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Sample GSM1082317 Query DataSets for GSM1082317
Status Public on Mar 28, 2014
Title iNdiPSC-4
Sample type RNA
 
Source name iNdiPSC-4
Organism Mus musculus
Characteristics pluripotent: Yes
background strain: C3H
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 2.169281
ILMN_1212612 3.057888
ILMN_1212619 3.588880
ILMN_1212628 2.159759
ILMN_1212632 4.920708
ILMN_1212636 11.665541
ILMN_1212637 9.812481
ILMN_1212645 2.593115
ILMN_1212648 7.848702
ILMN_1212653 2.899175
ILMN_1212672 6.121030
ILMN_1212682 3.044511
ILMN_1212683 2.533315
ILMN_1212685 2.357543
ILMN_1212692 7.924229
ILMN_1212693 2.327884
ILMN_1212695 2.217164
ILMN_1212698 1.212624
ILMN_1212702 4.995021
ILMN_1212703 4.466399

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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