|
| Status |
Public on Jul 10, 2009 |
| Title |
Mouse undifferentiated ESCs, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Mouse embryonic stem cell
|
| Organism |
Mus musculus |
| Characteristics |
cell type: undifferentiated wild-type E14 embryonic stem cells
|
| Treatment protocol |
Mouse E14 ESCs were grown in a monolayer on gelatin-coated culture plates, maintained in medium supplemented with 10% FBS, sodium pyruvate, non-essential amino-acids, beta-mercaptoethanol, LIF, and passaged with trypsin.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
biotin
|
| Label protocol |
RNA was converted to cDNA primed with random hexamers using the SuperScript II enzyme (Invitrogen), fragmented with DNAse1 (0.6U/ul) (Amersham Pharmacia Biotech) at 37 C to yield 50-200nt fragements (Agilent Bioanalyzer), purifie
|
| |
|
| Hybridization protocol |
According to manufacturer's (Affymetrix) recommendations
|
| Scan protocol |
According to manufacturer's (Affymetrix) recommendations
|
| Description |
Exon-junction, exon, constitutive region hybridizing probesets from undifferentiated wild-type E14 embryonic stem cells
|
| Data processing |
Probeset intensity values for Affymetrix AltMouseA Array(perfect match only custom array) CEL files were obtained using the RMA package from Bioconductor, using the appropriate CDF file
|
| |
|
| Submission date |
Jul 08, 2009 |
| Last update date |
Jul 09, 2009 |
| Contact name |
Nathan Salomonis |
| E-mail(s) |
nathan.salomonis@cchmc.org
|
| Organization name |
Cincinnati Children's Hospital
|
| Department |
Biomedical Informatics
|
| Lab |
Nathan Salomonis
|
| Street address |
3333 Burnet Avenue
|
| City |
Cincinnati |
| State/province |
OH |
| ZIP/Postal code |
45229 |
| Country |
USA |
| |
|
| Platform ID |
GPL8815 |
| Series (1) |
| GSE17021 |
Analysis of alternative splicing in mouse tissues with differentiation, disease and development. |
|
