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Sample GSM364048 Query DataSets for GSM364048
Status Public on Feb 02, 2011
Title small airways, smoker 240
Sample type RNA
 
Source name airway epithelial cells obtained by bronchoscopy and brushing
Organism Homo sapiens
Characteristics age: 47
sex: F
ethnic group: black
smoking status: smoker, 56.5 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-240_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 (8)
GSE11784 Biologic Phenotyping of the Human Small Airway Epithelial Response to Cigarette Smoking
GSE13932 Genetic Variability Modulation of SPOCK3 Gene Expression in the Human Small Airway Epithelium
GSE17905 Smoking-mediated Up-regulation of GAD67 Expression in the Human Airway Epithelium

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 617.704 P 0.000662269
AFFX-BioB-M_at 877.443 P 5.16732e-05
AFFX-BioB-3_at 546.168 P 7.00668e-05
AFFX-BioC-5_at 1430.24 P 0.000662269
AFFX-BioC-3_at 2223.92 P 4.42873e-05
AFFX-BioDn-5_at 3900.16 P 5.16732e-05
AFFX-BioDn-3_at 7159.07 P 0.000126798
AFFX-CreX-5_at 19675.1 P 5.16732e-05
AFFX-CreX-3_at 22485.5 P 4.42873e-05
AFFX-DapX-5_at 30.8654 A 0.250796
AFFX-DapX-M_at 37.9305 A 0.51489
AFFX-DapX-3_at 7.56548 A 0.804734
AFFX-LysX-5_at 3.93924 A 0.949771
AFFX-LysX-M_at 6.7291 A 0.824672
AFFX-LysX-3_at 28.223 A 0.300606
AFFX-PheX-5_at 10.7278 A 0.804734
AFFX-PheX-M_at 2.42441 A 0.984825
AFFX-PheX-3_at 63.6984 A 0.440646
AFFX-ThrX-5_at 18.1695 A 0.760937
AFFX-ThrX-M_at 7.13332 A 0.883887

Total number of rows: 54675

Table truncated, full table size 1637 Kbytes.




Supplementary file Size Download File type/resource
GSM364048.CEL.gz 8.4 Mb (ftp)(http) CEL
GSM364048.CHP.gz 13.6 Mb (ftp)(http) CHP
Processed data provided as supplementary file
Processed data included within Sample table

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