Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Digestive tract
Cell type
Intestinal villus
NA
NA

Attributes by original data submitter

Sample

source_name
mouse intestinal villus cells
antibody
N/A
tissue
mouse intestinal villus cells
strain
B6; 129 mixed background
cell type
Adult Epithelial cells; proximal 1/3 of intestine
developmental stage
adult
genotype
Eed +/+; Villin-CRE

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Epithelium from proximal 1/3 of mouse intestine was isolated by incubation with 5mM EDTA in PBS for 45 minutes at 4°C. Epithlium was disaggregated with 4X TrypLE in DMEM for 45 minutes at 37°C and cells were immediately used for chromatin transposition. Whole nuclei were used for chromatin transposition using Nextera Tn5 Transposase (Illumina) Transposed DNA was amplified using NEBNext High-Fidelity 2X PCR Master Mix (New England Biolabs), and 75 bp single-end reads were sequenced on an Illumina NextSeq 500 instrument.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
24911945
Reads aligned (%)
84.2
Duplicates removed (%)
18.9
Number of peaks
5904 (qval < 1E-05)

mm9

Number of total reads
24911945
Reads aligned (%)
84.1
Duplicates removed (%)
18.9
Number of peaks
5887 (qval < 1E-05)

Base call quality data from DBCLS SRA