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Sample GSM385571 Query DataSets for GSM385571
Status Public on Dec 31, 2010
Title ESCf, rep2
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 2 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
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
VALUE Quantile normalized

Data table
ILMN_1212607 2.964969
ILMN_1212612 2.285682
ILMN_1212619 1.930196
ILMN_1212628 3.113408
ILMN_1212632 4.195187
ILMN_1212636 11.714753
ILMN_1212637 9.598895
ILMN_1212645 3.858943
ILMN_1212648 8.609533
ILMN_1212653 2.678701
ILMN_1212672 8.491969
ILMN_1212682 2.530884
ILMN_1212683 2.414506
ILMN_1212685 2.424849
ILMN_1212692 5.973461
ILMN_1212693 1.863627
ILMN_1212695 2.177021
ILMN_1212698 1.424185
ILMN_1212702 3.157231
ILMN_1212703 6.138274

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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