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Status
Public on Nov 21, 2006
Title
small airways, non-smoker 008, RMA and MAS
Sample type
RNA
Source name
airway epithelial cells obtained by bronchoscopy and brushing
Organism
Homo sapiens Characteristics
age: 36
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 008, 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 (16)
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
GSE13931 Disparate Oxidant-related Gene Expression of Human Small Airway Epithelium Compared to Autologous Alveolar Macrophages
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
2495.1343
8018.5522
P
2.19E-04
1053_at
80.8971
318.65366
P
0.002616955
117_at
32.034077
75.73305
M
0.054470435
121_at
209.50308
537.21857
P
0.001141097
1255_g_at
9.7761135
10.908805
A
0.67916995
1294_at
302.6745
797.53796
P
6.73E-04
1316_at
45.700108
117.96147
P
0.004862762
1320_at
41.606323
211.08359
A
0.089405015
1405_i_at
120.11754
436.1207
P
6.13E-04
1431_at
16.199638
114.2383
P
0.003584867
1438_at
75.78728
222.13806
P
0.003584867
1487_at
160.55103
669.7477
P
0.009985438
1494_f_at
207.58447
775.9711
P
6.73E-04
1552256_a_at
71.52559
175.57986
P
0.0302734
1552257_a_at
173.00885
645.49255
P
0.0012207
1552258_at
20.928442
96.262054
A
0.0952148
1552261_at
178.26631
791.42096
P
2.44E-04
1552263_at
58.936035
258.4747
P
7.32E-04
1552264_a_at
319.59988
822.10474
P
2.44E-04
1552266_at
18.249107
80.48417
P
0.00415039
54675 2210 Kbytes .Supplementary file Size Download File type/resource GSM101104.CEL.gz
8.2 Mb
(ftp) (http) CEL
GSM101104.CHP.gz
13.4 Mb
(ftp) (http) CHP
Processed data included within Sample table Processed data provided as supplementary file
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