NuRD-mediated gene repression in mouse embryonic stem cells
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
No description
Antigen
NA
Cell type
Cell type Class
Pluripotent stem cell
Cell type
ES cells
NA
NA
Attributes by original data submitter
Sample
ENA first public
2012-03-13
ENA last update
2018-03-08
External Id
SAMEA1095981
INSDC center alias
EMBL
INSDC center name
European Molecular Biology Laboratory
INSDC first public
2012-03-13T17:00:57Z
INSDC last update
2018-03-08T15:39:13Z
INSDC status
public
Submitter Id
E-MTAB-888:Mbd3_null1
broker name
ArrayExpress
cell type
embryonic stem cell
common name
house mouse
genotype
Mdb3 -/-
sample name
E-MTAB-888:Mbd3_null1
Sequenced DNA Library
library_name
Mbd3_null1_input_control
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ES cells were grown in GMEM supplemented with 10% fetal bovine serum, 1 mM sodium pyruvate, 2 mM L-glutamine, 0.1 mM non-essential amino acids and 10 ng/ml murine LIF. Eed-/- ES cells were cultured on mitotically inactivated primary mouse embryonic fibroblasts which were depleted from ES cells upon harvest. TSA (Sigma) was added to normal ES cell media to a final concentration of 0.1 mM for 2 h prior to harvesting. Cells were fixed using 1% formaldehyde for 10min at room temperature and fixation quenched with 150 mM glycine. For Mi2beta ChIP-seq, formaldehyde fixation was preceded by 45 min incubation in 2 mM disuccinimidyl glutarate (Sigma). Chromatin was sheared by sonication to an average fragment size between 200 and 300 bp using a Bioruptor sonication instrument (Diagenode).