2025-07-31
ENA first public
ERC000011
ENA-CHECKLIST
Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences
INSDC center name
public
INSDC status
ERS24753288
SRA accession
E-MTAB-13572_3:NS_DDX5_FKBP_KI_CTCF-Cterm_HALO_4F11_DMSO
Submitter Id
ArrayExpress
broker name
embryonic stem cell derived neuronal stem cell
cell line
neuronal stem cell
cell type
not collected
collection date
house mouse
common name
Protocols: Cells were detached with Accutase, counted and crosslinked with 1% (final) formaldehyde in their medium. The reaction was quenched with 0.125M (final) glycine, and cell pellets were washed with PBS, snap-frozen, and stored in a -80 freezer. The pellet of 5 million cells was used for each Hi-C experiment.  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.  Ddx5 depletion was carried out in Ddx5-FKBP NS Cells by treating with 500nM of dTAG13 dissolved in culture media for 24h Hi-C experiments were performed as described as describer before (Rao et al., 2014) Hi-C libraries were generated using NEBNext Ultra II DNA Library Kit, according to manufacturer's instructions
description
embryo
developmental stage
normal
disease
gene knock in
genetic modification
DDX5 KI
genotype
not collected
geographic location (country and/or sea)
not applicable
isolate
Mus musculus
organism
Mus musculus
organism
Mus musculus
scientific_name
DMSO
stimulus
NS_DDX5_FKBP_KI_CTCF-Cterm_HALO_4F11_DMSO
title