Antigen

Antigen Class

ATAC-Seq

Antigen

ATAC-Seq

Cell type

Cell type Class

Pluripotent stem cell

Cell type

Embryoid Bodies

MeSH Description

Spontaneous aggregations of human embryonic stem cells that occur in vitro after culturing in a medium that lacks LEUKEMIC INHIBITORY FACTOR. The embryoid bodies can further differentiate into cells that represent different lineages.

Sample

source_name

mouse embryonic stem cell

genotype/variation

Trim33 WT

strain

C57Bl/6J background ESCs(Xi et al., 2011)

cell type

d2.5 EBs

Sequenced DNA Library

library_strategy

ATAC-seq

library_source

GENOMIC

library_selection

other

library_construction_protocol

After dissociation with Trypsin, embryonic stem cells were washed with PBS and incubated in lysis buffer. ATAC-Seq libraries were prepared using ATAC-seq developed by Buenrostro et al. with slightly modification After scraped from plate, embryonic stem cells were washed with PBS and incubated in lysis buffer.

Sequencing Platform

instrument_model

HiSeq X Ten

mm10

Number of total reads

4035007

Reads aligned (%)

70.6

Duplicates removed (%)

24.9

Number of peaks

53 (qval < 1E-05)

mm9

Number of total reads

4035007

Reads aligned (%)

70.6

Duplicates removed (%)

24.9

Number of peaks

46 (qval < 1E-05)