Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Blood
Cell type
B cells
NA
NA

Attributes by original data submitter

Sample

source_name
Ex vivo B cell
genotype
Tbet-deficient
cell type
B cells
cell subtype
Be2
days in culture
2

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Bulk cultures on day 2 were used for ATAC-seq Nuclei were extracted, incubated with Tn5 transposase (Illumina) for 30 minutes at 37°C and DNA samples were then purified with the MinElut Kit (Qiagen). Library amplification was performed using Nextera primers with NEBNext High-Fidelity 2X PCR Master Mix (New England Biolegends), followed by purification with the PCR Purification Kit.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
56450779
Reads aligned (%)
81.4
Duplicates removed (%)
29.0
Number of peaks
4696 (qval < 1E-05)

mm9

Number of total reads
56450779
Reads aligned (%)
81.2
Duplicates removed (%)
29.1
Number of peaks
4665 (qval < 1E-05)

Base call quality data from DBCLS SRA