|
| Status |
Public on Nov 15, 2008 |
| Title |
Myd88-/-Trif-/-, Lp03, T=4 hours |
| Sample type |
RNA |
| |
|
| Source name |
bone marrow-derived macrophages
|
| Organism |
Mus musculus |
| Characteristics |
Myd88-/-Trif-/- bone marrow-derived macrophages, Lp03, T=4 hours
|
| Treatment protocol |
Macrophages were infected with WT (Lp02) or dotA mutant (Lp03) L. pneumophila for 4 hours at an MOI=25
|
| Growth protocol |
Macrophages were derived from bone marrow treated with M-CSF for 7 days
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNAbee reagent extraction of total RNA was performed according to manufactuer's protocol. RNA was further purified using the Qiagen RNeasy kit. Quality of total RNA was evaluated by A260/A280 ratio and by electrophoresis on the Agilent Bioanalyzer.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the recommended Affymetrix protocol from 5 ug total RNA.
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix Mouse 430 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station and stained with streptavidin phycoerythrin.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
|
| Description |
Myd88-/-Trif-/- bone marrow derived macrophages, Lp03, T=4 hours
|
| Data processing |
The data were analyzedusing Affymetrix GeneChip Operating Software (GCOS) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
|
| |
|
| Submission date |
Oct 10, 2008 |
| Last update date |
Aug 02, 2019 |
| Contact name |
Sunny Shin |
| E-mail(s) |
sunny.shin@yale.edu
|
| Phone |
203-737-2409
|
| Organization name |
Yale University School of Medicine
|
| Department |
Section of Microbial Pathogenesis
|
| Lab |
Roy Lab
|
| Street address |
295 Congress Ave.
|
| City |
New Haven |
| State/province |
CT |
| ZIP/Postal code |
06519 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (1) |
| GSE13147 |
Myd88, Trif, and Rip2-independent macrophage responses to Legionella pneumophila |
|
| Relations |
| Reanalyzed by |
GSE119085 |
| Reanalyzed by |
GSE135324 |
