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
MEF
strain
Col1a1-tetO-OKSM, Rosa26-M2rtTA
cell type
MEF
time
D0

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
50,000 viable cells were pelleted at 500 RCF at 4°C for 5 min in a fixed angle centrifuge ATAC-seq was performed using the Omni-ATAC protocol as described before (Corces et al., 2017; Song et al., 2018a). Libraries were pooled in equimolar amounts for single-end sequencing on an Illumina HiSeq 4000 instrument

Sequencing Platform

instrument_model
Illumina HiSeq 4000

mm10

Number of total reads
45031119
Reads aligned (%)
93.5
Duplicates removed (%)
29.6
Number of peaks
95485 (qval < 1E-05)

mm9

Number of total reads
45031119
Reads aligned (%)
93.4
Duplicates removed (%)
29.6
Number of peaks
95484 (qval < 1E-05)

Base call quality data from DBCLS SRA