Illumina HiSeq 2000 sequencing; DNA methylation is required for the control of stem cell differentiation in the small intestine
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
No description
Antigen
NA
Cell type
Cell type Class
Digestive tract
Cell type
Intestinal epithelium
NA
NA
Attributes by original data submitter
Sample
ENA first public
2014-03-13
ENA last update
2018-03-08
ENA-CHECKLIST
ERC000011
External Id
SAMEA2397522
INSDC center alias
University of Pennsylvania, School of Medicine, Dept. of Genetics
INSDC center name
University of Pennsylvania, School of Medicine, Dept. of Genetics
INSDC first public
2014-03-13T17:00:40Z
INSDC last update
2018-03-08T17:15:54Z
INSDC status
public
Submitter Id
E-MTAB-2350:6 Diff-K27ac-6
age
3 month
broker name
ArrayExpress
cell type
differentiated intestinal epithelium
common name
house mouse
developmental stage
adult
organism part
small intestine
sample name
E-MTAB-2350:6 Diff-K27ac-6
specimen with known storage state
fresh specimen
strain
C57Bl/6 background Lgr5-EGFP-ires-CreERT2
Sequenced DNA Library
library_name
IP extract 6 Diff-K27ac-6
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
All procedures involving mice were conducted in accordance with approved Institutional Animal Care and Use Committee protocols. LGR5+ and differentiated cells were isolated and incubated in 1.11% formaldehyde for 10 minutes at room temperature. Chromatin was sonicated into 200 to 300bp fragments using the BioRuptor (Diagenode). ChIP-Seq libraries were made using the ChIP-Seq Library Prep Reagent Set (NEB). Immunoprecipitation was performed using 2ug H3K27ac antibody (Active Motif) and 2ug of chromatin for two biological replicates for each cell type.