Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Embryonic fibroblast
Cell type
MEF
Tissue
Embryonic Fibroblast
Lineage
primaryCells
Description
Mouse Embryonic Fibroblast

Attributes by original data submitter

Sample

source_name
mouse embryonic fibroblasts
strain
129SV/Jae/C57BL6J
cell type
MEF

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
50,000 sorted cells were resuspended in nuclear isolation buffer (10 mM Tris-HCl pH 7.4, 10 mM NaCl, 3 mM MgCl2, 0.1% IGEPAL). Nuclei were then treated with Tn5 transposase (Illumina). DNA was isolate using the MinElute Kit (Qiagen) and PCR-amplified using barcoded Nextera primers (Illumina). The DNA libraries were validated using a bioanalyzer (Agilent).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
45049788
Reads aligned (%)
92.0
Duplicates removed (%)
37.9
Number of peaks
16328 (qval < 1E-05)

mm9

Number of total reads
45049788
Reads aligned (%)
91.8
Duplicates removed (%)
38.1
Number of peaks
16288 (qval < 1E-05)

Base call quality data from DBCLS SRA