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Sample GSM385570 Query DataSets for GSM385570
Status Public on Dec 31, 2010
Title ESCf, rep1
Sample type RNA
 
Source name ESC OG2 female
Organism Mus musculus
Characteristics gender: female
Extracted molecule total RNA
Extraction protocol 300 ng of total DNA-free RNA was used as input for labelled cRNA synthesis (Illumina TotalPrep RNA Amplification Kit - Ambion) following the manufacturer's instructions (IVT: 10h).
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 1 of 2.
Data processing The bead intensities were mapped to gene information using BeadStudio 3.2 (Illumina), background correction was perform using the Affymetrix Robust Multi-array Analysis (RMA) background correction model, variance stabilization was performed using the log2 scaling and gene expression normalization was calculated with the quantile method implemented in the lumi package of R-Bioconductor.
 
Submission date Mar 23, 2009
Last update date Dec 31, 2010
Contact name Marcos J Ara├║zo-Bravo
E-mail(s) mararabra@yahoo.co.uk
Organization name Max Planck Institute for Molecular Biomedicine
Department Cell and Developmental Biology
Lab Computational Biology and Bioinformatics
Street address Rontgenstr. 20
City Muenster
ZIP/Postal code 48149
Country Germany
 
Platform ID GPL6885
Series (1)
GSE15358 Sox2 Levels Define Pluripotent Ground States and Reprogramming Potential

Data table header descriptions
ID_REF
VALUE Quantile normalized

Data table
ID_REF VALUE
ILMN_1212607 2.312465
ILMN_1212612 1.644223
ILMN_1212619 2.352279
ILMN_1212628 3.853392
ILMN_1212632 4.741503
ILMN_1212636 11.726002
ILMN_1212637 9.248102
ILMN_1212645 4.262934
ILMN_1212648 8.635780
ILMN_1212653 2.600342
ILMN_1212672 8.173286
ILMN_1212682 4.405961
ILMN_1212683 2.433430
ILMN_1212685 2.147328
ILMN_1212692 5.821486
ILMN_1212693 1.505273
ILMN_1212695 1.974320
ILMN_1212698 2.128943
ILMN_1212702 2.927520
ILMN_1212703 4.093964

Total number of rows: 25697

Table truncated, full table size 554 Kbytes.




Supplementary data files not provided
Raw data provided as supplementary file
Processed data included within Sample table
Raw data are available on Series record

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