|
| Status |
Public on May 01, 2014 |
| Title |
EpiSC rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Mus musculus cell line developed from E3.5 preimplantation embyo
|
| Organism |
Mus musculus |
| Characteristics |
cell line: EpiSC
strain: C57BL/6J
genotype: wild type
culture: KODMEM with 20% KSR and FGF2 on MEF
|
| Treatment protocol |
none
|
| Growth protocol |
FGF-ESC or EpiSC were cultured in KODMEM supplemented with KSR and FGF2 on MEF, whereas ESC was cultured in DMEM supplemented with 2i and LIF without MEF
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using NucleoSpin II (FGF-ESC, ESC, or EpiSC) or NucleoSpin XS (ICM)(Macherey-Nagel). All RNA samples were treated with DNase on column to digest potentially contaminated genomic DNA
|
| Label |
Biotin
|
| Label protocol |
cDNA was synthesized using Ovation Pico WTA System V2 ( NuGEN) followed by fragmentation and fluoro-labeling using Encore Biotin Module (NuGEN) according to the manufacture’s instructions.
|
| |
|
| Hybridization protocol |
Samples were hybridized with Affymetrix Mouse Gene 2.1 ST Array Strip (Affimetrix) according to the manifacture's instruction
|
| Scan protocol |
Data were scanned using Affymetrix GeneAtlas System
|
| Description |
Gene expression data from the cell line
|
| Data processing |
The data were analyzed with Expression Console 1.3.1 (EC 1.3.1) using Affymetrix default analysis settings and global scaling as normalization method.
|
| |
|
| Submission date |
Dec 12, 2013 |
| Last update date |
May 01, 2014 |
| Contact name |
Manabu Ozawa |
| Organization name |
The University of Tokyo
|
| Department |
Institute of Medical Science
|
| Street address |
4-6-1, Shirokanedai
|
| City |
Minato |
| State/province |
Tokyo |
| ZIP/Postal code |
108-8639 |
| Country |
Japan |
| |
|
| Platform ID |
GPL17400 |
| Series (1) |
| GSE53275 |
Development of FGF2-dependent pluripotent stem cells showing naïve state characteristics from murine preimplantation inner cell mass |
|
