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Status
Public on Nov 21, 2006
Title
small airways, smoker 003, RMA and MAS
Sample type
RNA
Source name
airway epithelial cells obtained by bronchoscopy and brushing
Organism
Homo sapiens Characteristics
Age: 40
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 003, 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)
[email protected] 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 (4)
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
GSE11906 Quality Control in Microarray Assessment of Gene Expression in Human Airway Epithelium
Relations Reanalyzed by
GSE60486 Reanalyzed by
GSE64985 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
1844.3157
8127.1016
P
2.19E-04
1053_at
58.283974
268.56888
A
0.081336655
117_at
51.29215
201.01682
A
0.23455657
121_at
245.25555
870.0079
P
0.021866444
1255_g_at
9.965394
20.565271
A
0.58194417
1294_at
260.0716
799.25476
P
0.019303527
1316_at
64.96707
357.59772
P
0.001602293
1320_at
38.758583
36.70722
A
0.82401055
1405_i_at
1713.7075
8753.851
P
4.91E-04
1431_at
12.879954
13.796414
A
0.74931204
1438_at
83.82705
210.48763
A
0.15052709
1487_at
212.4144
1139.5914
A
0.107300945
1494_f_at
104.06515
386.3237
P
0.031335693
1552256_a_at
108.1328
563.536
A
0.111572
1552257_a_at
264.0733
1254.3112
P
0.00415039
1552258_at
24.082935
235.74817
A
0.246094
1552261_at
55.792095
187.64612
A
0.111572
1552263_at
72.16017
508.3686
P
0.0012207
1552264_a_at
134.06734
438.21448
P
0.00805664
1552266_at
17.410725
137.3322
A
0.303711
54675 2208 Kbytes .Supplementary file Size Download File type/resource GSM101108.CEL.gz
8.2 Mb
(ftp) (http) CEL
GSM101108.CHP.gz
13.2 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
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