Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Blood
Cell type
Natural killer cells
NA
NA

Attributes by original data submitter

Sample

source_name
splenic cNK
tissue
spleen
cell type
cNK
strain
C57BL/6
infection status
uninfected

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
samples were prepared as previously described (Buenrostro et al 2015). 50,000 cells were lysed in 10mM Tris-Cl, 10 mL NaCl, 3mM MgCl2, 0.1% NP-40. Pellets were resuspended in 50 uL Transposition mix (Illumina) and incubated for 30 minutes at 37 C. Samples were purified with MinElute spin columns (Qiagen). Libraries were prepared with Nextera intext adapters and purified with AMPure XP beads (Beckman-Coulter). Sequencing was performed with 2x50 reads on a Illumina HiSeq 2500.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
46191619
Reads aligned (%)
94.5
Duplicates removed (%)
56.0
Number of peaks
40483 (qval < 1E-05)

mm9

Number of total reads
46191619
Reads aligned (%)
94.3
Duplicates removed (%)
56.1
Number of peaks
40468 (qval < 1E-05)

Base call quality data from DBCLS SRA