Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single-cell RNA-seq of sorted E11.5 AGM HSCs

ABSTRACT: The aim of this study was to analyse the heterogeneity within the first haematopoietic stem cells generated during mouse development using single-cell RNA-Seq. Freshly dissected aorta-gonads-mesohenphros (AGM) regions from E11.5 mouse embryos were dissociated by collagenase and the cells stained for the cell surface markers EPCR and CD45. EPCR+CD45+ cells were index-sorted as single cells into 96-well plates and processed based on the SmartSeq2 protocol. PCA and tSNE analyses identified 2 main subpopulations which are segregated based on differences in cell cycle. Known HSC markers such as Gata2 and Runx1 show little correlation.

ORGANISM(S): Mus musculus

PROVIDER: GSE139052 | GEO | 2022/05/16

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Single-cell RNA-seq of sorted E11.5 AGM HSCs

Project description:Single-cell RNA-seq of sorted E11.5 AGM HSCs

| PRJNA578153 | ENA

Transcriptome imposed by Notch ligands (Jag1 or Dll4) on ckit+ and ckit- cells from E11.5 AGM

2015-08-20 | GSE59344 | GEO

Transcriptomic analysis of E11.5 AGM VE cadherin populations

Project description:We sorted endothelial (EC), hematopoietic (HC) and hematopoietic stem/progenitor (HSPC) cell populations from AGM of E11.5 C57Bl6 embryos, established and compared their transcriptome to highlight specific regulators of hematopoietic emergence.

2019-08-24 | GSE133804 | GEO

Single-cell transcriptomic interrogation of hematopoietic progenitors within the E11.5 AGM of the mouse

Project description:To clarify the relationship between eMPPs and other progenitors, including pre-HSCs, within the AGM landscape, we performed single cell RNA-sequencing of hematopoietic progenitors within the E11.5 AGM.

2022-02-10 | GSE180357 | GEO

Interferon-alpha signaling promotes AGM HSC maturation

Project description:Interferon-alpha promotes engraftment of mid-gestation hematopoietic stem cells by promoting competitiveness and restore the hematopoietic defect of Arid3a knockout embryos We used microarray to response of AGM HSCs (VE+CD45+) to IFNa (0.5ng/ml) treatment for 4 hours

2016-07-11 | GSE70878 | GEO

ChIP-on-chip with anti-RBPj antibody from embryonic AGM E11.5

Project description:Hematopoietic Stem Cells (HSC) are originated during embryonic development from endothelial-like cells located in the ventral side of the dorsal aorta around day E10-12 of murine development. This region is called AGM for Aorta/Gonad/Mesonephros refering to the tissues around the hemogenic aorta. Hematopoiesis depends on the Notch pathway and the identification of Notch-targets is important for the understanding of blood origin. Hematopoietic Stem Cells (HSCs) specification occurs in the embryonic aorta and requires Notch activation, however which are the elements regulated by Notch that control this process are mainly unknown. Here, we took a genome-wide approach to identify putative direct Notch targets by precipitating the chromatin that binds to the Notch partner RBPj in the Aorta-Gonad-Mesonephros (AGM) tissue from E11.5 mouse embryos. This assay revealed 701 gene promoter regions as candidates to be regulated by Notch in the AGM. Chromatin was obtained from a pool of 40 dissected AGMs at E11.5. Chromatin immunoprecipitation (ChIP) was performed as previously described (Aguilera et al, PNAS 2004) with minor modifications. In brief, cross-linked chromatin was sonicated for 10 minutes, medium-power, 0.5-interval; with a Bioruptor (Diagenode) and precipitated with anti-RBPJ (Chu and Bresnick, 2004). After crosslinkage reversal, DNA was used as a template for PCR or for array hybridization. Mouse promoter chip on chip microarray SET (Agilent) was used to identify RBPj targets. It covers 70,000 best identified gene regions with a-5.5 kb to + 2.5 kb range, and has on average 25 probes per gene with an average probe to probe distance of 200 bp. The ChIP-on-chip was performed with dye swaps and one IgG control was brought along. Enrichment analysis was done by comparing the precipitation normalized dye swap signal with input control signal.

2014-10-22 | E-GEOD-52094 | biostudies-arrayexpress

ChIP-on-chip with anti-RBPj antibody from embryonic AGM E11.5

2014-10-22 | GSE52094 | GEO

Expression from early pre-hematopoietic progenitors from mouse embryo

2012-07-02 | E-GEOD-35395 | biostudies-arrayexpress

Transcriptomic analysis of E11.5 AGM VE cadherin populations

Project description:Transcriptomic analysis of E11.5 AGM VE cadherin populations

| PRJNA552572 | ENA

RNA-Seq of sorted E10.5 and E11.5 AGM cell populations from Gata3-GFP embryos

Project description:The aim of this study was to examine the whole transcriptome of pools of 20 cells of Gata3-expressing AGM subpopulations (haematopoietic [HC], mesenchymal [MC], sympathetic nervous system [SNS], and endothelial [EC]) and compare them to their non-Gata3 expressing counterparts

2020-05-25 | GSE114926 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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