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Sample GSM857403 Query DataSets for GSM857403
Status Public on Mar 26, 2012
Title P19_MyoD_rep1_batch1
Sample type RNA
 
Source name P19 transduced with MyoD lentivirus
Organism Mus musculus
Characteristics cell type: Neuronally differentiated P19 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 1.P19.MD.1
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

Data table header descriptions
ID_REF
VALUE RMA normalized

Data table
ID_REF VALUE
1415670_at 9.842092304
1415671_at 11.3241858
1415672_at 11.2507151
1415673_at 11.52268077
1415674_a_at 10.6414558
1415675_at 9.197872882
1415676_a_at 12.47143082
1415677_at 8.660947892
1415678_at 11.40847244
1415679_at 11.30418399
1415680_at 11.1486915
1415681_at 9.872968119
1415682_at 9.275908955
1415683_at 11.92228139
1415684_at 9.099473397
1415685_at 10.2485884
1415686_at 9.7347293
1415687_a_at 10.92667193
1415688_at 11.08027142
1415689_s_at 9.377096877

Total number of rows: 45101

Table truncated, full table size 1026 Kbytes.




Supplementary file Size Download File type/resource
GSM857403_MG430_2.0_004_P19_MyoDi-1.CEL.gz 6.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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