|
| Status |
Public on Nov 16, 2010 |
| Title |
ESCm rep1 |
| Sample type |
RNA |
| |
|
| Source name |
ESCm OG2
|
| Organism |
Mus musculus |
| Characteristics |
strain: OG2
genotype: +/+ Oct4-GFP
gender: male
cell type: embryonic stem (ES) 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 |
Hybridized for 18 hrs onto MouseRef-8 v2 gene expression BeadChips (Illumina) following the manufacturer's instructions.
|
| Scan protocol |
Chips were scanned using the iScan reader and accompanying software.
|
| Description |
Replicate 1
|
| 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.
|
| |
|
| Submission date |
Jul 29, 2010 |
| Last update date |
Jan 15, 2022 |
| Contact name |
Marcos J. Araúzo-Bravo |
| E-mail(s) |
mararabra@yahoo.co.uk
|
| Phone |
+34 943 00 6108
|
| Organization name |
Max Planck Institute for Molecular Biomedicine
|
| Department |
Cell and Developmental Biology
|
| Lab |
Computational Biology and Bionformatics
|
| Street address |
Rogentstrasse
|
| City |
Muenster |
| ZIP/Postal code |
48149 |
| Country |
Germany |
| |
|
| Platform ID |
GPL6885 |
| Series (1) |
| GSE23322 |
Identification of genes specific to mouse primordial germ cells through dynamic global gene expression |
|
