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Status
Public on Nov 21, 2006
Title
small airways, non-smoker 015, RMA and MAS
Sample type
RNA
Source name
airway epithelial cells obtained by bronchoscopy and brushing
Organism
Homo sapiens Characteristics
age: 38
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, non-smoker 015, 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 (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
GSE7832 Down-regulation of the Notch Differentiation Pathway in the Airway Epithelium of Normal Smokers and Smokers with COPD
GSE8545 Variability in Small Airway Epithelial Gene Expression Among Normal Smokers
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
GSE11952 Coordinate Control of Nrf2 Mediated Genes in the Human Small Airway Epithelium Highly Responsive to Smoking
GSE13932 Genetic Variability Modulation of SPOCK3 Gene Expression in the Human Small Airway Epithelium
GSE17905 Smoking-mediated Up-regulation of GAD67 Expression in the Human Airway Epithelium
GSE18385 Smoking-induced Up-regulation of AKR1B10 Expression in the Airway Epithelium of Healthy Individuals
GSE19407 Smoking-induced Wnt pathway downregulation
GSE20250 CNV Polymorphisms Modulate the Expression of GST Subtypes in the Human Small Airway Epithelium and Alveolar Macrophages
GSE20257 Smoking-induced Disarray of the Apical Junctional Complex Gene Expression Architecture in the Human Airway Epithelium
GSE21359 Association of CXCL14 in the Human Airway Epithelium with Chronic Obstructive Lung Disease and Lung Cancer
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
2635.774
7998.2793
P
2.19E-04
1053_at
71.81399
328.8446
P
0.004856669
117_at
26.152197
81.22038
A
0.16293502
121_at
160.58273
377.5138
P
0.011447392
1255_g_at
9.545353
19.462622
A
0.56163913
1294_at
261.15646
688.4465
P
2.66E-04
1316_at
46.167225
156.87448
P
0.011447392
1320_at
36.156536
99.51171
A
0.107300945
1405_i_at
159.67053
594.8694
P
4.91E-04
1431_at
13.372788
58.15216
P
0.019287288
1438_at
70.895744
264.9906
P
0.021866444
1487_at
140.29823
741.03503
P
0.007542912
1494_f_at
189.03387
723.00684
P
3.88E-04
1552256_a_at
70.202354
189.46652
P
0.0239258
1552257_a_at
144.76062
697.9938
P
2.44E-04
1552258_at
18.679098
136.23988
A
0.067627
1552261_at
136.51614
617.26495
P
7.32E-04
1552263_at
54.930286
180.18149
P
0.00195313
1552264_a_at
197.84619
554.8061
P
2.44E-04
1552266_at
12.810075
51.387077
A
0.171387
54675 2210 Kbytes .Supplementary file Size Download File type/resource GSM101105.CEL.gz
8.1 Mb
(ftp) (http) CEL
GSM101105.CHP.gz
13.4 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
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