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Sample GSM1143946 Query DataSets for GSM1143946
Status Public on May 13, 2014
Title TO_BMC_0
Sample type RNA
 
Source name TO_BMC_0
Organism Mus musculus
Characteristics cell type: bone marrow cell
time: 0
treated: Yes
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 May 17, 2013
Last update date May 13, 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)
GSE47061 Dissecting the specific role of Oct4 during the early stage of reprogramming

Data table header descriptions
ID_REF
VALUE quantile normalized

Data table
ID_REF VALUE
ILMN_1212607 3.015775
ILMN_1212612 2.142633
ILMN_1212619 6.441797
ILMN_1212628 3.15739
ILMN_1212632 3.753163
ILMN_1212636 11.136776
ILMN_1212637 8.602399
ILMN_1212645 4.068564
ILMN_1212648 7.800295
ILMN_1212653 5.26143
ILMN_1212672 6.011631
ILMN_1212682 5.462903
ILMN_1212683 1.720042
ILMN_1212685 2.447113
ILMN_1212692 3.4293
ILMN_1212693 7.448041
ILMN_1212695 5.704801
ILMN_1212698 1.93821
ILMN_1212702 9.23608
ILMN_1212703 5.278951

Total number of rows: 25697

Table truncated, full table size 551 Kbytes.




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

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