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
splenic CD8T cells
genotype
WT
replicate
1
ly49expression
NA
condition
MCMVD35
cell type
splenic CD8T cells

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Lymphocytes were harvested as described in manuscript. Fresh cells were prepared as previously described (Buenrostro et al., 2013). Briefly, cells were washed in cold PBS and lysed. Transposition occurred at 42°C for 45 minutes. DNA was purified using the MinElute PCR purification kit (Qiagen) and amplified for 5 cycles. Additional PCR cycles were evaluated by real time PCR. Final product was cleaned by Ampure Beads at a 1.5x ratio. Libraries were sequenced on a Hiseq 2500 1T in a 50bp/50bp paired-end run, using the TruSeq SBS Kit v3 (Illumina). An average of 51 million paired reads were generated per sample.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
39606145
Reads aligned (%)
95.7
Duplicates removed (%)
27.5
Number of peaks
28809 (qval < 1E-05)

mm9

Number of total reads
39606145
Reads aligned (%)
95.5
Duplicates removed (%)
27.6
Number of peaks
28779 (qval < 1E-05)

Base call quality data from DBCLS SRA