Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Pluripotent stem cell
Cell type
iPS cells
NA
NA

Attributes by original data submitter

Sample

source_name
SRF f/f iPSC
cell type
iPSCs
passages
P20-30

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
RNA was extracted with Trizol; ChIP DNA was extracted with Qiagen Gel Extraction kit; ATAC-seq DNA was extracted with Qiagen MinElute PCR purification kit RNA-seq libraries were prepared with TruSeq Stranded mRNA Library Prep Kit (Illumina, RS-122-2101); ChIP DNA libraries were constructed with ThruPLEX® DNA-seq Kit (Rubicon Genomics), ATAC-seq libraries were prepared with Illumina Nextera DNA Library Prep Kit (15028212).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
71142382
Reads aligned (%)
79.6
Duplicates removed (%)
35.1
Number of peaks
26045 (qval < 1E-05)

mm9

Number of total reads
71142382
Reads aligned (%)
79.5
Duplicates removed (%)
35.2
Number of peaks
27485 (qval < 1E-05)

Base call quality data from DBCLS SRA