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Sample GSM298219 Query DataSets for GSM298219
Status Public on Jul 13, 2009
Title small airways, non-smoker 039
Sample type RNA
 
Source name airway epithelial cells obtained by bronchoscopy and brushing
Organism Homo sapiens
Characteristics age: 44
sex: M
ethnic group: white
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 3 microg total RNA (Expression Analysis Technical Manual, 701022 Rev.2, Affymetrix).
 
Hybridization protocol Following fragmentation, 15 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 none
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 Jun 13, 2008
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 (10)
GSE11784 Biologic Phenotyping of the Human Small Airway Epithelial Response to Cigarette Smoking
GSE11906 Quality Control in Microarray Assessment of Gene Expression in Human Airway Epithelium
GSE11952 Coordinate Control of Nrf2 Mediated Genes in the Human Small Airway Epithelium Highly Responsive to Smoking

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 390.49 P 0.000662269
AFFX-BioB-M_at 548.727 P 7.00668e-05
AFFX-BioB-3_at 292.765 P 0.000169227
AFFX-BioC-5_at 377.294 P 0.000340305
AFFX-BioC-3_at 325.712 P 0.000126798
AFFX-BioDn-5_at 3054.45 P 5.16732e-05
AFFX-BioDn-3_at 5964.97 P 9.4506e-05
AFFX-CreX-5_at 17937.4 P 5.16732e-05
AFFX-CreX-3_at 22694.2 P 4.42873e-05
AFFX-DapX-5_at 48.9886 P 0.026111
AFFX-DapX-M_at 28.2792 A 0.300591
AFFX-DapX-3_at 18.4012 A 0.455413
AFFX-LysX-5_at 2.28523 A 0.852061
AFFX-LysX-M_at 4.04636 A 0.891021
AFFX-LysX-3_at 17.8869 A 0.175328
AFFX-PheX-5_at 8.02417 A 0.760937
AFFX-PheX-M_at 2.11903 A 0.945787
AFFX-PheX-3_at 8.95481 A 0.749204
AFFX-ThrX-5_at 4.87472 A 0.876428
AFFX-ThrX-M_at 19.7714 A 0.455409

Total number of rows: 54675

Table truncated, full table size 1642 Kbytes.




Supplementary file Size Download File type/resource
GSM298219.CEL.gz 8.2 Mb (ftp)(http) CEL
GSM298219.CHP.gz 13.5 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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