Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Comprehensive identification and spatial mapping of habenular neuronal types using single cell RNAseq

ABSTRACT: Comprehensive identification and spatial mapping of habenular neuronal types using single cell RNAseq

PROVIDER: PRJNA414719 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	SRR6468740_1.fastq.gz	Fastqsanger.gz
	SRR6468740_2.fastq.gz	Fastqsanger.gz
	SRR6468750_1.fastq.gz	Fastqsanger.gz
	SRR6468750_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 2283

Similar Datasets

Comprehensive Identification and Spatial Mapping of Habenular Neuronal Types Using Single-Cell RNA-Seq.

Project description:The identification of cell types and marker genes is critical for dissecting neural development and function, but the size and complexity of the brain has hindered the comprehensive discovery of cell types. We combined single-cell RNA-seq (scRNA-seq) with anatomical brain registration to create a comprehensive map of the zebrafish habenula, a conserved forebrain hub involved in pain processing and learning. Single-cell transcriptomes of ?13,000 habenular cells with 4× cellular coverage identified 18 neuronal types and dozens of marker genes. Registration of marker genes onto a reference atlas created a resource for anatomical and functional studies and enabled the mapping of active neurons onto neuronal types following aversive stimuli. Strikingly, despite brain growth and functional maturation, cell types were retained between the larval and adult habenula. This study provides a gene expression atlas to dissect habenular development and function and offers a general framework for the comprehensive characterization of other brain regions.

| S-EPMC6042852 | biostudies-literature

Comprehensive identification and spatial mapping of habenular neuronal types using single cell RNAseq

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

2018-03-23 | GSE105115 | GEO

single-cell transcriptional profiling of the murine habenular complex

Project description:The lateral habenula (LHb) is an epithalamic brain structure critical for processing and adapting to negative action outcomes. However, despite the importance of LHb to behavior and the clear anatomical and molecular diversity of LHb neurons, the neuron types of the habenula remain unknown. Here, we use high-throughput single-cell transcriptional profiling, monosynaptic retrograde tracing, and multiplexed FISH to characterize the cells of the mouse habenula. We find five subtypes of neurons in the medial habenula (MHb) that are organized into anatomical subregions. In the LHb, we describe four neuronal subtypes and show that they differentially target dopaminergic and GABAergic cells in the ventral tegmental area (VTA). These data provide a valuable resource for future study of habenular function and dysfunction and demonstrate neuronal subtype specificity in the LHb-VTA circuit.

2020-03-15 | GSE146983 | GEO

Smart-seq2 analysis of larval zebrafish habenula from the gng8-GFP transgenic line

Project description:The identification of cell types and marker genes is critical for dissecting neural development and function, but the size and complexity of the brain has hindered the comprehensive discovery of cell types. We combined single-cell RNA-seq with anatomical brain registration to create a comprehensive map of the zebrafish habenula, a conserved forebrain hub involved in pain processing and learning. Single-cell transcriptomes of ~13000 habenular cells (>4x coverage) identified 18 neuronal types and dozens of marker genes. Registration of marker genes onto a common reference atlas created a rich resource for anatomical and functional studies and enabled the mapping of active neurons onto neuronal types following aversive stimuli. Strikingly, despite brain growth and functional maturation, cell types were retained between the larval and adult habenula. This study provides a gene expression atlas to dissect habenular development and function and offers a general framework for the comprehensive characterization of other brain regions.

2018-03-23 | GSE109159 | GEO

10X genomics analysis of adult and larval habenula from the gng8-GFP transgenic line

Project description:The identification of cell types and marker genes is critical for dissecting neural development and function, but the size and complexity of the brain has hindered the comprehensive discovery of cell types. We combined single-cell RNA-seq with anatomical brain registration to create a comprehensive map of the zebrafish habenula, a conserved forebrain hub involved in pain processing and learning. Single-cell transcriptomes of ~13000 habenular cells (>4x coverage) identified 18 neuronal types and dozens of marker genes. Registration of marker genes onto a common reference atlas created a rich resource for anatomical and functional studies and enabled the mapping of active neurons onto neuronal types following aversive stimuli. Strikingly, despite brain growth and functional maturation, cell types were retained between the larval and adult habenula. This study provides a gene expression atlas to dissect habenular development and function and offers a general framework for the comprehensive characterization of other brain regions.

2018-03-23 | GSE109158 | GEO

Molecular profiling of physiologically-defined neuronal types

Project description:Molecular profiling of physiologically-defined neuronal types

| PRJNA524318 | ENA

Comprehensive DNA methylation analysis of neuronal and non-neuronal nuclei in the human brain

Project description:We performed comprehensive DNA methylation analysis in neuronal and non-neuronal nuclei obtained from the human prefrontal cortex. This revealed that neuronal and non-neuronal nuclei manifest qualitatively and quantitatively distinctive DNA methylation patterns.

2011-02-21 | GSE15014 | GEO

Gbx2 is essential for maintaining thalamic neuron identity and repressing habenular characters in the developing thalamus

Project description:Using microarray, we compared the transcriptome of the wild-type and Gbx2-KO thalamus at E12.5. We show that Gbx2 promotes thalamic but inhibits habenular molecular characters.

2015-12-01 | GSE71690 | GEO

A comprehensive DNA methylation atlas for noncancer human tissue types

Project description:A comprehensive DNA methylation atlas for noncancer human tissue types

| PRJNA976234 | ENA

Habenular Tcf7l2 links nicotine addiction to diabetes

Project description:Habenular Tcf7l2 links nicotine addiction to diabetes

| PRJNA564583 | ENA