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 (10X Genomics Chromium) of LGE, MGE, CGE, and Cortex from mouse embryonic forebrain

ABSTRACT: We performed single-cell RNA sequencing to characterize transcriptional heterogeneity of neural progenitors within the ventricular zone and subventricular zone of E12.5 and E14.5 mouse cortex and ganglionic eminences. By using a transgenic mouse line (Nestin-d4-Venus) to enrich for VZ cells, we detect significant transcriptional heterogeneity within VZ and SVZ progenitors, both between forebrain regions and within spatial subdomains of specific GEs.

ORGANISM(S): Mus musculus

PROVIDER: GSE190593 | GEO | 2022/02/28

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Single-cell RNA-seq (Drop-seq) of MGE, CGE and LGE of E13.5 (MGE) and E14.5 (CGE, LGE) mouse embryos

Project description:Single-cell RNA-seq to profile a developmental time course of interneuron development, measuring the transcriptomes of progenitors during their maturation in the ganglionic eminences.

2018-03-05 | GSE103983 | GEO

Single-cell RNA-seq (10X Genomics Chromium) of MGE, CGE, cortical and subcortical regions of E13.5, E18.5 and P10 mice

2018-03-05 | GSE104156 | GEO

MGE, CGE, LGE and cortical regions from mouse embryonic forebrain

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

2022-07-01 | GSE201494 | GEO

Capture-C in MGE, CGE, LGE and cortical regions from mouse embryonic forebrain

Project description:While comparative genetic analysis has been performed between distinct regions of the embryonic forebrain, a comprehensive characterization of differential epigenomic organization has not been performed. We collected single-cell chromatin accessibility profiles from four distinct neurogenic regions of the embryonic mouse forebrain using single nuclei ATAC-Seq (snATAC-Seq). We identified thousands of differentially accessible peaks, many restricted to distinct progenitor cell types or brain regions. We integrated snATAC-Seq and single cell transcriptome data to characterize changes of chromatin accessibility at enhancers and promoters that were tightly coupled to transcript abundance. Multi-modal integration of histone modifications (CUT&Tag and CUT&RUN), promoter-enhancer interactions (Capture-C) and high-order chromatin structure (Hi-C) extended these initial observations. This dataset reveals a diverse chromatin landscape with region-specific regulatory mechanisms and genomic interactions in distinct neurogenic regions of the embryonic mouse brain and represents an extensive public resource of a ‘ground truth’ epigenomic landscape at this critical stage of neurogenesis.

2022-07-01 | GSE201317 | GEO

Hi-C in MGE, CGE, LGE and cortical regions from mouse embryonic forebrain

2022-07-01 | GSE201186 | GEO

CUT&RUN (H3K27Ac3) in MGE, CGE, LGE and cortical regions from mouse embryonic forebrain

2022-07-01 | GSE201400 | GEO

The protomap is propagated to cortical plate neurons through an Eomes-dependent intermediate map

Project description:The cortical area map is initially patterned by transcription factor (TF) gradients in the neocortical primordium, which define a protomap in the embryonic ventricular zone (VZ). However, mechanisms that propagate regional identity from VZ progenitors to cortical plate (CP) neurons are unknown. Here we show that the VZ, subventricular zone (SVZ), and CP contain distinct molecular maps of regional identity, reflecting different gene expression gradients in radial glia progenitors, intermediate progenitors, and projection neurons, respectively. The intermediate map in SVZ is modulated by Eomes (also known as Tbr2), a T-box TF. Eomes inactivation caused rostrocaudal shifts in SVZ and CP gene expression, with loss of corticospinal axons and gain of corticotectal projections. These findings suggest that cortical areas and connections are shaped by sequential maps of regional identity, propagated by the Pax6 → Eomes → Tbr1 TF cascade. In humans, PAX6, EOMES, and TBR1 have been linked to intellectual disability and autism.

2013-04-02 | GSE43387 | GEO

The protomap is propagated to cortical plate neurons through an Eomes-dependent intermediate map

Project description:The cortical area map is initially patterned by transcription factor (TF) gradients in the neocortical primordium, which define a protomap in the embryonic ventricular zone (VZ). However, mechanisms that propagate regional identity from VZ progenitors to cortical plate (CP) neurons are unknown. Here we show that the VZ, subventricular zone (SVZ), and CP contain distinct molecular maps of regional identity, reflecting different gene expression gradients in radial glia progenitors, intermediate progenitors, and projection neurons, respectively. The intermediate map in SVZ is modulated by Eomes (also known as Tbr2), a T-box TF. Eomes inactivation caused rostrocaudal shifts in SVZ and CP gene expression, with loss of corticospinal axons and gain of corticotectal projections. These findings suggest that cortical areas and connections are shaped by sequential maps of regional identity, propagated by the Pax6 ? Eomes ? Tbr1 TF cascade. In humans, PAX6, EOMES, and TBR1 have been linked to intellectual disability and autism. To determine the role of Eomes in the propagation of the protomap to cortical plate neurons, used microarray analysis of E14.5 cortex from five wild type and three Eomes knockout mice.

2013-04-02 | E-GEOD-43387 | biostudies-arrayexpress

CUT&Tag (H3K27me3) in MGE, CGE, LGE and cortical regions from mouse (C57BL/6J) embryonic forebrain

2022-07-01 | GSE201488 | GEO

CUT&Tag (H3K4me3) in MGE, CGE, LGE and cortical regions from mouse (C57BL/6J) embryonic forebrain

2022-07-01 | GSE201487 | GEO