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Sample GSM1516149 Query DataSets for GSM1516149
Status Public on Dec 17, 2015
Title BMDM-4h-dex100nM-rep3
Sample type RNA
Source name bone marrow derived macrophage
Organism Mus musculus
Characteristics gender: male
cell type: bone marrow derived macrophage
time: 4h
treatment: dex 100nM
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
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

Data table header descriptions
VALUE unlogged rma signal

Data table
1419783_PM_at 8.881806777
1419784_PM_x_at 13.79503659
1419785_PM_at 8.471735207
1419790_PM_at 18.04439961
1419793_PM_at 7.487664492
1419801_PM_x_at 12.18792569
1419822_PM_at 7.878113292
1419830_PM_at 8.305476272
1419836_PM_at 15.6049595
1419859_PM_at 8.067816424
1419861_PM_at 6.605673981
1419863_PM_at 10.03254426
1419881_PM_x_at 8.755137145
1419956_PM_at 8.469464283
1419957_PM_at 8.232930823
1419990_PM_at 9.46950583
1419991_PM_at 6.260705807
1419992_PM_x_at 6.64398499
1419993_PM_at 9.727288655
1420001_PM_at 8.971705095

Total number of rows: 45141

Table truncated, full table size 1159 Kbytes.

Supplementary file Size Download File type/resource
GSM1516149_M3_4.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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