Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Promoter nucleosome positioning in dendritic cells (DCs) and fibroblasts

ABSTRACT: Promoter nucleosome positioning in dendritic cells (DCs) and fibroblasts

PROVIDER: PRJNA596186 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR10719836.fastq.gz	Fastqsanger.gz
	SRR10719837.fastq.gz	Fastqsanger.gz
	SRR10719838.fastq.gz	Fastqsanger.gz
	SRR10719839.fastq.gz	Fastqsanger.gz
	SRR10719840.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 20

Similar Datasets

Promoter nucleosome positioning in dendritic cells (DCs) and fibroblasts measured by ChIP-MNase-seq

Project description:Promoter nucleosome positioning in dendritic cells (DCs) and fibroblasts measured by ChIP-MNase-seq

| PRJNA596344 | ENA

Promoter nucleosome positioning in dendritic cells (DCs) and fibroblasts measured by ChIP-MNase-seq

Project description:We used ChIP-MNase to determine nucleosome positions around promoters in DCs and fibroblasts, after experimental treatment to stimulate inducible gene activation

2020-02-04 | GSE142167 | GEO

Promoter nucleosome positioning in dendritic cells (DCs) and fibroblasts

Project description:This SuperSeries is composed of the SubSeries listed below.

2020-02-04 | GSE142170 | GEO

Nucleosome positioning for 4 yeast species

Project description:Nucleosome positioning for 4 yeast species

| PRJNA130921 | ENA

Nucleosome Positioning Shapes Cryptic Antisense Transcription

Project description:Nucleosome Positioning Shapes Cryptic Antisense Transcription

| PRJNA1290268 | ENA

Noncoding RNA-mediated DNA methylation directs nucleosome positioning

Project description:We explored the mechanism by which RdDM affects nucleosome positioning in Arabidopsis thaliana. We showed that POLV has a direct effect on nucleosomes through the SWI/SNF complex. We found that the AGO4-siRNA complex is involved in nucleosome positioning via IDN2. Moreover, the SWI/SNF complex is not required for DNA methylation in positioned nucleosomes. Instead, we found that DNA methylation is needed for nucleosome positioning in differentially methylated regions. Taken together, we propose a model where the RdDM pathway directs nucleosome positioning through DNA methylation to establish transcriptional gene silencing.

2023-04-06 | GSE148173 | GEO

Native nucleosome-positioning elements for the investigation of nucleosome repositioning.

Project description:Native nucleosome-positioning elements for the investigation of nucleosome repositioning.

| PRJNA1211672 | ENA

Nucleosome positioning for 4 yeast species

Project description:We describe the genome-wide nucleosome profiles of four related yeast species. All species display the same global organization features first described in S. cerevisiae: a stereotypical nucleosome organization along genes, and the classification of promoters into these which contain or lack a pronounced Nucleosome Depleted region (NDR), with the latter displaying a more dynamic pattern of gene expression. This global similarity, however, does not reflect a static evolutionary pattern, as nucleosome positioning at specific genes diverged rapidly leaving practically no similarity between S. cerevisiae and C. glabrata orthologs (~50 Myr). We show that this rapid divergence in nucleosome positioning contrasts a conserved pattern of gene expression, consistent with the idea that divergence of nucleosome patterns has a limited effect on gene expression as many different configurations can support the same regulatory outcome.

2011-12-09 | GSE23577 | GEO

Nucleosome positioning in H3S57 mutants in yeast

Project description:Nucleosome positioning in H3S57 mutants in yeast

| PRJEB27296 | ENA

S. pombe genome-wide nucleosome mapping reveals positioning mechanisms distinct from S. cerevisiae

Project description:Positioned nucleosomes limit the access of proteins to DNA and implement regulatory features encoded in eukaryotic genomes. Here we generated the first genome-wide nucleosome positioning map for Schizosaccharomyces pombe and annotated transcription start and termination sites genome-wide. Using this resource we found surprising differences compared to the nucleosome organization in the distantly related yeast Saccharomyces cerevisiae [the cerevisiae data has been published by others (PMID: 17873876) and the raw data is deposited at ArrayExpress(E-MEXP-1172)]. DNA sequence guides nucleosome positioning differently, e.g., poly(dA:dT) elements are not enriched in S. pombe nucleosome-depleted regions (NDRs). Regular nucleosomal arrays emanate more asymmetrically, i.e., mainly co-directionally with transcription, from promoter NDRs, but promoters harbouring the histone variant H2A.Z show regular arrays also upstream. Regular nucleosome phasing in S. pombe has a very short repeat length of 154 base pairs, and requires a remodeler, Mit1, conserved in humans but not found in S. cerevisiae. Nucleosome positioning mechanisms are evidently not universal but evolutionarily plastic.

2010-02-01 | GSE16040 | 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