n=2 NOS2, n=1 SIRT1 samples) as determined by PCA.
 
Contributor(s) Beane J, Spira A, Bild A
Citation(s) 22986747
Submission date Apr 05, 2012
Last update date Jan 02, 2013
Contact name Avrum Spira
E-mail(s) aspira@lung.bumc.bu.edu
Phone 617-638-4860
Fax 617-536-8093
URL http://www.pulmonomics.org
Organization name Boston University Medical Center
Department Pulmonary and Critical Care Medicine
Lab Pulmonomics Lab
Street address 715 Albany Street, R304
City Boston
State/province MA
ZIP/Postal code 02118
Country USA
 
Platforms (1)
GPL10200 [HuEx-1_0-st] Affymetrix Human Exon 1.0 ST Array [CDF: Brainarray Version 11.0.1, HuEx10stv2_Hs_ENTREZG]
Samples (52)
GSM909489 Airway epithelial cells infected with ATM, biological replicate 1
GSM909490 Airway epithelial cells infected with ATM, biological replicate 2
GSM909491 Airway epithelial cells infected with ATM, biological replicate 3
Relations
BioProject PRJNA158397

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
GSE37058_RAW.tar 1.1 Gb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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