|
| Status |
Public on Dec 17, 2013 |
| Title |
LPS_E3 |
| Sample type |
RNA |
| |
|
| Source name |
LPS
|
| Organism |
Mus musculus |
| Characteristics |
cell type: cultured peritoneal macrophages
|
| Treatment protocol |
Control and fatty acid-loaded macrophages (2 x 10e6/well) were treated with LPS (10 ng/ml) or vehicle for 24 hrs prior to extraction of the RNA as described above.
|
| Growth protocol |
Murine peritoneal macrophages, harvested 4 or 5 days after injecting 1.0 ml 3% Brewer’s thioglycollate (Beckton Dickenson/BBL) i.p., were allowed to adhere to plastic wells for 4-6 hours in complete RPMI (52). The cells were then washed twice with PBS and cultured further in DMEM without phenol red (Sigma D5030) that contained 0.5% low endotoxin fetal bovine serum (Hyclone), 1 g/L (5.5 mM) glucose, 44 mM NaHCO3, 1 mM sodium pyruvate, 2 mM L-glutamine, 100 U/ml penicillin G, and 100 µg/ml streptomycin (“cDMEM”).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with Trizol, followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the manufacturer’s protocol. Quality control was performed using the Agilent Bioanalyser.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the AB TotalPrep kit for Illumina arrays
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
Exp3: 6297001018_C
|
| Data processing |
The data were normalised using quantile normalisation with JMP/Genomics after dropping probes with detection p-value greater than 0.1 in all arrays.
|
| |
|
| Submission date |
Nov 09, 2012 |
| Last update date |
Dec 17, 2013 |
| Contact name |
Timothy G Myers |
| E-mail(s) |
[email protected]
|
| Organization name |
National Institute of Allergy and Infectious Diseases
|
| Department |
Research Technologies Branch
|
| Lab |
Genomic Technologies Section
|
| Street address |
50 South Drive, Room 5509
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892-8005 |
| Country |
USA |
| |
|
| Platform ID |
GPL6887 |
| Series (1) |
| GSE42190 |
Toll-like receptor 2 and 4 agonists prolong triglyceride retention in macrophages |
|
