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E-GEOD-994 - Transcription profiling of human intra-pulmonary airways and buccal mucosa to identify the effects of cigarette smoke on the human airway epithelial cell transcriptome

Status
Submitted on 25 January 2004, released on 4 October 2007, last updated on 2 May 2014
Organism
Homo sapiens
Samples (74)
Array (1)
Protocols (4)
Description
A number of studies have shown that cigarette smoking produces a field defect, such that genetic mutations induced by smoking occur throughout the lung and its intra and extra-pulmonary airways. Based on this concept, we have begun this study, which has as its goal the definition of the normal airway transcriptome, an analysis of how that transcriptome is affected by cigarette smoke, and to explore the reversibility of altered gene expression when smoking has been discontinued. We have obtained brushings from intra-pulmonary airways (the right upper lobe carina) and scrapings from the buccal mucosa, from normal smoking and non-smoking volunteers (including 34 Current Smokers, 23 Never Smokers and 18 Former Smokers). RNA was isolated from these samples and gene expression profiles from intra-pulmonary airway epithelial cells were analyzed using Affymetrix U133A human gene expression arrays. All microarray data from the experiments described above have been stored, preprocessed and analyzed in a relational MySQL database that is accessible through our website at http://pulm.bumc.bu.edu/aged
Experiment types
transcription profiling by array, co-expression, stimulated type
Contact
Citation
Effects of cigarette smoke on the human airway epithelial cell transcriptome. Avrum Spira, Jennifer Beane, Vishal Shah, Gang Liu, Frank Schembri, Xuemei Yang, John Palma, Jerome S Brody. Proc Natl Acad Sci U S A 101(27):10143-8 (2004)
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-994.idf.txt
Sample and data relationshipE-GEOD-994.sdrf.txt
Raw data (2)E-GEOD-994.raw.1.zip, E-GEOD-994.raw.2.zip
Processed data (1)E-GEOD-994.processed.1.zip
Array designA-AFFY-33.adf.txt
R ExpressionSetE-GEOD-994.eSet.r
Links