2024-12-13
ENA first public
ERC000011
ENA-CHECKLIST
SAMEA114664837
External Id
Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences
INSDC center name
2023-11-22T22:02:37Z
INSDC last update
public
INSDC status
ERS17080780
SRA accession
E-MTAB-13559:ES_46C_MOD_SOX1-GFP
Submitter Id
ArrayExpress
broker name
embryonic cell line
cell_line
embryonic stem cell
cell_type
not collected
collection date
house mouse
common name
Protocols: Cells were detached with Accutase, counted and 100,000 cells were immediately used for the ATAC-seq experiments. ES (2i/LIF) cells were grown on gelatin-coated culture plastic in embryonic stem cells medium in the presence of MEK inhibitor (PD0325901) and GSK3 inhibition (CHIR99021) with LIF to maintain ESCs in a naive ground state. Cells were split at 80% confluence with a density of 30000 cells/sq.cm. The medium was exchanged daily. NS cells were grown on laminin-coated plates in neural differentiation medium containing N2 and B27 supplements along with recombinant murine EGF and bFGF to a final concentration of 10 ng/ml. Cells were split at 80% confluence with a density of 35000 cells/sq.cm. The medium was exchanged daily. CTCF depletion was carried out in CTCF-AID-GFP ES and NS Cells by treating with 500uM of indole acetic acid (IAA) dissolved in culture media for 24h ATAC-seq procedure was performed with ATAC-Seq kit (Active Motif, 53150), according to manufacturer's instructions.
description
embryo
developmental stage
normal
disease
wild type genotype
genotype
not collected
geographic location (country and/or sea)
not applicable
isolate
Mus musculus
organism
Mus musculus
organism
inner cell mass
organism part
Mus musculus
scientific_name
ES_46C_MOD_SOX1-GFP
title