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Sample GSM101116 Query DataSets for GSM101116
Status Public on Nov 21, 2006
Title small airways, smoker 049, RMA and MAS
Sample type RNA
 
Source name airway epithelial cells obtained by bronchoscopy and brushing
Organism Homo sapiens
Characteristics age: 46
sex: F
ethnic group: black
smoking status: smoker, 23 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 small airways, smoker 049, RMA and MAS
Data processing The CEL files were generated using Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings
 
Submission date Mar 20, 2006
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 (15)
GSE4498 Expression data of small airway epithelium from phenotypically normal smokers and non-smokers
GSE5058 Airway epithelium, small airways, normal non-smokers, phenotypic normal smokers, smokers with COPD and early COPD
GSE5060 Airway epithelium, large and small airways, phenotypically normal smokers, non-smokers, early COPD and COPD
Relations
Reanalyzed by GSE60486
Reanalyzed by GSE119087

Data table header descriptions
ID_REF Probe set ID
VALUE Signal intensity derived from the CEL files, using RMA method
VALUE_MAS MAS5-calculated Signal intensity
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call

Data table
ID_REF VALUE VALUE_MAS ABS_CALL DETECTION P-VALUE
1007_s_at 2130.1326 7420.707 P 2.19E-04
1053_at 60.52254 236.26408 P 0.013091824
117_at 27.868433 61.376503 A 0.12764525
121_at 129.48018 414.2146 P 0.039365407
1255_g_at 9.235668 4.3978214 A 0.9686643
1294_at 197.72386 451.9632 P 3.88E-04
1316_at 48.81215 135.15686 P 0.001353854
1320_at 33.590454 14.729601 A 0.62181556
1405_i_at 55.789753 226.53183 P 9.44E-04
1431_at 10.242283 38.505222 A 0.107300945
1438_at 69.98383 166.14879 P 0.001353854
1487_at 106.82869 477.84012 P 0.031335693
1494_f_at 557.01263 2742.149 P 2.19E-04
1552256_a_at 56.341785 139.5018 P 0.0302734
1552257_a_at 146.60612 572.38184 P 0.00292969
1552258_at 15.181738 45.05166 A 0.334473
1552261_at 163.72269 725.3947 P 2.44E-04
1552263_at 78.92961 381.7365 P 2.44E-04
1552264_a_at 254.72876 726.25323 P 2.44E-04
1552266_at 16.287727 75.81754 P 0.00415039

Total number of rows: 54675

Table truncated, full table size 2209 Kbytes.




Supplementary file Size Download File type/resource
GSM101116.CEL.gz 8.0 Mb (ftp)(http) CEL
GSM101116.CHP.gz 13.2 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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