Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Embryo
Cell type
Midgut
NA
NA

Attributes by original data submitter

Sample

source_name
Mouse midgut epithelial cells
developmental stage
E16.5
strain
C57BL6; mixed background
cell type
Embryonic epithelial cells from the midgut
genotype
Wild-Type
treatment
NO

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
midguts were dissected and treated in 0.25% Trypsin for 7-10 mins on a vortex station, neutralized with FBS; Epcam+ cells were enriched using magnetic antibody. Whole nuclei were used for chromatin transposition using Nextera Tn5 Transposase (Illumina) The transposed DNA was amplified using NEBNext High-Fidelity 2X PCR Master Mix (New England Biolabs)

Sequencing Platform

instrument_model
NextSeq 550

mm10

Number of total reads
26275415
Reads aligned (%)
87.2
Duplicates removed (%)
32.9
Number of peaks
3242 (qval < 1E-05)

mm9

Number of total reads
26275415
Reads aligned (%)
87.1
Duplicates removed (%)
32.9
Number of peaks
3196 (qval < 1E-05)

Base call quality data from DBCLS SRA