Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A global map of RNA binding protein occupancy guides functional dissection of post-transcriptional regulation of the T cell transcriptome [Hs]

ABSTRACT: A global map of RNA binding protein occupancy guides functional dissection of post-transcriptional regulation of the T cell transcriptome [Hs]

PROVIDER: PRJNA476360 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR7349183.fastq.gz	Fastqsanger.gz
	SRR7349184.fastq.gz	Fastqsanger.gz
	SRR7349185.fastq.gz	Fastqsanger.gz
	SRR7349186.fastq.gz	Fastqsanger.gz
	SRR7349187.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

A global map of RNA binding protein occupancy guides functional dissection of post-transcriptional regulation of the T cell transcriptome [Hs]

Project description:RBP binding sites were globally mapped by a biochemical technique in human T cells

2018-07-01 | GSE115886 | GEO

Genome-wide occupancy map of NFIC in mouse pancreas

Project description:Genome-wide occupancy map of NFIC in mouse pancreas

| PRJNA750709 | ENA

Absolute nucleosome occupancy map for the Saccharomyces cerevisiae genome

Project description:Absolute nucleosome occupancy map for the Saccharomyces cerevisiae genome

| PRJNA592071 | ENA

Escherichia coli HS strain:HS

Project description:Escherichia coli HS strain:HS Genome sequencing

| PRJNA1238343 | ENA

Maribacter sp. HS strain:HS

Project description:Maribacter sp. HS strain:HS Genome sequencing

| PRJNA1057603 | ENA

Absolute nucleosome occupancy map for the Saccharomyces cerevisiae genome [ORE-seq]

Project description:Absolute nucleosome occupancy map for the Saccharomyces cerevisiae genome [ORE-seq]

| PRJNA591902 | ENA

Absolute nucleosome occupancy map for the Saccharomyces cerevisiae genome [ODM-seq]

Project description:Absolute nucleosome occupancy map for the Saccharomyces cerevisiae genome [ODM-seq]

| PRJNA591885 | ENA

Absolute nucleosome occupancy map for the Saccharomyces cerevisiae genome [MNase-seq]

Project description:Absolute nucleosome occupancy map for the Saccharomyces cerevisiae genome [MNase-seq]

| PRJNA591853 | ENA

Deefgea sp. HS strain:HS

Project description:Deefgea sp. HS strain:HS Genome sequencing and assembly

| PRJNA984196 | ENA

Absolute nucleosome occupancy map for the Saccharomyces cerevisiae genome [ODM-seq]

Project description:Mapping of nucleosomes, the basic DNA packaging unit in eukaryotes, is fundamental for understanding genome regulation as nucleosomes modulate DNA access by their positioning along the genome. A cell population nucleosome map requires two observables: nucleosome positions along the DNA (“Where?”) and nucleosome occupancies across the population (“In how many cells?”). All available genome-wide nucleosome mapping techniques are yield methods as they score either nucleosomal (e.g., MNase-seq, chemical cleavage-seq) or non-nucleosomal (e.g., ATAC-seq) DNA but lose track of the total DNA population for each genomic region. Therefore, they only provide nucleosome positions and maybe compare relative occupancies between positions but cannot measure absolute nucleosome occupancy, which is the fraction of all DNA molecules occupied at a given position and time by a nucleosome. Here, we established two orthogonal and thereby crossvalidating approaches to measure absolute nucleosome occupancy across the Saccharomyces cerevisiae genome via restriction enzymes and DNA methyltransferases. The resulting high-resolution (9 bp) map shows uniform absolute occupancies. Most nucleosome positions are occupied in most cells: 97% of all nucleosomes called by chemical cleavage-seq have a mean absolute occupancy of 90 ± 6% (± SD). Depending on nucleosome position calling procedures, there are 57-60,000 nucleosomes per yeast cell. The few low absolute occupancy nucleosomes do not correlate with highly transcribed gene bodies, but with increased presence of the nucleosome-evicting RSC chromatin remodeling complex there and are enriched upstream of highly transcribed or regulated genes. Our work provides a quantitative method and reference frame in absolute terms for future chromatin studies.

2019-11-27 | GSE141051 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data