Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Multiplex Single Cell Profiling of Chromatin Accessibility by Combinatorial Cellular Indexing [ATAC-seq]

ABSTRACT: Multiplex Single Cell Profiling of Chromatin Accessibility by Combinatorial Cellular Indexing [ATAC-seq]

PROVIDER: PRJNA279961 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR1947691_1.fastq.gz	Fastqsanger.gz
	SRR1947691_2.fastq.gz	Fastqsanger.gz
	SRR1947692_1.fastq.gz	Fastqsanger.gz
	SRR1947692_2.fastq.gz	Fastqsanger.gz
	SRR1947693_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

Multiplex Single Cell Profiling of Chromatin Accessibility by Combinatorial Cellular Indexing [RNA-seq]

Project description:Technical advances have enabled the collection of genome and transcriptome data sets with single-cell resolution. However, single-cell characterization of the epigenome has remained challenging. Furthermore, because cells must be physically separated prior to biochemical processing, conventional single-cell preparatory methods scale linearly. We applied combinatorial cellular indexing to measure chromatin accessibility in thousands of single cells per assay, circumventing the need for compartmentalization of individual cells. We report chromatin accessibility profiles from over 15,000 single cells and use these data to cluster cells on the basis of chromatin accessibility landscapes. We identify modules of coordinately regulated chromatin accessibility at the level of single cells both between and within cell types, with a scalable method that may accelerate progress toward a human cell atlas. 3 replicates from GM12878 and HL-60 cell lines collected for differential gene expression analysis.

2015-05-07 | E-GEOD-68102 | biostudies-arrayexpress

Multiplex Single Cell Profiling of Chromatin Accessibility by Combinatorial Cellular Indexing

Project description:Technical advances have enabled the collection of genome and transcriptome data sets with single-cell resolution. However, single-cell characterization of the epigenome has remained challenging. Furthermore, because cells must be physically separated prior to biochemical processing, conventional single-cell preparatory methods scale linearly. We applied combinatorial cellular indexing to measure chromatin accessibility in thousands of single cells per assay, circumventing the need for compartmentalization of individual cells. We report chromatin accessibility profiles from over 15,000 single cells and use these data to cluster cells on the basis of chromatin accessibility landscapes. We identify modules of coordinately regulated chromatin accessibility at the level of single cells both between and within cell types, with a scalable method that may accelerate progress toward a human cell atlas. This SuperSeries is composed of the SubSeries listed below.

2015-05-07 | GSE68103 | GEO

Multiplex Single Cell Profiling of Chromatin Accessibility by Combinatorial Cellular Indexing [RNA-seq]

2015-05-07 | GSE68102 | GEO

Multiplex Single Cell Profiling of Chromatin Accessibility by Combinatorial Cellular Indexing [ATAC-seq]

2015-05-07 | GSE67446 | GEO

Multiplex single cell profiling of chromatin accessibility by combinatorial cellular indexing.

Project description:Technical advances have enabled the collection of genome and transcriptome data sets with single-cell resolution. However, single-cell characterization of the epigenome has remained challenging. Furthermore, because cells must be physically separated before biochemical processing, conventional single-cell preparatory methods scale linearly. We applied combinatorial cellular indexing to measure chromatin accessibility in thousands of single cells per assay, circumventing the need for compartmentalization of individual cells. We report chromatin accessibility profiles from more than 15,000 single cells and use these data to cluster cells on the basis of chromatin accessibility landscapes. We identify modules of coordinately regulated chromatin accessibility at the level of single cells both between and within cell types, with a scalable method that may accelerate progress toward a human cell atlas.

| S-EPMC4836442 | biostudies-literature

Droplet-based combinatorial indexing for massive-scale single-cell chromatin accessibility

Project description:Droplet-based combinatorial indexing for massive-scale single-cell chromatin accessibility

| PRJNA509250 | ENA

Comprehensive single cell transcriptional profiling of a multicellular organism by combinatorial indexing

Project description:We developed a combinatorial indexing strategy to profile the transcriptomes of large numbers of single cells or nuclei (Single cell Combinatorial Indexing RNA-seq or sci-RNA-seq). We applied sci-RNA-seq to profile nearly 50,000 cells from C. elegans at the L2 stage, effectively ~56-fold “shotgun cellular coverage” of its somatic cell composition.

2017-08-17 | GSE98561 | GEO

High-content single-cell combinatorial indexing

Project description:High-content single-cell combinatorial indexing

| PRJNA728882 | ENA

High-throughput combinatorial indexing enables scalable single-cell chromatin accessibility profiling [Validation]

Project description:High-throughput combinatorial indexing enables scalable single-cell chromatin accessibility profiling [Validation]

| PRJNA549875 | ENA

High-throughput combinatorial indexing enables scalable single-cell chromatin accessibility profiling [Blood]

Project description:High-throughput combinatorial indexing enables scalable single-cell chromatin accessibility profiling [Blood]

| PRJNA509252 | ENA