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Sample GSM692116 Query DataSets for GSM692116
Status Public on Mar 15, 2011
Title Donor 1 - RV16
Sample type RNA
 
Source name Human bronchial epithelial cells - 24 h RV16
Organism Homo sapiens
Characteristics donor: 1
tissue: bronchi
cell type: epithelial cell
growth: primary cultures
stress: RV16
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 Hydrocortisone was withdrawn from the medium for the last 24 h before stimulation.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 RV16 infection
Sample 1B
EA09124_102513_H133+_1B.CHP
EA09124_102513_H133+_1B.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 1735.55 P 6.02111e-05
AFFX-BioB-M_at 3236.87 P 4.42873e-05
AFFX-BioB-3_at 1991.33 P 4.42873e-05
AFFX-BioC-5_at 4881.91 P 4.42873e-05
AFFX-BioC-3_at 5549.04 P 4.42873e-05
AFFX-BioDn-5_at 20138.2 P 4.42873e-05
AFFX-BioDn-3_at 31684.5 P 4.42873e-05
AFFX-CreX-5_at 74493.7 P 4.42873e-05
AFFX-CreX-3_at 77909.3 P 4.42873e-05
AFFX-DapX-5_at 19.7855 A 0.300591
AFFX-DapX-M_at 38.6153 A 0.455405
AFFX-DapX-3_at 6.17091 A 0.910541
AFFX-LysX-5_at 22.0356 A 0.455413
AFFX-LysX-M_at 47.8463 A 0.139482
AFFX-LysX-3_at 30.8143 A 0.287743
AFFX-PheX-5_at 21.3768 A 0.5
AFFX-PheX-M_at 22.7516 A 0.724854
AFFX-PheX-3_at 62.8394 A 0.262827
AFFX-ThrX-5_at 28.7921 A 0.313708
AFFX-ThrX-M_at 8.94684 A 0.52976

Total number of rows: 54675

Table truncated, full table size 1631 Kbytes.




Supplementary file Size Download File type/resource
GSM692116.CEL.gz 4.5 Mb (ftp)(http) CEL
GSM692116.CHP.gz 301.1 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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