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Sample GSM692123 Query DataSets for GSM692123
Status Public on Mar 15, 2011
Title Donor 3 - medium
Sample type RNA
 
Source name Human bronchial epithelial cells - 24h medium
Organism Homo sapiens
Characteristics donor: 3
tissue: bronchi
cell type: epithelial cell
growth: primary cultures
stress: medium
Treatment protocol Cells were exposed to medium alone, purified human rhinovirus type 16 (MOI = 1), cigarette smoke extract derived from research grade cigarettes, or rhinvorius + cigarette smoke extract for 24h.
Growth protocol Cells were grown on 6 well plates in Bronchial Epithelial Growth Medium (Lonza). Hydrocortisone was withdrawn from the medium for the last 24 h before stimulation. Stimulation and incubation were also performed in hydrocortisone-free medium.
Extracted molecule total RNA
Extraction protocol Trizol extractionof total RNA was performed according to manufacturer's instruction and DNase treated.
Label biotin
Label protocol Biotinylated cRNA were prepared using the Affymetrix GeneChip 3'IVT Express kit according to manufacturer's instructions.
 
Hybridization protocol Following framentation, 10 µg of cRNA were hybridized for 16 hr at 45°C on Affymetrix U133 plus 2.0 human GeneChips. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G.
Description Gene expression in response to medium
Sample 3A
EA09124_102520_H133+_3A.CHP
EA09124_102520_H133+_3A.CEL
Data processing The data were analyzed using Expression Console Software using Affymetrix default analysis settings.
 
Submission date Mar 15, 2011
Last update date Mar 15, 2011
Contact name David Proud
E-mail(s) dproud@ucalgary.ca
Organization name University of Calgary
Department Physiology & Pharmacology
Lab HRIC 4AC60
Street address 3330 Hospital DRive NW
City Calgary
State/province AB
ZIP/Postal code T2N 4N1
Country Canada
 
Platform ID GPL570
Series (1)
GSE27973 Human airway epithelial responses to rhinovirus infection and cigarette smoke extract alone and in combination

Data table header descriptions
ID_REF
VALUE MAS5.0 signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 1294.65 P 0.000126798
AFFX-BioB-M_at 2132.21 P 4.42873e-05
AFFX-BioB-3_at 1250.11 P 4.42873e-05
AFFX-BioC-5_at 3500.52 P 5.16732e-05
AFFX-BioC-3_at 4100.59 P 4.42873e-05
AFFX-BioDn-5_at 14201.5 P 4.42873e-05
AFFX-BioDn-3_at 22740.1 P 4.42873e-05
AFFX-CreX-5_at 60901.7 P 4.42873e-05
AFFX-CreX-3_at 63080 P 4.42873e-05
AFFX-DapX-5_at 5.68802 A 0.659352
AFFX-DapX-M_at 5.26303 A 0.672921
AFFX-DapX-3_at 4.9851 A 0.916408
AFFX-LysX-5_at 33.2404 A 0.470241
AFFX-LysX-M_at 8.09886 A 0.603116
AFFX-LysX-3_at 4.1744 A 0.81489
AFFX-PheX-5_at 8.81766 A 0.672935
AFFX-PheX-M_at 8.64926 A 0.760937
AFFX-PheX-3_at 44.7076 A 0.287743
AFFX-ThrX-5_at 15.9219 A 0.5
AFFX-ThrX-M_at 18.936 A 0.529765

Total number of rows: 54675

Table truncated, full table size 1633 Kbytes.




Supplementary file Size Download File type/resource
GSM692123.CEL.gz 4.5 Mb (ftp)(http) CEL
GSM692123.CHP.gz 300.4 Kb (ftp)(http) CHP
Raw data provided as supplementary file
Processed data included within Sample table
Processed data provided as supplementary file

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