GSM2845470: ATAC Library MES Rep 1; Homo sapiens; ATAC-seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
ATAC-Seq
Antigen
ATAC-Seq
Cell type
Cell type Class
Pluripotent stem cell
Cell type
hESC derived mesodermal cells
NA
NA
Attributes by original data submitter
Sample
source_name
ATAC Library MES
cell line
RUES2
cell type
mesodermal cells (MES)
time point
Day 2 of differentiation
Sequenced DNA Library
library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
ATAC-seq was performed according to the protocol from Buenrostro et al. (2015). Briefly cells were harvested from cell culture and lysed in lysis buffer (10mM Tris-Cl, pH 7.4, 10mM NaCl, 3mM MgCl2, 0.1% Igepal CA-630, 1x Protease inhibitor, Sigma). After lysis 5x10^4 nuclei were washed in lysis buffer and resuspended in 25ml TD buffer, 24ml Lysis buffer, 1ml TDE1 enzyme from the Nextera DNA Prep kit (Illumina FC-121-1030). The reaction was incubated for 30min at 55° and DNA was then extracted with a MinElute PCR Purfication kit (Qiagen 28004). DNA was amplified for using NEBNext High-Fidelity 2x Master Mix (M0541L) and quantified with a Qubit. All samples were pooled with Nextera primers and sequenced on an Illumina NEXTSEQ.