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Sample GSM542480 Query DataSets for GSM542480
Status Public on Nov 10, 2010
Title 0hr_LPS_control_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: 0hr_LPS_control
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 5.694
ILMN_2707227 6.324
ILMN_2896528 10.361
ILMN_2721178 8.059
ILMN_1227723 7.736
ILMN_3033922 9.814
ILMN_3092673 11.404
ILMN_2730714 12.220
ILMN_3162224 10.178
ILMN_2816356 6.382
ILMN_2808939 9.122
ILMN_2634564 7.766
ILMN_1216623 8.318
ILMN_1215157 8.694
ILMN_1228777 7.137
ILMN_2737647 5.963
ILMN_1216425 5.974
ILMN_2734484 9.025
ILMN_2652961 5.773
ILMN_2952292 7.346

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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