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Sample GSM252855 Query DataSets for GSM252855
Status Public on Dec 19, 2008
Title small airways, non-smoker 001
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: non-smoker
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 Nov 12, 2009
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 (3)
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
GSE13933 Trachea Epithelium as a “ Canary” for Cigarette Smoking-induced Biologic Phenotype of Small Airway Epithelium

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 884.713 P 0.000258358
AFFX-BioB-M_at 1768.1 P 4.42873e-05
AFFX-BioB-3_at 816.692 P 0.000169227
AFFX-BioC-5_at 2611.28 P 6.02111e-05
AFFX-BioC-3_at 3323.93 P 4.42873e-05
AFFX-BioDn-5_at 4563.33 P 4.42873e-05
AFFX-BioDn-3_at 12768.7 P 4.42873e-05
AFFX-CreX-5_at 36922.9 P 4.42873e-05
AFFX-CreX-3_at 43254.1 P 4.42873e-05
AFFX-DapX-5_at 57.4658 A 0.227636
AFFX-DapX-M_at 14.9694 A 0.814869
AFFX-DapX-3_at 72.9411 A 0.645547
AFFX-LysX-5_at 9.76528 A 0.52976
AFFX-LysX-M_at 15.6197 A 0.804734
AFFX-LysX-3_at 60.0731 P 0.0365565
AFFX-PheX-5_at 14.2694 A 0.39692
AFFX-PheX-M_at 26.3643 A 0.794268
AFFX-PheX-3_at 72.2543 A 0.313723
AFFX-ThrX-5_at 7.92077 A 0.949771
AFFX-ThrX-M_at 76.5891 A 0.300606

Total number of rows: 54675

Table truncated, full table size 1631 Kbytes.




Supplementary file Size Download File type/resource
GSM252855.CEL.gz 8.0 Mb (ftp)(http) CEL
GSM252855.CHP.gz 13.2 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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