|
Status |
Public on May 19, 2011 |
Title |
EB Rad21-GFP IgG |
Sample type |
SRA |
|
|
Source name |
EB
|
Organism |
Mus musculus |
Characteristics |
cell type: R1/E-derived EB differentiation day: 12 chip antibody: Goat IgG isotype control antibody manufacturer: Jackson Immunoresearch antibody lot number: 76310 antibody catalog number: 005-000-003
|
Treatment protocol |
30mio. cells were crosslinked with formaldehyde at 1% final concentration, lysates were sonicated to average fragment size of 500bp, IP was performed with 5ug antibody
|
Growth protocol |
Maintained on Gelatine-coated dishes in DMEM (GLUTAMAX high-glucose, Gibco) media supplemented with 15% FBS (Gibco), 0.055mM b-mercaptoethanol (Gibco), 1x MEM non-essential amino acids (Invitrogen), 5000u/ml penicillin-streptomycin (Invitrogen) and 50uM LIF
|
Extracted molecule |
genomic DNA |
Extraction protocol |
20ng of the immunoprecipitated DNA was used to generate the ChIP-seq library according to the manufacture’s protocol (Illumina) and sequenced with the Genome Analyzer II (Illumina).
|
|
|
Library strategy |
ChIP-Seq |
Library source |
genomic |
Library selection |
ChIP |
Instrument model |
Illumina Genome Analyzer II |
|
|
Description |
input DNA
|
Data processing |
Alignment: Sequence reads were obtained and mapped to the mouse m37 genome assembly (mm9; July 2007) using the Illumina Genome Analyzer Pipeline. Peaks: Peak detection was performed with the Model-based Analysis of ChIP-Seq (MACS) algorithm (http://liulab.dfci.harvard.edu/MACS/)
|
|
|
Submission date |
Sep 08, 2010 |
Last update date |
May 15, 2019 |
Contact name |
Maciej Paszkowski-Rogacz |
Organization name |
Technische Universität Dresden
|
Department |
UCC / Medical Faculty and University Hospital Carl Gustav Carus
|
Lab |
Medical Systems Biology (Prof. Buchholz)
|
Street address |
Tatzberg 47/49
|
City |
Dresden |
ZIP/Postal code |
01307 |
Country |
Germany |
|
|
Platform ID |
GPL9250 |
Series (2) |
GSE24029 |
Genome-wide maps of Rad21 in R1/E embryonic stem cells and R1/E derived Embryoid bodies |
GSE24030 |
The Cohesin Complex Cooperates with Pluripotency Transcription Factors in the Maintenance of Embryonic Stem Cell Identity |
|
Relations |
SRA |
SRX026526 |
BioSample |
SAMN00110679 |