SRX5124795
GSM3508335: RV HA-Nr4a2, in vitro rep2 tr2 (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
Blood
Cell type
CD8+ T cells
NA
NA

Attributes by original data submitter

Sample

source_name
spleen and peripheral lymph nodes
strain
C57BL/6J
cell type
CD8+ T cell
treatment
RV_HA-Nr4a2

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Isolated cells were lysed in 10 mM Tris pH 7.5, 10 mM NaCl, 3mM MgCl2, 0.1% NP-40 Lysed cells were treated with Nextera transposase for 30 minutes at 37°C, followed by PCR amplification.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

Where can I get the processing logs?

Read processing pipeline log

mm10

Number of total reads
50092296
Reads aligned (%)
93.4
Duplicates removed (%)
49.6
Number of peaks
19218 (qval < 1E-05)

mm9

Number of total reads
50092296
Reads aligned (%)
93.3
Duplicates removed (%)
49.8
Number of peaks
19183 (qval < 1E-05)

Base call quality data from DBCLS SRA