Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Cell type-specific regulation by intragenic CpG islands

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Mus musculus

PROVIDER: GSE82142 | GEO | 2017/12/30

SECONDARY ACCESSION(S): PRJNA324124

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Cell Type-Specific DNA Methylation at Intragenic CpG Islands in the Immune System

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2011-05-23 | E-GEOD-25689 | biostudies-arrayexpress

Cell Type-Specific DNA Methylation at Intragenic CpG Islands in the Immune System

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

2011-05-23 | GSE25689 | GEO

Cell type-specific regulation by intragenic CpG islands [WGBS]

Project description:We wanted to emphisize the role of intragenic CpG island in various cell differentiation. We especially examined the effect of DNA methyltransferase (DNMT) in the neural differentiation from mouse ES cell. Therefore, we performed the Whole-Genome Bisulfite Sequencing (WGBS) analysis of mouse ES cell, ESC-derived NPC, and also in DNMT double knockout (DKO) conditions. By utilizing these result, we confirmed the genes regulated by intragenic CpG island methylation have effect in NPC differentation.

2017-12-30 | GSE82125 | GEO

Cell type-specific regulation by intragenic CpG islands [RNA-seq]

Project description:We wanted to emphisize the role of intragenic CpG island in various cell differentiation. We especially examined the effect of DNA methyltransferase (DNMT) in the neural differentiation from mouse ES cell. Therefore, we performed the transcriptome analysis of mouse ES cell, ESC-derived NPC, and also in DNMT double knockout (DKO) conditions. By utilizing these result, we confirmed the genes regulated by intragenic CpG island methylation have effect in NPC differentation.

2017-12-30 | GSE81925 | GEO

Cell type-specific regulation by intragenic CpG islands

Project description:Cell type-specific regulation by intragenic CpG islands

| PRJNA324124 | ENA

Cell type-specific DNA methylation at intragenic CpG islands in the immune system.

Project description:Human and mouse genomes contain a similar number of CpG islands (CGIs), which are discrete CpG-rich DNA sequences associated with transcription start sites. In both species, ∼50% of all CGIs are remote from annotated promoters but, nevertheless, often have promoter-like features. To determine the role of CGI methylation in cell differentiation, we analyzed DNA methylation at a comprehensive CGI set in cells of the mouse hematopoietic lineage. Using a method that potentially detects ∼33% of genomic CpGs in the methylated state, we found that large differences in gene expression were accompanied by surprisingly few DNA methylation changes. There were, however, many DNA methylation differences between hematopoietic cells and a distantly related tissue, brain. Altered DNA methylation in the immune system occurred predominantly at CGIs within gene bodies, which have the properties of cell type-restricted promoters, but infrequently at annotated gene promoters or CGI flanking sequences (CGI "shores"). Unexpectedly, elevated intragenic CGI methylation correlated with silencing of the associated gene. Differentially methylated intragenic CGIs tended to lack H3K4me3 and associate with a transcriptionally repressive environment regardless of methylation state. Our results indicate that DNA methylation changes play a relatively minor role in the late stages of differentiation and suggest that intragenic CGIs represent regulatory sites of differential gene expression during the early stages of lineage specification.

| S-EPMC3129250 | biostudies-literature

KDM2B links the Polycomb Repressive Complex 1 (PRC1) to recognition of CpG islands

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2012-12-26 | E-GEOD-41267 | biostudies-arrayexpress

Gene silencing triggers Polycomb Repressive Complex 2 recruitment to CpG islands genome-wide

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-07-03 | E-GEOD-58023 | biostudies-arrayexpress

Clustering of CpG islands constitutes an important determinant of the interphase chromosome 3D organization

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-03-01 | E-GEOD-51939 | biostudies-arrayexpress

Differential roles for MBD2 and MBD3 at methylated CpG islands, active promoters and exon sequences

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series