Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Unclassified
Cell type
Unclassified
NA
NA

Attributes by original data submitter

Sample

source_name
splenic ILC1
tissue
spleen
cell type
ILC1
strain
C57BL/6
infection status
infected d35

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
49580439
Reads aligned (%)
91.6
Duplicates removed (%)
53.5
Number of peaks
41460 (qval < 1E-05)

mm9

Number of total reads
49580439
Reads aligned (%)
91.5
Duplicates removed (%)
53.6
Number of peaks
41473 (qval < 1E-05)

Base call quality data from DBCLS SRA