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Sample GSM489044 Query DataSets for GSM489044
Status Public on Dec 23, 2009
Title WT-OVA-8-D1-1
Sample type RNA
 
Source name WT
Organism Mus musculus
Characteristics tissue: whole lung
genome/variation: WT
treatment group: OVA treated
treatment time: 1 d after last treatment
Treatment protocol WT or CC-LR mice were either challenged with NTHi lysate or sensitized to ovalbumin by intraperitoneal injection weekly for two weeks, then challenged for 30 min to an aerosol of ovalbumin in 0.9% saline weekly for eight weeks. Mice from each group were euthanized on day one after the last exposure for comparison. To reduce the lung leukocyte burden, the pulmonary vasculature was perfused and the airways lavaged with PBS.
Extracted molecule total RNA
Extraction protocol The lungs were mechanically homogenized, then total RNA was isolated from lung homogenates using the RNeasy system (Qiagen, Valencia, CA), and cRNA was synthesized and amplified from equal masses of total RNA using the Ilumina TotalPrep RNA amplification kit (Ambion, Austin, TX).
Label Cy3
Label protocol cRNA was hybridized to BeadChips prior to labeling with Cy3-Streptavidin per Illumina instructions.
 
Hybridization protocol cRNA was hybridized to BeadChips per Illumina instructions.
Scan protocol Chips were scanned using level 3 signal using a BeadStation 500 scanner.
Description WT, OVA treated
Data processing Data was processed using Illumina BeadStudio v3. Matrix tables were generated both without normalization and with rank invariant normalization, using sham group as the reference group. Values reported were derived using Illumina BeadStudio v3 and are relative signal intensity normalized to background.
 
Submission date Dec 22, 2009
Last update date Dec 22, 2009
Contact name Scott E Evans
E-mail(s) seevans@mdanderson.org
Organization name University of Texas-M.D. Anderson Cancer Center
Department Pulmonary Medicine - Box 403
Street address 1400 Holcombe Blvd
City Houston
State/province TX
ZIP/Postal code 77030
Country USA
 
Platform ID GPL6885
Series (1)
GSE19605 Specificity for the Nature of Inflammation in Lung Cancer Promotion in Mice

Data table header descriptions
ID_REF
VALUE rank invariant normalized (BeadStudio v3) signal intensity

Data table
ID_REF VALUE
ILMN_2896528 773.6349
ILMN_2721178 410.8252
ILMN_3033922 79.01765
ILMN_3092673 1761.21
ILMN_2816356 -63.83372
ILMN_2808939 323.3971
ILMN_2634564 595.0195
ILMN_2737647 78.35796
ILMN_2734484 -9.891747
ILMN_2952292 82.50554
ILMN_2699078 1.902771
ILMN_1213681 148.2265
ILMN_2735413 -34.68862
ILMN_2735415 -13.08209
ILMN_2891688 280.4597
ILMN_2637698 471.4159
ILMN_2674228 302.9915
ILMN_2601546 22.79515
ILMN_1230831 -53.63005
ILMN_2848071 6.820614

Total number of rows: 25697

Table truncated, full table size 559 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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