GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM450295 Query DataSets for GSM450295
Status Public on Feb 24, 2011
Title ESC, rep2
Sample type RNA
Source name ESC male
Organism Mus musculus
Characteristics gender: male
cell type: embryonic stem cells
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: 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 Biological replicate 2 of 2.
Data processing The bead intensities were mapped to gene information using BeadStudio 3.2 (Illumina), background correction was performed 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.

Non-normalized data is available in the 'GSE17984_non-normalized_data.txt' file, which is linked to the Series GSE17984 record as a supplementary file.
Submission date Sep 04, 2009
Last update date Feb 24, 2011
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)
GSE17984 Epiblast stem cell subpopulations represent mouse embryos of distinct pregastrulation stages

Data table header descriptions
VALUE Quantile-normalized intensity

Data table
ILMN_1212607 2.759820
ILMN_1212612 1.498196
ILMN_1212619 2.228051
ILMN_1212628 1.941592
ILMN_1212632 4.617610
ILMN_1212636 11.317138
ILMN_1212637 8.494392
ILMN_1212645 2.118642
ILMN_1212648 6.966584
ILMN_1212653 2.214361
ILMN_1212672 7.758966
ILMN_1212682 2.729075
ILMN_1212683 2.063244
ILMN_1212685 1.293456
ILMN_1212692 5.388172
ILMN_1212693 1.236910
ILMN_1212695 1.448386
ILMN_1212698 1.277706
ILMN_1212702 0.993288
ILMN_1212703 4.789301

Total number of rows: 25697

Table truncated, full table size 553 Kbytes.

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

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