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Sample GSM298239 Query DataSets for GSM298239
Status Public on Jul 13, 2009
Title small airways, smoker 136
Sample type RNA
 
Source name airway epithelial cells obtained by bronchoscopy and brushing
Organism Homo sapiens
Characteristics age: 46
sex: M
ethnic group: hispanic
smoking status: smoker, 26 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 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 (11)
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 505.547 P 0.000856509
AFFX-BioB-M_at 732.822 P 7.00668e-05
AFFX-BioB-3_at 439.018 P 0.000753643
AFFX-BioC-5_at 1311.72 P 5.16732e-05
AFFX-BioC-3_at 1722.02 P 4.42873e-05
AFFX-BioDn-5_at 4261.5 P 4.42873e-05
AFFX-BioDn-3_at 7437.69 P 6.02111e-05
AFFX-CreX-5_at 18717.7 P 5.16732e-05
AFFX-CreX-3_at 22618.9 P 4.42873e-05
AFFX-DapX-5_at 60.3359 A 0.185131
AFFX-DapX-M_at 37.8904 A 0.544587
AFFX-DapX-3_at 12.4496 A 0.868639
AFFX-LysX-5_at 46.6875 A 0.340661
AFFX-LysX-M_at 19.8443 A 0.559354
AFFX-LysX-3_at 39.5218 P 0.0284573
AFFX-PheX-5_at 27.6478 A 0.617401
AFFX-PheX-M_at 3.76907 A 0.993129
AFFX-PheX-3_at 15.1879 A 0.631562
AFFX-ThrX-5_at 4.99342 A 0.963431
AFFX-ThrX-M_at 12.1266 A 0.904333

Total number of rows: 54675

Table truncated, full table size 1639 Kbytes.




Supplementary file Size Download File type/resource
GSM298239.CEL.gz 8.5 Mb (ftp)(http) CEL
GSM298239.CHP.gz 13.7 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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