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Sample GSM252879 Query DataSets for GSM252879
Status Public on Jun 17, 2008
Title small airways, smoker 074
Sample type RNA
 
Source name airway epithelial cells obtained by bronchoscopy and brushing
Organism Homo sapiens
Characteristics age: 41
sex: M
ethnic group: black
smoking status: smoker, 20 pack-years
Extracted molecule total RNA
Extraction protocol Trizol extraction and RNAeasy clean-up of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1-2 microg total RNA (Expression Analysis Technical Manual, 701022 Rev.2, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U133 Plus 2.0. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the GeneChip Scanner 3000 7G.
Description Comparison of gene expression in airway epithelial cells of normal non-smokers, phenotypic normal smokers, smokers with early COPD, and smokers with COPD.
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
 
Submission date Dec 21, 2007
Last update date Aug 28, 2018
Contact name Yael Strulovici-Barel
E-mail(s) yas2003@med.cornell.edu
Organization name Weill Cornell Medical College
Department Department of Genetic Medicine
Lab Crystal
Street address 1300 York Avenue
City New York
State/province NY
ZIP/Postal code 10021
Country USA
 
Platform ID GPL570
Series (14)
GSE8545 Variability in Small Airway Epithelial Gene Expression Among Normal Smokers
GSE10006 Decreased Expression of Intelectin 1 in The Human Airway Epithelium of Smokers Compared to Nonsmokers
GSE11784 Biologic Phenotyping of the Human Small Airway Epithelial Response to Cigarette Smoking
Relations
Reanalyzed by GSE60486
Reanalyzed by GSE119087

Data table header descriptions
ID_REF
VALUE Signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 1398.48 P 7.00668e-05
AFFX-BioB-M_at 2690.37 P 4.42873e-05
AFFX-BioB-3_at 1299.25 P 4.42873e-05
AFFX-BioC-5_at 4187.89 P 5.16732e-05
AFFX-BioC-3_at 5197.82 P 4.42873e-05
AFFX-BioDn-5_at 11632.2 P 4.42873e-05
AFFX-BioDn-3_at 20877.1 P 4.42873e-05
AFFX-CreX-5_at 50832.4 P 5.16732e-05
AFFX-CreX-3_at 55283 P 4.42873e-05
AFFX-DapX-5_at 49.0114 A 0.123531
AFFX-DapX-M_at 4.79241 A 0.843268
AFFX-DapX-3_at 12.4726 A 0.672921
AFFX-LysX-5_at 58.1063 A 0.544587
AFFX-LysX-M_at 9.78185 A 0.81489
AFFX-LysX-3_at 56.5946 A 0.139482
AFFX-PheX-5_at 23.0081 A 0.574038
AFFX-PheX-M_at 6.95249 A 0.868639
AFFX-PheX-3_at 21.3834 A 0.699394
AFFX-ThrX-5_at 35.7261 A 0.58862
AFFX-ThrX-M_at 7.89977 A 0.712274

Total number of rows: 54675

Table truncated, full table size 1634 Kbytes.




Supplementary file Size Download File type/resource
GSM252879.CEL.gz 8.0 Mb (ftp)(http) CEL
GSM252879.CHP.gz 13.1 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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