Similar studies for GEO DataSets (Select 200024447) - GEO DataSets

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Items: 20

Select item 2000244471.

A unique chromatin signature uncovers early developmental enhancers in humans

(Submitter supplied) Cell fate transitions involve integration of genomic information encoded by regulatory elements, such as enhancers, with the cellular environment. However, identification of the genomic sequences that control the earliest steps of human embryonic development represents a formidable challenge. Here we show that in human embryonic stem cells (hESCs) unique chromatin signatures identify two distinct classes of genomic elements, both of which are marked by the presence of chromatin regulators p300 and BRG1, and monomethylation of histone H3 at lysine 4 (H3K4me1). more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL9052
16 Samples

Download data: BED, TXT

Series

Accession:: GSE24447

ID:: 200024447

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000324832.

Dynamics of enhancer chromatin signatures mark the transition from pluripotency to cell specification during embryogenesis

(Submitter supplied) The generation of distinctive cell types that form different tissues and organs requires precise, temporal and spatial control of gene expression. This depends on specific cis-regulatory elements distributed in the non-coding DNA surrounding their target genes. Studies performed on mammalian embryonic stem cells and Drosophila embryos suggest that active enhancers form part of a defined chromatin landscape marked by histone H3 lysine 4 mono-methylation (H3K4me1) and histone H3 lysine 27 acetylation (H3K27ac). more...

Organism:: Danio rerio

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL10164
24 Samples

Download data: BED, WIG

Series

Accession:: GSE32483

ID:: 200032483

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000639763.

Brg1 Modulates Enhancer Activation and Polycomb-mediated Repression in Mesoderm Differentiation [ChIP-exo]

(Submitter supplied) We investigated the genome-wide occupancy changes in normal and Brg1-deleted mesoderm differentiation of mouse embryonic stem cells of chromatin regulators and histone modifications.

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17021
4 Samples

Download data: BW

Series

Accession:: GSE63976

ID:: 200063976

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000454484.

Brg1 Modulates Enhancer Activation and Polycomb-mediated Repression in Mesoderm Differentiation

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL17021 GPL13112
38 Samples

Download data: BED, BW

Series

Accession:: GSE45448

ID:: 200045448

PubMed Full text in PMC Similar studies

Select item 2000454475.

Brg1 Modulates Enhancer Activation and Polycomb-mediated Repression in Mesoderm Differentiation [ChIP-Seq]

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL13112
28 Samples

Download data: BED, BW

Series

Accession:: GSE45447

ID:: 200045447

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000454466.

Brg1 Modulates Enhancer Activation and Polycomb-mediated Repression in Mesoderm Differentiation [RNA-Seq]

(Submitter supplied) We investigated the global gene expression changes in normal and Brg1-deleted mesoderm differentiation of mouse embryonic stem cells.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
6 Samples

Download data: BW

Series

Accession:: GSE45446

ID:: 200045446

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000667797.

Dual Roles of Histone H3 Lysine 9 Acetylation in Human Embryonic Stem Cell Pluripotency and Neural Differentiation

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL11154
9 Samples

Download data: BEDGRAPH, TXT

Series

Accession:: GSE66779

ID:: 200066779

PubMed Full text in PMC Similar studies

Select item 2000667788.

ChIP-seq analysis of H3K9 acetylation enrichment in hESCs and day 8 neural progenitor cells

(Submitter supplied) H3K9 acetylation was enriched in pluripotency genes in hESCs and in neural genes in neural progenitor cells

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL11154
4 Samples

Download data: BEDGRAPH, TXT

Series

Accession:: GSE66778

ID:: 200066778

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000667779.

RNA-seq analysis of gene expression patterns responding to TSA treatment during hESC neural differentiation

(Submitter supplied) We report the differential roles of an HDAC inhibitor-TSA during hESC nerual commitment. In the initiation of hESC differentiation, TSA could inhibit the downregulation of pluripotency genes to maintain pluripotency, whereas in the neural commitment stage, TSA could promote neural gene expression to assist hESC nerual determination.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL11154
5 Samples

Download data: TXT

Series

Accession:: GSE66777

ID:: 200066777

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 20006602310.

Histone H3 globular domain acetylation identifies new class of enhancers

(Submitter supplied) We report the acetylation of lysine residues in the globular domain of H3 (H3K64ac and H3K122ac) marks active gene promoters and also a subset of active enhancers in mouse embryonic stem cells (mESCs), human erythroleukemic cell line (K562). Moreover, we find a novel class of active functional enhancers in ESCs that are marked by H3K122ac but which lack H3K27ac. This work suggests that a more complex analysis of histone acetylation is required to identify enhancers than was previously considered.

Organism:: Homo sapiens; Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL13112 GPL16791 GPL17021
10 Samples

Download data: BED, BEDGRAPH

Series

Accession:: GSE66023

ID:: 200066023

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Select item 20016065711.

The chromatin and regulatory properties of pluripotency-associated poised enhancers are conserved in vivo

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Gallus gallus; Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL24247 GPL26853
28 Samples

Download data: BED, BEDGRAPH, BROADPEAK, NARROWPEAK, TXT

Series

Accession:: GSE160657

ID:: 200160657

PubMed Full text in PMC Similar studies

Select item 20016065612.

The chromatin and regulatory properties of pluripotency-associated poised enhancers are conserved in vivo [HiChIP]

(Submitter supplied) Transcriptional and phenotypic robustness during development is believed to require complex regulatory landscapes whereby multiple enhancers redundantly control the expression of major cell identity genes. In contrast, we previously described a limited and genetically distinct set of distal regulatory elements, known as poised enhancers (PEs), that control the induction of genes involved in early brain development in a hierarchical and non-redundant manner. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL24247
13 Samples

Download data: BED, BEDGRAPH, TXT

Series

Accession:: GSE160656

ID:: 200160656

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20016065413.

The chromatin and regulatory properties of pluripotency-associated poised enhancers are conserved in vivo [ChIP-seq]

Organism:: Gallus gallus; Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL24247 GPL26853
12 Samples

Download data: BEDGRAPH, BROADPEAK, NARROWPEAK

Series

Accession:: GSE160654

ID:: 200160654

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20016065314.

The chromatin and regulatory properties of pluripotency-associated poised enhancers are conserved in vivo [ATAC-seq]

Organism:: Gallus gallus; Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL26853 GPL24247
3 Samples

Download data: BEDGRAPH, NARROWPEAK

Series

Accession:: GSE160653

ID:: 200160653

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20002002315.

Chromatin signature of embryonic pluripotency is established during zygotic genome activation [Danio rerio]

(Submitter supplied) [PROJECT] After fertilization the embryonic genome is inactive until transcription is initiated during the maternal-zygotic transition (MZT). This universal process coincides with the formation of pluripotent cells, which in mammals can be used to generate embryonic stem (ES) cells. To study the changes in chromatin structure that accompany zygotic genome activation and pluripotency, we mapped the genomic locations of histone H3 modifications before and after MZT in zebrafish embryos. more...

Organism:: Danio rerio

Type:: Genome binding/occupancy profiling by genome tiling array

Platform:: GPL9970
12 Samples

Download data: PAIR, WIG

Series

Accession:: GSE20023

ID:: 200020023

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20010963616.

ChIP-seq profiling of transcriptional co-activator p300 during early myogenic differentiation

(Submitter supplied) Molecular regulation of stem cell differentiation is exerted through both genetic and epigenetic determinants over distal regulatory or enhancer regions. Understanding the mechanistic action of active or poised enhancers is thus imperative for control of stem cell differentiation. Based on a genome-wide co-occurrence of different epigenetic marks in committed proliferating myoblasts, we have previously generated a 14-state chromatin state model to profile residue-specific histone acetylation in early myoblast differentiation. more...

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL13112
3 Samples

Download data: BIGWIG, BW

Series

Accession:: GSE109636

ID:: 200109636

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20011455117.

H3.3 phosphorylation promotes enhancer acetylation and lineage specification

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:: GPL19057
80 Samples

Download data: BW

Series

Accession:: GSE114551

ID:: 200114551

PubMed Full text in PMC Similar studies

Select item 20011454918.

H3.3 phosphorylation promotes enhancer acetylation and lineage specification [RNA-seq]

(Submitter supplied) H3.3 phosphorylation promotes high levels of histone acetylation in mouse embryonic stem cells, which are central to the initiation of new transcription during lineage specification.