GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM385581 Query DataSets for GSM385581
Status Public on Dec 31, 2010
Title P19 EC, rep2
Sample type RNA
Source name P19 embryonic carcinoma cell
Organism Mus musculus
Characteristics gender: male
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 2.980998
ILMN_1212612 1.911451
ILMN_1212619 5.615763
ILMN_1212628 1.957712
ILMN_1212632 4.921883
ILMN_1212636 12.154775
ILMN_1212637 9.095547
ILMN_1212645 5.318630
ILMN_1212648 7.624739
ILMN_1212653 5.564949
ILMN_1212672 10.554198
ILMN_1212682 3.752418
ILMN_1212683 2.283144
ILMN_1212685 1.832532
ILMN_1212692 5.393050
ILMN_1212693 3.772513
ILMN_1212695 2.954721
ILMN_1212698 2.023693
ILMN_1212702 2.974501
ILMN_1212703 6.208549

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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap