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| Status |
Public on Aug 27, 2009 |
| Title |
Trachea Epithelium as a “ Canary” for Cigarette Smoking-induced Biologic Phenotype of Small Airway Epithelium |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
The initial site of smoking-induced lung disease is the small airway epithelium, which is difficult and time consuming to sample by fiberoptic bronchoscopy. We developed a rapid, office-based procedure to obtain trachea epithelium without conscious sedation from healthy nonsmokers (n=26) and healthy smokers (n=19, 27 ± 15 pack-yr). Gene expression differences [fold-change >1.5, p< 0.01, Benjamini-Hochberg correction] were assessed with Affymetrix microarrays. 1,057 probe sets were differentially expressed in healthy smokers vs nonsmokers, representing >500 genes. Trachea gene expression was compared to an independent group of small airway epithelial samples (n=23 healthy nonsmokers, n=19 healthy smokers, 25 ± 12 pack-yr). The trachea epithelium is more sensitive to smoking, responding with 3-fold more differentially-expressed genes than small airway epithelium. The trachea transcriptome paralleled the small airway epithelium, with 156 of 167 (93%) genes that are significantly up- and down-regulated by smoking in the small airway epithelium showing similar direction and magnitude of response to smoking in the trachea. Trachea epithelium can be obtained without conscious sedation, representing a less invasive surrogate “canary” for smoking-induced changes in the small airway epithelium. This should prove useful in epidemiologic studies correlating gene expression with clinical outcome in assessing smoking-induced lung disease.
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| Overall design |
Tracheal gene expression: matched group of small airway epithelial samples (n=23 healthy non-smokers, n= 19 healthy smokers)
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| Contributor(s) |
Turetz ML, O'Connor TP, Tilley AE, Strulovici-Barel Y, Salit J, Dang D, Teater M, Masey J, Clark AG, Crystal RG |
| Citation(s) |
20443905 |
| |
| Submission date |
Dec 12, 2008 |
| Last update date |
Mar 25, 2019 |
| Contact name |
Yael Strulovici-Barel |
| E-mail(s) |
yas2003@med.cornell.edu
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| Organization name |
Weill Cornell Medical College
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| Department |
Department of Genetic Medicine
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| Lab |
Crystal
|
| Street address |
1300 York Avenue
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| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10021 |
| Country |
USA |
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| Platforms (1) |
| GPL570 |
[HG-U133_Plus_2] Affymetrix Human Genome U133 Plus 2.0 Array |
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| Samples (87)
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| GSM252856 |
small airways, non-smoker 002 |
| GSM252857 |
small airways, non-smoker 003 |
| GSM252860 |
small airways, non-smoker 006 |
| GSM252861 |
small airways, non-smoker 008 |
| GSM252863 |
small airways, non-smoker 014 |
| GSM252865 |
small airways, non-smoker 019 |
| GSM252867 |
small airways, non-smoker 035 |
| GSM252871 |
small airways, smoker 040 |
| GSM252872 |
small airways, smoker 041 |
| GSM252874 |
small airways, smoker 048 |
| GSM252876 |
small airways, smoker 057 |
| GSM252879 |
small airways, smoker 074 |
| GSM252881 |
small airways, smoker 094 |
| GSM252882 |
small airways, smoker 095 |
| GSM252884 |
small airways, smoker 098 |
| GSM252885 |
small airways, smoker 103 |
| GSM254151 |
small airways, non-smoker 071 |
| GSM254152 |
small airways, non-smoker 078 |
| GSM254157 |
small airways, smoker 112 |
| GSM298220 |
small airways, non-smoker 046 |
| GSM298224 |
small airways, non-smoker 055 |
| GSM298226 |
small airways, non-smoker 072 |
| GSM298227 |
small airways, non-smoker 076 |
| GSM298228 |
small airways, non-smoker 080 |
| GSM298235 |
small airways, smoker 125 |
| GSM298236 |
small airways, smoker 129 |
| GSM298240 |
small airways, smoker 141 |
| GSM298243 |
small airways, smoker 161 |
| GSM298245 |
small airways, smoker 167 |
| GSM300859 |
small airways, non-smoker 085 |
| GSM300881 |
trachea, non-smoker 004 |
| GSM300882 |
trachea, non-smoker 005 |
| GSM300883 |
trachea, non-smoker 011 |
| GSM300884 |
trachea, non-smoker 015 |
| GSM300885 |
trachea, non-smoker 021 |
| GSM300886 |
trachea, non-smoker 022 |
| GSM300887 |
trachea, non-smoker 023 |
| GSM300888 |
trachea, non-smoker 029 |
| GSM300889 |
trachea, non-smoker 036 |
| GSM300890 |
trachea, non-smoker 039 |
| GSM300893 |
trachea, non-smoker 047 |
| GSM300894 |
trachea, non-smoker 048 |
| GSM300895 |
trachea, non-smoker 050 |
| GSM300896 |
trachea, non-smoker 059 |
| GSM300897 |
trachea, non-smoker 066 |
| GSM300900 |
trachea, smoker 058 |
| GSM300905 |
trachea, smoker 120 |
| GSM300907 |
trachea, smoker 130 |
| GSM300910 |
trachea, smoker 152 |
| GSM300911 |
trachea, smoker 164 |
| GSM300912 |
trachea, smoker 186 |
| GSM350955 |
small airways, non-smoker 110 |
| GSM350956 |
small airways, non-smoker 118 |
| GSM350957 |
small airways, smoker 208 |
| GSM350958 |
small airways, smoker 246 |
| GSM350959 |
trachea, non-smoker 042 |
| GSM350960 |
trachea, non-smoker 045 |
| GSM350961 |
trachea, non-smoker 059_089 |
| GSM350962 |
trachea, non-smoker 060 |
| GSM350963 |
trachea, non-smoker 061 |
| GSM350964 |
trachea, non-smoker 064_094 |
| GSM350965 |
trachea, non-smoker 065 |
| GSM350966 |
trachea, non-smoker 074 |
| GSM350967 |
trachea, non-smoker 083 |
| GSM350968 |
trachea, non-smoker 088 |
| GSM350969 |
trachea, non-smoker 095 |
| GSM350970 |
trachea, smoker 114 |
| GSM350971 |
trachea, smoker 169 |
| GSM350972 |
trachea, smoker 176 |
| GSM350973 |
trachea, smoker 177 |
| GSM350974 |
trachea, smoker 179 |
| GSM350975 |
trachea, smoker 188 |
| GSM350976 |
trachea, smoker 203 |
| GSM350977 |
trachea, smoker 214 |
| GSM350978 |
trachea, smoker 215 |
| GSM350979 |
trachea, smoker 219 |
| GSM350980 |
trachea, smoker 220 |
| GSM350981 |
trachea, smoker 225 |
| GSM350982 |
trachea, smoker 250 |
| GSM410161 |
small airways, non-smoker 124 |
| GSM410162 |
small airways, non-smoker 138 |
| GSM410163 |
small airways, non-smoker 141 |
| GSM410164 |
small airways, smoker 241 |
| GSM410165 |
small airways, smoker 264 |
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| Relations |
| BioProject |
PRJNA110265 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE13933_RAW.tar |
1.8 Gb |
(http)(custom) |
TAR (of CEL, CHP) |
| Processed data included within Sample table |
| Processed data provided as supplementary file |
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