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Sample GSM364041 Query DataSets for GSM364041
Status Public on Apr 20, 2011
Title small airways, COPD 162
Sample type RNA
 
Source name airway epithelial cells obtained by bronchoscopy and brushing
Organism Homo sapiens
Characteristics age: 45
sex: M
ethnic group: white
smoking status: COPD, GOLD-I, 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 COPD-162_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 Apr 20, 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 (5)
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
GSE19407 Smoking-induced Wnt pathway downregulation

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 550.566 P 0.0012475
AFFX-BioB-M_at 805.025 P 4.42873e-05
AFFX-BioB-3_at 457.975 P 7.00668e-05
AFFX-BioC-5_at 1600.03 P 0.000662269
AFFX-BioC-3_at 2004.5 P 4.42873e-05
AFFX-BioDn-5_at 3822.63 P 4.42873e-05
AFFX-BioDn-3_at 6962.17 P 7.00668e-05
AFFX-CreX-5_at 18388.8 P 5.16732e-05
AFFX-CreX-3_at 22462.9 P 4.42873e-05
AFFX-DapX-5_at 26.0827 A 0.382599
AFFX-DapX-M_at 45.972 A 0.559354
AFFX-DapX-3_at 20.099 A 0.724854
AFFX-LysX-5_at 37.5075 A 0.574038
AFFX-LysX-M_at 59.4045 A 0.574038
AFFX-LysX-3_at 39.3894 A 0.131361
AFFX-PheX-5_at 3.83987 A 0.963431
AFFX-PheX-M_at 4.83831 A 0.976071
AFFX-PheX-3_at 29.8703 A 0.699394
AFFX-ThrX-5_at 6.02029 A 0.932322
AFFX-ThrX-M_at 20.6237 A 0.617401

Total number of rows: 54675

Table truncated, full table size 1638 Kbytes.




Supplementary file Size Download File type/resource
GSM364041.CEL.gz 8.5 Mb (ftp)(http) CEL
GSM364041.CHP.gz 13.7 Mb (ftp)(http) CHP
Processed data provided as supplementary file
Processed data included within Sample table

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