Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

In-situ cell-type specific chromatin topologies in the brain revealed by genome architecture mapping

ABSTRACT: We report the application of genome architecture mapping in specific cell types in mouse brain. We generated cell-type specific chromatin contact maps in mouse dopaminergic neurons from the midbrain ventral tegmental area (VTA DN), pyramidal glutamatergic neurons from the cornus ammonis 1 region of the hippocampus (CA1 PGN), and non-neuronal post-mitotic oligodendrocytes from the somatosensory cortex (SSC_Olig). We explored cell-type specific chromatin topologies genome-wide at multiple genomic scales. Our data demonstrates that chromatin organization is cell type specific and reflects cell specialization at all genomic scales.

ORGANISM(S): Mus musculus

PROVIDER: GSE148792 | GEO | 2021/08/27

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

In-situ cell-type specific chromatin topologies in the brain revealed by genome architecture mapping [ATAC-seq]

Project description:We report the application of genome architecture mapping in specific cell types in mouse brain. We generated cell-type specific chromatin contact maps in mouse dopaminergic neurons from the midbrain ventral tegmental area (VTA DN), pyramidal glutamatergic neurons from the cornus ammonis 1 region of the hippocampus (CA1 PGN), and non-neuronal post-mitotic oligodendrocytes from the somatosensory cortex (SSC_Olig). We explored cell-type specific chromatin topologies genome-wide at multiple genomic scales. Our data demonstrates that chromatin organization is cell type specific and reflects cell specialization at all genomic scales.

2021-08-27 | GSE174024 | GEO

In-situ cell-type specific chromatin topologies in the brain revealed by genome architecture mapping

Project description:In-situ cell-type specific chromatin topologies in the brain revealed by genome architecture mapping

| PRJNA625732 | ENA

In-situ cell-type specific chromatin topologies in the brain revealed by genome architecture mapping [ATAC-seq]

Project description:In-situ cell-type specific chromatin topologies in the brain revealed by genome architecture mapping [ATAC-seq]

| PRJNA728375 | ENA

Trout macrophages: Control vs. Escherichia coli PGNs from strains O111:B4 and K12

Project description:We evaluated both the transcriptomic and inflammatory response in trout (O. mykiss) macrophages in primary cell culture stimulated with DAP-PGN (DAP; meso-diaminopimelic acid, PGN; peptidoglycan) from two strains of Escherichia coli (PGN-K12 and PGN-O111:B4) over time. Transcript profiling was assessed using function-targeted cDNA microarrays hibridation (n = 36) to differential responses to both PGNs that are both time and treatment dependen over trout macrophages. Wild type E. coli (K12) generated an increase in transcript number/diversity over time whereas PGN-O111:B4 stimulation resulted in a more specific and intense response. In line with this gene Ontology analysis (GO) highlights a specific transcriptomic remodelling for PGN-O111:B4 whereas results obtained for PGN-K12 shows a high similarity with a general LPS response where multiple functional classes are related to ribosome biogenesis or cellular metabolism

2010-06-16 | GSE22330 | GEO

Trout macrophages: Control vs. Escherichia coli PGNs from strains O111:B4 and K12

2010-06-15 | E-GEOD-22330 | biostudies-arrayexpress

Opto-seq reveals input-specific immediate early gene induction in ventral tegmental area cell types

Project description:The ventral tegmental area (VTA) is a critical node in circuits governing motivated behavior and is home to diverse populations of neurons that release dopamine, GABA, glutamate, or combinations of these neurotransmitters. The VTA receives inputs from many brain regions, but a comprehensive understanding of input-specific activation of VTA neuronal subpopulations is lacking. To address this, we combined optogenetic stimulation of select VTA inputs with single-nucleus RNA sequencing (snRNAseq) and highly multiplexed in situ hybridization to identify distinct neuronal clusters and characterize their spatial distribution and activation patterns. Quantification of immediate early gene (IEG) expression revealed that different inputs activated select VTA subpopulations, which demonstrated cell-type specific IEG programs. Within dopaminergic subpopulations IEG induction levels correlated with differential expression of ion channel genes. This new transcriptomics-guided circuit analysis reveals the diversity of VTA activation driven by distinct inputs and provides a resource for future analysis of VTA cell types.

2024-06-18 | GSE235086 | GEO

SMARCB1 loss creates patient-specific MYC topologies that drive malignant rhabdoid tumor growth

Project description:SMARCB1 loss creates patient-specific MYC topologies that drive malignant rhabdoid tumor growth

| PRJNA902395 | ENA

SMARCB1 loss creates patient-specific MYC topologies that drive malignant rhabdoid tumor growth

Project description:SMARCB1 loss creates patient-specific MYC topologies that drive malignant rhabdoid tumor growth

| PRJNA903471 | ENA

Altered chromatin topologies caused by balanced chromosomal translocation lead to central iris hypoplasia [Hi-C]

Project description:Altered chromatin topologies caused by balanced chromosomal translocation lead to central iris hypoplasia [Hi-C]

| PRJNA1107486 | ENA

Altered chromatin topologies caused by balanced chromosomal translocation lead to central iris hypoplasia [Cut & Tag]

Project description:Altered chromatin topologies caused by balanced chromosomal translocation lead to central iris hypoplasia [Cut & Tag]