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Status
Public on Nov 21, 2006
Title
small airways, smoker 033, RMA and MAS
Sample type
RNA
Source name
airway epithelial cells obtained by bronchoscopy and brushing
Organism
Homo sapiens Characteristics
Age: 43
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 033, 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 (7)
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
GSE8545 Variability in Small Airway Epithelial Gene Expression Among Normal Smokers
GSE11906 Quality Control in Microarray Assessment of Gene Expression in Human Airway Epithelium
GSE11952 Coordinate Control of Nrf2 Mediated Genes in the Human Small Airway Epithelium Highly Responsive to Smoking
GSE13931 Disparate Oxidant-related Gene Expression of Human Small Airway Epithelium Compared to Autologous Alveolar Macrophages
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
2466.5142
9606.531
P
2.19E-04
1053_at
89.27999
340.93402
P
0.043967802
117_at
43.022903
42.706623
A
0.60202307
121_at
168.56256
632.33594
P
0.008689182
1255_g_at
11.01684
60.046604
A
0.23455657
1294_at
261.3776
727.4289
P
0.002616955
1316_at
69.95351
238.23204
P
0.017000513
1320_at
44.16424
73.009705
A
0.56163913
1405_i_at
207.82782
1032.8022
P
9.44E-04
1431_at
10.647834
13.9387
A
0.8612349
1438_at
82.12917
171.62273
P
0.048994653
1487_at
240.77156
1066.3506
P
0.00653198
1494_f_at
125.48949
581.73145
P
0.004862762
1552256_a_at
106.615974
393.6133
M
0.0561523
1552257_a_at
225.33221
997.3573
P
2.44E-04
1552258_at
21.627756
58.364445
A
0.129639
1552261_at
71.48464
332.17667
P
0.00585938
1552263_at
48.85579
339.16373
P
0.00292969
1552264_a_at
173.77007
409.64297
P
7.32E-04
1552266_at
18.74079
117.42379
A
0.111572
54675 2208 Kbytes .Supplementary file Size Download File type/resource GSM101110.CEL.gz
8.8 Mb
(ftp) (http) CEL
GSM101110.CHP.gz
13.7 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
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