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 GTMS
cell type
Mouse Embryonic Fibroblasts (MEF)
treatment
3 days of reprogramming by GTSM

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
ATAC-seq: Eight ATAC libraries were prepared: iPSCs, TSCs, MEFs, and MEFS at three days of reprogramming by OSKM, GETM, GTMS or GETMS. ATAC-seq: Library preparation was performed as previously described (Buenrostro et al., 2016). Libraries were subjected to paired-end sequencing using Illumina Next-Seq 500 platform.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
19399759
Reads aligned (%)
97.6
Duplicates removed (%)
41.8
Number of peaks
5316 (qval < 1E-05)

mm9

Number of total reads
19399759
Reads aligned (%)
97.5
Duplicates removed (%)
42.0
Number of peaks
5291 (qval < 1E-05)

Base call quality data from DBCLS SRA