|
| Status |
Public on Mar 26, 2012 |
| Title |
MM_control_rep2_batch2 |
| Sample type |
RNA |
| |
|
| Source name |
control untransduced MEF cells
|
| Organism |
Mus musculus |
| Characteristics |
cell type: undifferentiated MEF cells
|
| Treatment protocol |
P19 cells and MEFs were infected with lentivirus in media containing polybrene (final concentration 8 µg /ml), and after 24 hours the cells were switched into fresh media. MEFs transduced with MyoD were switched to differentiation media (1% heat inactivated horse serum, 10 μg/mL insulin, 10 μg/mL transferrin) 48 hours after infection.
|
| Growth protocol |
P19 cells were maintained in MEMα as previously described (Farah et al., 2000, PUBMED ID 10648228), and MEFs derived from Myod-/-/Myf5-/- mice were maintained in DMEM with 10% FBS.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Neuronally differentiated P19 cells were harvested 72 hours after infection. MEFs were harvested 36-40 hours after switching to differentiation media.
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared with the Affymetrix One-Cycle Eukaryotic Target Labeling Assay.
|
| |
|
| Hybridization protocol |
Standard Affymetrix hybridization protocol
|
| Scan protocol |
Standard Affymetrix scanning protocol
|
| Description |
2.MM.con.2
|
| Data processing |
Probe intensities were corrected, normalized, and summarized by the simpleaffy package of Bioconductor (Wilson and Miller,2005). Differentially expressed genes were identified by the LIMMA package of Bioconductor (Wettenhall and Smyth, 2004).
|
| |
|
| Submission date |
Jan 06, 2012 |
| Last update date |
Apr 05, 2017 |
| Contact name |
Stephen Tapscott |
| E-mail(s) |
stapscot@fredhutch.org
|
| Organization name |
Fred Hutch Cancer Research Center
|
| Department |
Human Biology
|
| Lab |
Tapscott
|
| Street address |
1100 Fairview N. Ave
|
| City |
Seattle |
| State/province |
WASHINGTON |
| ZIP/Postal code |
98103 |
| Country |
USA |
| |
|
| Platform ID |
GPL1261 |
| Series (2) |
| GSE34907 |
Genetic and epigenetic determinants of neurogenesis and myogenesis [expression profiling] |
| GSE34908 |
Genetic and epigenetic determinants of neurogenesis and myogenesis |
|
