Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Embryo
Cell type
Embryonic stomach
NA
NA

Attributes by original data submitter

Sample

source_name
Mouse forestomach epithelial cells
strain
CD1 wild type
cell type
Post Embryonic Epithelial cells from the forestomach
genotype
Wild-Type
developmental stage
P1

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
P1 forestomachs were digested in 0.25% Trypsin EDTA at 37°C for 30 minutes followed by neutralization with FBS and Epcam + cells were sorted by flowcytometry. Cells were immediately used for chromatin transposition. 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), 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
29718190
Reads aligned (%)
75.4
Duplicates removed (%)
69.3
Number of peaks
10496 (qval < 1E-05)

mm9

Number of total reads
29718190
Reads aligned (%)
75.3
Duplicates removed (%)
69.4
Number of peaks
10503 (qval < 1E-05)

Base call quality data from DBCLS SRA