|
| Status |
Public on Dec 23, 2009 |
| Title |
clock-428 |
| Sample type |
RNA |
| |
|
| Source name |
LR-CC
|
| Organism |
Mus musculus |
| Characteristics |
tissue: whole lung
genome/variation: LR-CC (a Clara cell-targeted K-ras mutant)
treatment group: NTHi 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 |
k-ras, NTHi 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 |
|
