|
| Status |
Public on Jun 30, 2015 |
| Title |
G6L2 144h+d |
| Sample type |
RNA |
| |
|
| Source name |
Embryonic stem cell 144h Gata6 induction
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Embryonic stem cell
treatment: 144 hours doxycyline-mediated Gata6 induction
|
| Treatment protocol |
Induction of mES cells was performed in pluripotency maintenance media (KSR+LIF) using doxycycline at a final concentration of 1 μg/mL
|
| Growth protocol |
KSR+LIF media: 78% Advanced DMEM/F12, 20% Knockout serum replacer, 2mM L-glutamine; 0.1mM B-mercaptoethanol, 1% penicillin/streptomycin, 10ng/mL LIF
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted with TRI Reagent (Sigma), followed by clean-up and DNase I treatment (Ambion) in accordance with the manufacturer's instructions. Quality control was performed with Agilent Bioanalyser.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the TotalPrep 96 RNA amplification kit
|
| |
|
| Hybridization protocol |
Standard Illumina hybridization protocol
|
| Scan protocol |
Standard Illumina scanning protocol
|
| Description |
Gata6 line2 144 hours following doxycycline treatment replicate 2
|
| Data processing |
The data were normalised using quantile normalisation with IlluminaGUI in R. The raw expression values were first log2 transformed and then quantile normalized. Batch effects were corrected using empirical Bayes methods. Coefficient of variation (CV) was calculated for each probe across all samples according to the normalized values. Normalized data summarized by gene symbol are available on the series record in the file "Normalized_data.txt".
|
| |
|
| Submission date |
May 28, 2015 |
| Last update date |
Jun 30, 2015 |
| Contact name |
Kathy Niakan |
| E-mail(s) |
[email protected]
|
| Organization name |
The Francis Crick Institute
|
| Street address |
Mill Hill
|
| City |
London |
| ZIP/Postal code |
NW7 1AA |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL6887 |
| Series (2) |
| GSE69321 |
Gata6 potently initiates reprogramming of pluripotent and differentiated cells to extraembryonic endoderm stem cells [time-course microarray] |
| GSE69323 |
Gata6 potently initiates reprogramming of pluripotent and differentiated cells to extraembryonic endoderm stem cells |
|
