|
| Status |
Public on Feb 15, 2012 |
| Title |
ESC_R1_MeDIP_2 |
| Sample type |
genomic |
| |
|
| Source name |
ESC_R1_MeDIP
|
| Organism |
Mus musculus |
| Characteristics |
gender: male
strain: R1
cell type: ES cell
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was isolated with an QIAamp DNA Micro Kit (Qiagen).
|
| Label |
biotin
|
| Label protocol |
The digested cDNA was labeled using 50 U of terminal transferase (Roche, Penzberg, Germany) and 71.4 uM of Biotin-11-ddATP (PerkinElmer, Boston, MA, USA) at 37degrees Celsius for 2 h
|
| |
|
| Hybridization protocol |
The mixture containing 2 ug of the labeled DNA was directly used for hybridization.
|
| Scan protocol |
Scanning was performed in an Affymetrix GeneChip scanner 3000 7G.
|
| Description |
Methylated DNA immunoprecipitation-on-chip analysis of R1 ES cell
|
| Data processing |
MAT (Johnson et al., 2006) was used to process the CEL files. Duplicate sample and control CEL files were used to calculate MAT score. BAR files were generated by using Mm_PromPR_v02-1_NCBIv36.bpmap.
|
| |
|
| Submission date |
Sep 13, 2011 |
| Last update date |
Feb 15, 2012 |
| Contact name |
Takayuki Isagawa |
| E-mail(s) |
isagawa@genome.rcast.u-tokyo.ac.jp
|
| Organization name |
The University of Tokyo
|
| Department |
RCAST
|
| Lab |
Genome Science
|
| Street address |
4-6-1 Komaba, Meguro-ku
|
| City |
Tokyo |
| ZIP/Postal code |
153-8904 |
| Country |
Japan |
| |
|
| Platform ID |
GPL5811 |
| Series (2) |
| GSE32080 |
DNA methylation profiling of embryonic stem cell differentiation into the three germ layers [MeDIP analysis] |
| GSE32082 |
DNA methylation profiling of embryonic stem cell differentiation into the three germ layers |
|
