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Sample GSM692120 Query DataSets for GSM692120
Status Public on Mar 15, 2011
Title Donor 2 - RV16
Sample type RNA
 
Source name Human bronchial epithelial cells - 24 h RV16
Organism Homo sapiens
Characteristics donor: 2
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 Hydrocortisone was withdrawn from the medium for the last 24 h before stimulation.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 2B
EA09124_102517_H133+_2B.CHP
EA09124_102517_H133+_2B.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 889.464 P 0.000169227
AFFX-BioB-M_at 1563.76 P 6.02111e-05
AFFX-BioB-3_at 913.395 P 4.42873e-05
AFFX-BioC-5_at 2544.4 P 5.16732e-05
AFFX-BioC-3_at 3133.63 P 5.16732e-05
AFFX-BioDn-5_at 10760.8 P 4.42873e-05
AFFX-BioDn-3_at 17335.5 P 4.42873e-05
AFFX-CreX-5_at 43683.2 P 4.42873e-05
AFFX-CreX-3_at 54566.7 P 4.42873e-05
AFFX-DapX-5_at 12.23 A 0.559379
AFFX-DapX-M_at 39.8964 A 0.574038
AFFX-DapX-3_at 4.60953 A 0.971543
AFFX-LysX-5_at 3.42421 A 0.834139
AFFX-LysX-M_at 6.70886 A 0.891021
AFFX-LysX-3_at 1.64772 A 0.976081
AFFX-PheX-5_at 6.57787 A 0.891021
AFFX-PheX-M_at 9.81568 A 0.772364
AFFX-PheX-3_at 22.1929 A 0.672921
AFFX-ThrX-5_at 63.2121 A 0.368438
AFFX-ThrX-M_at 2.20329 A 0.852061

Total number of rows: 54675

Table truncated, full table size 1627 Kbytes.




Supplementary file Size Download File type/resource
GSM692120.CEL.gz 4.6 Mb (ftp)(http) CEL
GSM692120.CHP.gz 300.3 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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