Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Hi-CoP, a simple and robust assay for detecting interactions of regulatory regions

ABSTRACT: Hi-CoP, a simple and robust assay for detecting interactions of regulatory regions

PROVIDER: PRJNA603576 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR10982073_1.fastq.gz	Fastqsanger.gz
	SRR10982073_2.fastq.gz	Fastqsanger.gz
	SRR10982074_1.fastq.gz	Fastqsanger.gz
	SRR10982074_2.fastq.gz	Fastqsanger.gz
	SRR10982075_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 16

Similar Datasets

Hi-CoP, a simple and robust assay for detecting interactions of regulatory regions

Project description:First we developed a new, simple, and robust assay called CoP (Column Purified chromatin) for profiling of accessible regions by directly purifying fragmentized crosslinked chromatin with DNA purification column. The CoP chromatin regions by CoP-seq are consistent with the accessible regions detected by ATAC-seq and FARIE-seq. Then we integrated CoP-seq and Hi-C technique (Hi-CoP) for interactions of accessible chromatin regions which represent active cis-regulatory elements in cells. Our data showed that Hi-CoP assay can robustly detect interactions of regulatory regions.

2020-01-29 | GSE144412 | GEO

Hi-CoP, a simple and robust assay for detecting interactions of regulatory regions

Project description:Hi-CoP, a simple and robust assay for detecting interactions of regulatory regions

| PRJNA603576 | ENA

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

Project 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.

2018-10-10 | E-MTAB-6714 | biostudies-arrayexpress

A simple but robust approach for isolating chromatin associated RNAs in Arabidopsis thaliana

Project description:A simple but robust approach for isolating chromatin associated RNAs in Arabidopsis thaliana

| PRJNA881599 | ENA

A simple, cost-effective, and robust method for rRNA depletion in RNA-sequencing studies

Project description:A simple, cost-effective, and robust method for rRNA depletion in RNA-sequencing studies

| PRJNA597883 | ENA

Low-input ATAC&mRNA-Seq: a simple and robust method for simultaneous dual-omics profiling with low cell number

Project description:Deciphering epigenetic regulation of gene expression requires measuring the epigenome and transcriptome jointly. However, multi-omics profiling remains challenging for low-input samples. Therefore, we developed low-input ATAC&mRNA-Seq, a simple and robust method for studying the role of chromatin structure in gene regulation in a single experiment with thousands of cells, to maximize insights from limited input material by obtaining ATAC-seq and mRNA-seq data simultaneously from the same cells with data quality comparable to conventional mono-omics assays. Remarkably, integrative data analysis revealed similar strong association between promoter accessibility and gene expression using the data of low-input ATAC&mRNA-Seq as using single-assayed data, underscoring the accuracy and reliability of our dual-omics assay to generate both data types simultaneously with just thousands of cells. We envision our method to be widely applied in many biological disciplines with limited materials.

2021-06-21 | GSE165478 | GEO

ChiCMaxima: a robust and simple pipeline for detection and visualization of chromatin looping in Capture Hi-C (4C validation)

Project description:ChiCMaxima: a robust and simple pipeline for detection and visualization of chromatin looping in Capture Hi-C (4C validation)

| PRJNA533097 | ENA

CMMRD MSI Assay

Project description:Accurate detection of constitutional mismatch repair deficiency by a simple, sequencing-based microsatellite instability assay

| PRJEB28798 | ENA

activated sludge simple

Project description:activated sludge simple Raw sequence reads

| PRJNA825387 | ENA

Kentucky assay

Project description:Kentucky assay

| PRJNA610532 | ENA