SRX3343299
GSM2836177: MEF Rep1 [ATAC-Seq]; Mus musculus; ATAC-seq

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
cells
strain
Mixed (C57BL/6 x 129)
marker
Unsorted
Stage
MEF

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Cells were harvested and lysed at various stages of 3c enhanced reprogramming as previously described by Buenrostro et al., 2013. ATAC-Seq libraries were prepared as previously described by Buenrostro et al., 2013.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

Where can I get the processing logs?

Read processing pipeline log

mm10

Number of total reads
48498043
Reads aligned (%)
93.4
Duplicates removed (%)
23.1
Number of peaks
76103 (qval < 1E-05)

mm9

Number of total reads
48498043
Reads aligned (%)
93.3
Duplicates removed (%)
23.2
Number of peaks
76042 (qval < 1E-05)

Base call quality data from DBCLS SRA