SRX3000132
GSM2701980: MEF+Ascl1 22d B2 rep1; 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
MEF+Ascl1 22d, Tau::EGFP+
genotype
Tau::EGFP+/-
cell type
E13.5 fibroblast
time post dox
22 days

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Cells were trypsinzed in 0.05% trypsin and processed at different time points post-dox. From day 5, cells were FAC sorted by TauEGFP. ATAC-seq protocol outlined by Buenrostro, et al (Nat. Methods, 2013)

Sequencing Platform

instrument_model
Illumina HiSeq 2000

Where can I get the processing logs?

Read processing pipeline log

mm10

Number of total reads
42482374
Reads aligned (%)
95.9
Duplicates removed (%)
57.0
Number of peaks
32654 (qval < 1E-05)

mm9

Number of total reads
42482374
Reads aligned (%)
95.8
Duplicates removed (%)
57.0
Number of peaks
32619 (qval < 1E-05)

Base call quality data from DBCLS SRA