SRX5124763
GSM3508303: Endogenous T cells, PD1hiTIM3hi rep7 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
B16-OVA-hCD19 tumor infiltrating lymphocytes
strain
C57BL/6J
cell type
CD8+ T cell

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
44905452
Reads aligned (%)
88.9
Duplicates removed (%)
53.7
Number of peaks
25173 (qval < 1E-05)

mm9

Number of total reads
44905452
Reads aligned (%)
88.8
Duplicates removed (%)
53.9
Number of peaks
25136 (qval < 1E-05)

Base call quality data from DBCLS SRA