Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells

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

ORGANISM(S): Mus musculus

PROVIDER: GSE135601 | GEO | 2020/05/06

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells.

Project description:Hematopoietic stem cell (HSC) ontogeny is accompanied by dynamic changes in gene regulatory networks. We performed RNA-seq and histone mark ChIP-seq to define the transcriptomes and epigenomes of cells representing key developmental stages of HSC ontogeny in mice. The five populations analyzed were embryonic day 10.5 (E10.5) endothelium and hemogenic endothelium from the major arteries, an enriched population of prehematopoietic stem cells (pre-HSCs), fetal liver HSCs, and adult bone marrow HSCs. Using epigenetic signatures, we identified enhancers for each developmental stage. Only 12% of enhancers are primed, and 78% are active, suggesting the vast majority of enhancers are established de novo without prior priming in earlier stages. We constructed developmental stage-specific transcriptional regulatory networks by linking enhancers and predicted bound transcription factors to their target promoters using a novel computational algorithm, target inference via physical connection (TIPC). TIPC predicted known transcriptional regulators for the endothelial-to-hematopoietic transition, validating our overall approach, and identified putative novel transcription factors, including the broadly expressed transcription factors SP3 and MAZ. Finally, we validated a role for SP3 and MAZ in the formation of hemogenic endothelium. Our data and computational analyses provide a useful resource for uncovering regulators of HSC formation.

| S-EPMC7328518 | biostudies-literature

Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells [RNA-Seq]

Project description:Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells

2020-05-06 | GSE135600 | GEO

Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells [ChIP-Seq]

Project description:Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells

2020-05-06 | GSE135599 | GEO

Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells [scRNA-seq]

Project description:Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells.

2020-05-06 | GSE146684 | GEO

Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells

Project description:Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells

| PRJNA559391 | ENA

The transcriptional landscape of hematopoietic stem cell ontogeny.

Project description:Transcriptome analysis of adult hematopoietic stem cells (HSCs) and their progeny has revealed mechanisms of blood differentiation and leukemogenesis, but a similar analysis of HSC development is lacking. Here, we acquired the transcriptomes of developing HSCs purified from >2,500 murine embryos and adult mice. We found that embryonic hematopoietic elements clustered into three distinct transcriptional states characteristic of the definitive yolk sac, HSCs undergoing specification, and definitive HSCs. We applied a network-biology-based analysis to reconstruct the gene regulatory networks of sequential stages of HSC development and functionally validated candidate transcriptional regulators of HSC ontogeny by morpholino-mediated knockdown in zebrafish embryos. Moreover, we found that HSCs from in vitro differentiated embryonic stem cells closely resemble definitive HSCs, yet lack a Notch-signaling signature, likely accounting for their defective lymphopoiesis. Our analysis and web resource will enhance efforts to identify regulators of HSC ontogeny and facilitate the engineering of hematopoietic specification.

| S-EPMC3545475 | biostudies-literature

Regulatory Modules Controlling Maize Inflorescence Architecture

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

2013-11-27 | E-GEOD-51050 | biostudies-arrayexpress

Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells [ChIP-Seq]

Project description:Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells [ChIP-Seq]

| PRJNA559393 | ENA

Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells [scRNA-seq]

Project description:Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells [scRNA-seq]

| PRJNA611618 | ENA

Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells [RNA-Seq]

Project description:Transcriptional regulatory network controlling the ontogeny of hematopoietic stem cells [RNA-Seq]