E-MTAB-6714 - A simple and robust plate-based single-cell ATAC-seq on various tissues and cell lines

Status
Submitted on 25 January 2018, last updated on 9 October 2018, released on 10 October 2018
Organism
Homo sapiens, Mus musculus, mixed sample
Samples (7104)
Protocols (4)
Description
The assay for transposase-accessible chromatin using sequencing (ATAC-seq) is widely used to identify regulatory regions throughout the genome. However, only a few studies have been done at the single cell level (scATAC-seq) due to technical difficulties. Here we developed a simple and robust plate-based scATAC-seq method, combining upfront bulk tagmentation with single-nuclei sorting, to investigate open chromatin regions. We applied this method on mouse splenocytes and unbiasedly revealed key regulatory regions and transcription factors that define each cell (sub)type.
Experiment types
ATAC-seq, binding site identification design
Contact
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-MTAB-6714.idf.txt
Sample and data relationshipE-MTAB-6714.sdrf.txt
Links