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Sample GSM1082313 Query DataSets for GSM1082313
Status Public on Mar 28, 2014
Title MEF
Sample type RNA
 
Source name MEF
Organism Mus musculus
Characteristics pluripotent: No
background strain: B6D2F1/J
Extracted molecule total RNA
Extraction protocol 500 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: 14h)
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
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 Feb 12, 2013
Last update date Mar 28, 2014
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)
GSE44284 Reprogramming to pluripotency through a somatic stem cell intermediate

Data table header descriptions
ID_REF
VALUE quantile normalized

Data table
ID_REF VALUE
ILMN_1212607 2.177893
ILMN_1212612 9.573861
ILMN_1212619 6.790637
ILMN_1212628 1.964736
ILMN_1212632 3.645314
ILMN_1212636 11.201072
ILMN_1212637 9.982765
ILMN_1212645 1.614423
ILMN_1212648 6.784565
ILMN_1212653 6.391711
ILMN_1212672 5.708129
ILMN_1212682 2.040470
ILMN_1212683 1.435566
ILMN_1212685 1.844473
ILMN_1212692 8.020895
ILMN_1212693 6.907660
ILMN_1212695 1.906873
ILMN_1212698 1.518610
ILMN_1212702 1.852634
ILMN_1212703 5.735617

Total number of rows: 25697

Table truncated, full table size 553 Kbytes.




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

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