Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Chromatin accessibility profiling by ATAC-seq

ABSTRACT: Chromatin accessibility profiling by ATAC-seq

PROVIDER: PRJNA780405 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR16946068_1.fastq.gz	Fastqsanger.gz
	SRR16946068_2.fastq.gz	Fastqsanger.gz
	SRR16946069_1.fastq.gz	Fastqsanger.gz
	SRR16946069_2.fastq.gz	Fastqsanger.gz
	SRR16946070_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 46

Similar Datasets

Chromatin accessibility profiling by ATAC-seq.

Project description:The assay for transposase-accessible chromatin using sequencing (ATAC-seq) provides a simple and scalable way to detect the unique chromatin landscape associated with a cell type and how it may be altered by perturbation or disease. ATAC-seq requires a relatively small number of input cells and does not require a priori knowledge of the epigenetic marks or transcription factors governing the dynamics of the system. Here we describe an updated and optimized protocol for ATAC-seq, called Omni-ATAC, that is applicable across a broad range of cell and tissue types. The ATAC-seq workflow has five main steps: sample preparation, transposition, library preparation, sequencing and data analysis. This protocol details the steps to generate and sequence ATAC-seq libraries, with recommendations for sample preparation and downstream bioinformatic analysis. ATAC-seq libraries for roughly 12 samples can be generated in 10 h by someone familiar with basic molecular biology, and downstream sequencing analysis can be implemented using benchmarked pipelines by someone with basic bioinformatics skills and with access to a high-performance computing environment.

| S-EPMC9189070 | biostudies-literature

GENE-SWitCH Chicken chromatin accessibility profiling by ATAC-seq