|
| Status |
Public on Dec 17, 2015 |
| Title |
BMDM-baseline-rep2 |
| Sample type |
RNA |
| |
|
| Source name |
bone marrow derived macrophage
|
| Organism |
Mus musculus |
| Characteristics |
gender: male
cell type: bone marrow derived macrophage
time: baseline
treatment: baseline
|
| Treatment protocol |
Samples were treated with 100nM dexamethasone (Sigma) for the indicated duration
|
| Growth protocol |
Bone marrow from 3 10 week old male C57BL/6 was extracted and differentiated in culture with 10% fetal calf serum and recombinant human CSF1 (10,000U/ml) for 1 week. They were then replated, again with serum and rhCSF1, at 0.5M cells/ml frot he time series.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the RNeasy kit (Qiagen) and quality assessed using an 2100 Bioanalyzer (Agilent )
|
| Label |
biotin
|
| Label protocol |
Standard affymetrix protocols, Performed by Edinburgh Genomics.
|
| |
|
| Hybridization protocol |
Standard affymetrix protocols using GeneTitan. Performed by Edinburgh Genomics.
|
| Scan protocol |
Standard affymetrix protocols using GeneTitan. Performed by Edinburgh Genomics.
|
| Description |
10week old
|
| Data processing |
Raw data was processed using R/Bioconductor: arrayQualityMetrics for quality control and the rma algorithm in the affy package to generate expression values.
|
| |
|
| Submission date |
Sep 29, 2014 |
| Last update date |
Dec 17, 2015 |
| Contact name |
Alasdair W Jubb |
| E-mail(s) |
alasdair.jubb@ed.ac.uk
|
| Organization name |
University of Edinburgh
|
| Department |
Roslin Institute
|
| Lab |
Hume lab / Bickmore lab (MRC HGU)
|
| Street address |
The Roslin Institute
|
| City |
Easter Bush |
| State/province |
Midlothian |
| ZIP/Postal code |
EH25 9RG |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL11180 |
| Series (2) |
| GSE61879 |
Expression data from a 24h time series of dexamethasone treatment for mouse bone marrow derived macrophages |
| GSE61881 |
Divergent transcriptional activation by glucocorticoids in mouse and human macrophages is the result of gain and loss of enhancers |
|
