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Sample GSM364046 Query DataSets for GSM364046
Status Public on Feb 02, 2011
Title small airways, smoker 226
Sample type RNA
 
Source name airway epithelial cells obtained by bronchoscopy and brushing
Organism Homo sapiens
Characteristics age: 48
sex: F
ethnic group: black
smoking status: smoker, 0.5 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 S-226_sm
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 Jan 23, 2009
Last update date Feb 02, 2011
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 (7)
GSE11784 Biologic Phenotyping of the Human Small Airway Epithelial Response to Cigarette Smoking
GSE17905 Smoking-mediated Up-regulation of GAD67 Expression in the Human Airway Epithelium
GSE18385 Smoking-induced Up-regulation of AKR1B10 Expression in the Airway Epithelium of Healthy Individuals

Data table header descriptions
ID_REF
VALUE MAS5-calculated signal intensity
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE p-value that indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 648.727 P 0.000662269
AFFX-BioB-M_at 1394.31 P 4.42873e-05
AFFX-BioB-3_at 854.277 P 4.42873e-05
AFFX-BioC-5_at 2277.5 P 0.000126798
AFFX-BioC-3_at 3338.23 P 5.16732e-05
AFFX-BioDn-5_at 4968.07 P 7.00668e-05
AFFX-BioDn-3_at 9517.12 P 7.00668e-05
AFFX-CreX-5_at 28472 P 5.16732e-05
AFFX-CreX-3_at 39258.6 P 4.42873e-05
AFFX-DapX-5_at 10.8453 A 0.645547
AFFX-DapX-M_at 51.2916 A 0.39692
AFFX-DapX-3_at 6.98471 A 0.921998
AFFX-LysX-5_at 7.88997 A 0.876428
AFFX-LysX-M_at 16.1618 A 0.876428
AFFX-LysX-3_at 63.0189 A 0.123572
AFFX-PheX-5_at 7.8502 A 0.631562
AFFX-PheX-M_at 6.0605 A 0.876428
AFFX-PheX-3_at 73.1242 A 0.275146
AFFX-ThrX-5_at 9.62795 A 0.916408
AFFX-ThrX-M_at 13.0953 A 0.699394

Total number of rows: 54675

Table truncated, full table size 1634 Kbytes.




Supplementary file Size Download File type/resource
GSM364046.CEL.gz 8.1 Mb (ftp)(http) CEL
GSM364046.CHP.gz 13.3 Mb (ftp)(http) CHP
Processed data provided as supplementary file
Processed data included within Sample table

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