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Sample GSM434056 Query DataSets for GSM434056
Status Public on Feb 02, 2011
Title small airways, smoker 256
Sample type RNA
 
Source name airway epithelial cells obtained by bronchoscopy and brushing
Organism Homo sapiens
Characteristics age: 29
sex: M
ethnic group: hispanic
smoking status: smoker, 27 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 no additional information
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 Jul 28, 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 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 1056.59 P 9.4506e-05
AFFX-BioB-M_at 2276.66 P 4.42873e-05
AFFX-BioB-3_at 1089.93 P 4.42873e-05
AFFX-BioC-5_at 3780.79 P 7.00668e-05
AFFX-BioC-3_at 5126.12 P 4.42873e-05
AFFX-BioDn-5_at 8348.63 P 4.42873e-05
AFFX-BioDn-3_at 13238.3 P 4.42873e-05
AFFX-CreX-5_at 52617.5 P 5.16732e-05
AFFX-CreX-3_at 54021.4 P 4.42873e-05
AFFX-DapX-5_at 18.796 A 0.52976
AFFX-DapX-M_at 32.8745 A 0.440646
AFFX-DapX-3_at 27.8733 A 0.852061
AFFX-LysX-5_at 6.03629 A 0.860538
AFFX-LysX-M_at 8.68847 A 0.978098
AFFX-LysX-3_at 44.5973 M 0.054198
AFFX-PheX-5_at 47.041 A 0.5
AFFX-PheX-M_at 5.5022 A 0.978098
AFFX-PheX-3_at 70.2068 A 0.52976
AFFX-ThrX-5_at 15.9943 A 0.760937
AFFX-ThrX-M_at 30.1063 A 0.425962

Total number of rows: 54675

Table truncated, full table size 1633 Kbytes.




Supplementary file Size Download File type/resource
GSM434056.CEL.gz 8.2 Mb (ftp)(http) CEL
GSM434056.CHP.gz 13.4 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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