Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Homo sapiens

ABSTRACT: Nucleosome positioning in the IMR90 cell line

PROVIDER: PRJNA192702 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR769551.fastq.gz	Fastqsanger.gz
	SRR769552.fastq.gz	Fastqsanger.gz
	SRR769553.fastq.gz	Fastqsanger.gz

Items per page:

1 - 3 of 3

Similar Datasets

Homo sapiens

Project description:Nucleosome map of the IMR90 fibroblast cell line

| PRJNA127079 | ENA

Genome-wide mapping of nucleosome positioning and DNA methylation within Individual DNA molecules

Project description:DNA methylation and nucleosome positioning work together to generate chromatin structures that regulate gene expression. Nucleosomes are typically mapped using nuclease digestion requiring significant amounts of material and varying enzyme concentrations. We have developed a method (NOMe-seq) that uses a GpC methyltransferase (M.CviPI) and next generation sequencing to generate a high resolution footprint of nucleosome positioning genome-wide using less than 1 million cells while retaining endogenous DNA methylation information from the same DNA strand. Using a novel bioinformatics pipeline we show a striking anti-correlation between nucleosome occupancy and DNA methylation at CTCF regions, that is not present at promoters. We further show that the extent of nucleosome depletion at promoters is directly correlated to expression level and can accommodate multiple nucleosomes and provide genome-wide evidence that expressed non-CpG island promoters are nucleosome depleted. Importantly, NOMe-seq obtains DNA methylation and nucleosome positioning information from the same DNA molecule, giving the first genome-wide DNA methylation and nucleosome positioning correlation at the single molecule and thus, single cell level that can be used to monitor disease progression and response to therapy. Nucleosome Occupancy and Methylome-Sequencing (NOMe-Seq) on IMR90 cell line and 2 GBM cell lines

2012-09-12 | E-GEOD-40770 | biostudies-arrayexpress

Homo sapiens

Project description:Nucleosome positioning changes during human embryonic stem cell differentiation.

| PRJNA196528 | ENA

Nucleosome positioning changes during cell reprogramming

Project description:Nucleosome positioning in a 2.3 Mb region of human chromosome 12 (chr12: 6,140,000-8,460,000) containing GAPDH and NANOG loci in human IMR90 fibroblasts (hFibs) and fibroblast-derived human induced pluripotent stem cell (hiPSCs).

2022-06-30 | E-MTAB-10074 | biostudies-arrayexpress

Homo sapiens

Project description:Changes in global nucleosome positioning during human embryonic stem cell differentiation

| PRJNA196743 | ENA