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Sample GSM542487 Query DataSets for GSM542487
Status Public on Nov 10, 2010
Title 4hr_LPS_BET treat_rep3
Sample type RNA
 
Source name LPS-induced macrophages
Organism Mus musculus
Characteristics strain: C57BL/6
age: 6 weeks old
sex: female
tissue: bone marrow
cell type: macrophages
treatment group: 4hr_LPS_BET treat
Treatment protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
Growth protocol Standard culture techniques
Extracted molecule total RNA
Extraction protocol Qiagen RNeasy kit - followed manufacturer's protocol. Quality control was performed with Agilent Bioanalyser.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol
Description replicate 3
Data processing Data analyses were completed using the R/Bioconductor BioC 2.5 suite of tool. Briefly, raw expression data was quality assessed, and subjected to background adjustment and quantile normalisation using BeadArray. Log2 scaled data was used for linear modelling, differential expression profiling and relevant graphical representations, using the LIMMA library.
 
Submission date May 10, 2010
Last update date Nov 10, 2010
Contact name Paul A Wilson
E-mail(s) paul.a.wilson@gsk.com
Organization name GSK
Department Target Sciences
Lab Computational Biology
Street address GlaxoSmithKline Medicine Research Centre
City Stevenage
State/province Hertfordshire
ZIP/Postal code SG1 2NY
Country United Kingdom
 
Platform ID GPL6885
Series (1)
GSE21764 To determine the global gene expression response in murine LPS-induced macrophages treated with a bromodomain inhibitor.

Data table header descriptions
ID_REF
VALUE normalized log2 signal intensity

Data table
ID_REF VALUE
ILMN_1248788 5.921
ILMN_2707227 6.237
ILMN_2896528 10.069
ILMN_2721178 7.601
ILMN_1227723 7.803
ILMN_3033922 8.918
ILMN_3092673 10.955
ILMN_2730714 12.464
ILMN_3162224 9.673
ILMN_2816356 6.197
ILMN_2808939 9.403
ILMN_2634564 7.832
ILMN_1216623 8.631
ILMN_1215157 8.889
ILMN_1228777 5.831
ILMN_2737647 5.977
ILMN_1216425 5.763
ILMN_2734484 8.230
ILMN_2652961 5.748
ILMN_2952292 7.162

Total number of rows: 25697

Table truncated, full table size 478 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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