GSM3565063: ATACseq Pax3 ko embryo rep3; Mus musculus; ATAC-seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
ATAC-Seq
Antigen
ATAC-Seq
Cell type
Cell type Class
Embryo
Cell type
E9.5 embryos
NA
NA
Attributes by original data submitter
Sample
source_name
E9.5 embryo
tissue
E9.5 embryo
differentiation protocol
not applicable
time
9.5 days post coitum
purification
PDGFRα+FLK1- sorted
doxycycline-treatment
not applicable
Sequenced DNA Library
library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
ATAC-seq: 50,000 freshly sorted cells from differentiated ES cultures, iPax3 NIH3T3 fibroblasts and single embryos were washed with 200 µl of cold PBS then resuspended in 100 µl of cold lysis buffer (10mM Tris-HCl pH 7.4, 10mM NaCl, 3mM MgCl2, 0.1% IGEPAL CA-630), spun at 500 g for 10 minutes at 4°C and resuspended in 50 µl of the transposition reaction mix. Transposition occurred at 37°C for 30 minutes, after which transposed DNA was purified using a Qiagen MinElute Kit and eluted in 10µl Elution Buffer. Final libraries were generated by primer extension of the transposed DNA followed by PCR amplification using Illumina-compatible adapter-barcodes.