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Sample GSM500966 Query DataSets for GSM500966
Status Public on Jan 23, 2011
Title GSC line 2 (biol rep2)
Sample type RNA
 
Source name Germ Stem Cells OG2
Organism Mus musculus
Characteristics strain: C57BL6
genome/variation: Oct4-GFP transgenic
cell type: germline stem cells (GSCs)
potency: Unipotent
Extracted molecule total RNA
Extraction protocol 400 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: 12h).
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 cell line 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 Jan 25, 2010
Last update date Jan 23, 2011
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)
GSE20031 Generation of Autologous Pluripotent Stem Cells from Adult Testis Biopsy

Data table header descriptions
ID_REF
VALUE log2 quantile normalized signal intensity

Data table
ID_REF VALUE
ILMN_1212607 3.752073
ILMN_1212612 3.763059
ILMN_1212619 4.372893
ILMN_1212628 3.242838
ILMN_1212632 4.820246
ILMN_1212636 11.071406
ILMN_1212637 9.792478
ILMN_1212645 2.798908
ILMN_1212648 8.828213
ILMN_1212653 5.776509
ILMN_1212672 8.762819
ILMN_1212682 4.636614
ILMN_1212683 3.012486
ILMN_1212685 2.506175
ILMN_1212692 8.708013
ILMN_1212693 7.921287
ILMN_1212695 2.704447
ILMN_1212698 2.524325
ILMN_1212702 2.749867
ILMN_1212703 5.193279

Total number of rows: 25697

Table truncated, full table size 554 Kbytes.




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

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