NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM252871 Query DataSets for GSM252871
Status Public on Dec 19, 2008
Title small airways, smoker 040
Sample type RNA
 
Source name airway epithelial cells obtained by bronchoscopy and brushing
Organism Homo sapiens
Characteristics age: 40
sex: M
ethnic group: black
smoking status: smoker, 24 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 Comparison of gene expression in airway epithelial cells of normal non-smokers, phenotypic normal smokers, smokers with early COPD, and smokers with COPD.
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 Dec 21, 2007
Last update date Aug 28, 2018
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 (12)
GSE10006 Decreased Expression of Intelectin 1 in The Human Airway Epithelium of Smokers Compared to Nonsmokers
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
Relations
Reanalyzed by GSE119087

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 1224.06 P 0.000146581
AFFX-BioB-M_at 1934.48 P 4.42873e-05
AFFX-BioB-3_at 1042.75 P 4.42873e-05
AFFX-BioC-5_at 2970.83 P 5.16732e-05
AFFX-BioC-3_at 3894.04 P 4.42873e-05
AFFX-BioDn-5_at 10028.7 P 4.42873e-05
AFFX-BioDn-3_at 14774 P 4.42873e-05
AFFX-CreX-5_at 40483 P 5.16732e-05
AFFX-CreX-3_at 41480.3 P 4.42873e-05
AFFX-DapX-5_at 51.8743 A 0.139482
AFFX-DapX-M_at 27.7906 A 0.712257
AFFX-DapX-3_at 8.80649 A 0.760937
AFFX-LysX-5_at 2.9125 A 0.941556
AFFX-LysX-M_at 27.0086 A 0.455413
AFFX-LysX-3_at 65.5206 P 0.0464816
AFFX-PheX-5_at 23.7591 A 0.712257
AFFX-PheX-M_at 7.55712 A 0.957038
AFFX-PheX-3_at 19.9876 A 0.631562
AFFX-ThrX-5_at 5.46806 A 0.916408
AFFX-ThrX-M_at 17.9328 A 0.617401

Total number of rows: 54675

Table truncated, full table size 1640 Kbytes.




Supplementary file Size Download File type/resource
GSM252871.CEL.gz 8.0 Mb (ftp)(http) CEL
GSM252871.CHP.gz 13.1 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap