Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Digestive tract
Cell type
Colonic lamina propria
NA
NA

Attributes by original data submitter

Sample

source_name
colonic lamina propria
strain
C57BL/6
tissue
colonic lamina propria
genotype
wildtype

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Lymphocytes from the colonic and small intestine LP were isolated using the Lamina Propria Dissociation Kit (Miltenyi Biotec) according to the manufacturer's protocol. ILCs were enriched using the Pan-ILC enrichement kit (Stem Cell Technologies), and 20,000-30,000 ILC1s were FACS sorted as Lineage(TCRβ, TCRγδ, CD8α, CD8β, CD19, CD11b, DX5, Gr-1, Ter119)-Thy1.2+CD127+NK1.1+NKp46+. ILC1s were lysed and transposase reaction was performed with Tn5 transposase (Illumina) at for 30 min at 37C. DNA was purified using the MinElute kit (Qiagen). Libraries were amplified using Nextara primers with NEBNext High-Fidelity 2X PCR Master Mix (New England Biolegends), and reactions were purified with the PCR Purification Kit (QIAGEN).

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
46530679
Reads aligned (%)
97.4
Duplicates removed (%)
68.8
Number of peaks
26078 (qval < 1E-05)

mm9

Number of total reads
46530679
Reads aligned (%)
97.3
Duplicates removed (%)
68.9
Number of peaks
26010 (qval < 1E-05)

Base call quality data from DBCLS SRA