|
| Status |
Public on Dec 31, 2009 |
| Title |
P19 cells - 4 days, rep1 |
| Sample type |
RNA |
| |
|
| Source name |
unmodified mouse P19 embryonal carcinoma cells
|
| Organism |
Mus musculus |
| Characteristics |
control cells: unmodified mouse P19 embryonal carcinoma cells
|
| Treatment protocol |
Cells were aggregated in Petri dishes in alpha-MEM, 2.5% fetal bovine serum, 7.5% bovine serum, and 50 units/mL of penicillin/streptomycin, and 5x10-7M all-trans retinoic acid
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using GenElute mammalian total RNA miniprep kit (Sigma-Aldrich, St. Louis, MO, USA)
|
| Label |
Biotin
|
| Label protocol |
Isolated total RNA was processed as recommended by Affymetrix, Inc. (Santa Clara, CA). In brief, cDNA was synthesized from the total RNA using the Super-Script Double Stranded cDNA Synthesis kit and T7 Oligo (dT) primers. Using the double stranded cDNA as template, biotin labeled cRNA was generated by in vitro transcription (MEGAscript Labeling Kit) reaction.
|
| |
|
| Hybridization protocol |
The cRNA was fragmented to 35-200 bases length using Affymetrix protocols and hybridized to HG U133 Plus 2.0 array set at 45ºC for 16 hours in an Affymetrix GeneChip® Hybridization Oven 640.
|
| Scan protocol |
Each GeneChip was then washed and stained with Streptavidin–Phycoerythrin conjugate (SAPE; Invitrogen Corp.) using an Affymetrix Fluidics Station 450 and scanned on a Affymetrix GeneChip scanner.
|
| Description |
Gene Expression data from unmodified mouse P19 embryonal carcinoma cells
|
| Data processing |
Scanned image files were analyzed using the Gene Chip Operating System Version 1.4 software, and standard thresholding and filtering operations were used. The data was normalized using house keeping genes. Normalization assumes that for a subset of genes (i.e., housekeeping genes) the ratio of measured expression averaged over the set should be one.
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| |
|
| Submission date |
Dec 30, 2009 |
| Last update date |
Dec 30, 2009 |
| Contact name |
Eric G Moss |
| E-mail(s) |
[email protected]
|
| Organization name |
UMDNJ
|
| Department |
Molecular Biology
|
| Street address |
UMDNJ-SOM/GSBS
|
| City |
Stratford |
| State/province |
NJ |
| ZIP/Postal code |
08084 |
| Country |
USA |
| |
|
| Platform ID |
GPL8321 |
| Series (1) |
| GSE19705 |
P19 cells+LIN28_RA-differentiated_Day 4 |
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