Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Embryo
Cell type
Palate mesenchyme cells
NA
NA

Attributes by original data submitter

Sample

source_name
E12.5-Wnt1Cre;Meis2f/f
strain background
C57BL/6
development stage
E12.5
genotype
Wnt1Cre;Meif2f/f
cell type
Palate mesenchyme cells

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
The GFP-positive anterior palatal shelves were isolated from E12.5 Wnt1Cre;Meis2f/+;R26RmTmG and Wnt1Cre;Meis2f/f;R26RmTmG embryos. Samples were subjected to digestion by a cocktail of 0.02% collagenase I, II and IV in HBSS for 30min, followed by Accutase solution (Sigma) treatment for 5 min at 37℃. After stop of the digestion with culture medium containing 10% fetal bovine serum (FBS), cells were washed with PBS containing 3% FBS and then filtered through a 70- μm filter. Suspended cells were sorted by Fluorescence-activated Cell Sorting (FACS) on a BD FACS Aria Fusion cell sorter (Becton- Dickinson). Around 50,000 single GFP-positive cells from each group were obtained and were subjected promptly to generation of ATAC-seq library with the Nextera DNA Library Preparation Kit

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
50800616
Reads aligned (%)
91.5
Duplicates removed (%)
3.7
Number of peaks
69500 (qval < 1E-05)

mm9

Number of total reads
50800616
Reads aligned (%)
91.5
Duplicates removed (%)
3.7
Number of peaks
69519 (qval < 1E-05)

Base call quality data from DBCLS SRA