|
| Status |
Public on Sep 23, 2010 |
| Title |
IRAK2 deficient macrophages, untreated |
| Sample type |
RNA |
| |
|
| Source name |
bone marrow derived macrophages
|
| Organism |
Mus musculus |
| Characteristics |
gender: female
strain: 129/BL6
genotype/variation: IRAK2 knockout
agent: untreated
|
| Treatment protocol |
Bone marrow dericed macrophages were treated with CpG B (1ug/ml) or R848 (1ug/ml) for 2 hours
|
| Growth protocol |
Bone marrow cells were obtained from tibias and femurs by flushing with DMEM, and cultured in L929 cells-conditioned medium for 5 days for differentiation.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
total RNA was isolated from the treated or untreated bone marrow derived macrophages with TRIZOL following the protocol from manufacturer
|
| Label |
biotin
|
| Label protocol |
A single-round of in vitro transcription (IVT) amplification was carried out using the Illumina RNA Amplification Kit, manufactured by Ambion, Inc., to amplify mRNA and thus to obtain ample amounts of biotinylated cRNA to perform the whole human genome gene expression assay using the mouseRef-8 v2 expression beadchips micro-array (Illumina, San Diego, CA).
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Data processing |
Expression data normalization and differential expression analysis was handled through the Illumina BeadStudio Gene Expresson module V3.2. The data were first normalized by using the quantile normalization algorithm provided by Illumina Beadstudio and then the differential expression analyses were performed by using Illumina’s custom model.
|
| |
|
| Submission date |
Sep 22, 2010 |
| Last update date |
Sep 22, 2010 |
| Contact name |
Youzhong Wan |
| Organization name |
Cleveland Clinic Foundation
|
| Department |
Immunology
|
| Lab |
Xiaoxia Li
|
| Street address |
9500 Euclid Avenue, NE20
|
| City |
Cleveland |
| State/province |
OH |
| ZIP/Postal code |
44195 |
| Country |
USA |
| |
|
| Platform ID |
GPL6885 |
| Series (1) |
| GSE24264 |
CpG B and R848 induced gene expression in IRAK2 wildtype and deficient mouse macrophages |
|
