Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Multi-omic profiling of the developing human cerebral cortex at the single cell level

ABSTRACT: Multi-omic profiling of the developing human cerebral cortex at the single cell level

PROVIDER: PRJNA841952 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR19374511_1.fastq.gz	Fastqsanger.gz
	SRR19374511_2.fastq.gz	Fastqsanger.gz
	SRR19374512_1.fastq.gz	Fastqsanger.gz
	SRR19374512_2.fastq.gz	Fastqsanger.gz
	SRR19374513_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 48

Similar Datasets

Multi-omic profiling of the developing human cerebral cortex at the single cell level [snATAC-seq]

Project description:Multi-omic profiling of the developing human cerebral cortex at the single cell level [snATAC-seq]

| PRJNA841958 | ENA

Multi-omic profiling of the developing human cerebral cortex at the single cell level [snRNA-seq]

Project description:Multi-omic profiling of the developing human cerebral cortex at the single cell level [snRNA-seq]

| PRJNA841957 | ENA

Multi-omic profiling of the developing human cerebral cortex at the single-cell level.

Project description:The cellular complexity of the human brain is established via dynamic changes in gene expression throughout development that is mediated, in part, by the spatiotemporal activity of cis-regulatory elements (CREs). We simultaneously profiled gene expression and chromatin accessibility in 45,549 cortical nuclei across six broad developmental time points from fetus to adult. We identified cell type-specific domains in which chromatin accessibility is highly correlated with gene expression. Differentiation pseudotime trajectory analysis indicates that chromatin accessibility at CREs precedes transcription and that dynamic changes in chromatin structure play a critical role in neuronal lineage commitment. In addition, we mapped cell type-specific and temporally specific genetic loci implicated in neuropsychiatric traits, including schizophrenia and bipolar disorder. Together, our results describe the complex regulation of cell composition at critical stages in lineage determination and shed light on the impact of spatiotemporal alterations in gene expression on neuropsychiatric disease.

| S-EPMC10569714 | biostudies-literature

Chromatin and gene-regulatory dynamics of the developing human cerebral cortex at single-cell resolution

Project description:In this study, we map chromatin accessibility and gene expression at single-cell resolution in the developing human cerebral cortex.

2021-03-31 | GSE162170 | GEO

Multiple parallel cell lineages in the developing mammalian cerebral cortex

Project description:Multiple parallel cell lineages in the developing mammalian cerebral cortex

| PRJNA980720 | ENA

Multi-omic profiling of the developing human cerebral cortex at the single cell level [snATAC-seq]

Project description:Human brain development starts during embryogenesis and extends postnatally to adulthood. During this time, the cellular complexity of the brain is established via dynamic changes in gene expression, mediated, in part, by the spatiotemporal activity of cis-regulatory elements. To better understand these processes, we performed simultaneous profiling of gene expression and chromatin accessibility in 45,549 individual nuclei, isolated from the human cortex across 6 broad developmental time-points from fetus to adult. We identified cell-type specific domains in which chromatin accessibility is highly correlated with gene expression. Differentiation pseudotime trajectories of gene expression in neuronal subpopulations indicate that chromatin accessibility at cis-regulatory elements precedes transcription and that dynamic changes in chromatin structure play a critical role in neuronal lineage commitment. In addition, using lineage-specific genes and peaks, we mapped cell-type specific genetic loci implicated in neuropsychiatric traits, including schizophrenia, major depressive disorder and bipolar disorder. Together, our results describe the complex regulation of cell composition at critical stages in lineage determination, serve as a developmental blueprint of the human brain and shed light on the impact of spatiotemporal alterations in gene expression on neuropsychiatric disease.

2023-10-12 | GSE204682 | GEO

Multi-omic profiling of the developing human cerebral cortex at the single cell level [snRNA-seq]

2023-10-12 | GSE204683 | GEO

Effects of loss and gain of KAT6B on gene expression in the developing cerebral cortex [Myst4_RNAseq]

Project description:High histone acetylation is associated with high transcriptional activity. The lysine acetyltransferase KAT6B is known to be required for histone acetylation and KAT6B is essential for normal brain development. In this study we examined the effects of loss and gain of KAT6B on gene expression in the developing cerebral cortex. We isolated RNA from the dorsal telencephalon of embryonic day 12.5 embryos, which is the primordium of the cerebral cortex, and from the E15.5 foetal cortex of mouse embryos and foetuses that lacked KAT6B or overexpressed KAT6B. Genes required for brain development and neuronal differentiation were downregulated in Kat6b null tissues and upregulated in Kat6b transgenic overexpressing tissue.

2024-11-06 | GSE280784 | GEO

Patterns of gene expression and evolution in the human developing cerebral cortex

Project description:The cerebral cortex underwent a rapid expansion and complexification during recent primate evolution, but the underlying developmental mechanisms remain essentially unknown. In order to uncover genetic networks underlying the development of the human cerebral cortex, we profiled the transcriptome of human fetal cortical domains containing language areas of Broca and Wernicke, as well as associative areas. We thus identified hundreds of genes displaying differential expression between the two areas or between distinct temporal stages. A subset of these genes was further validated by qRTPCR and in situ hybridization, revealing novel patterns of area and layer-specific expression throughout the developing cortex at midgestation, a critical period of cortical patterning. Computational genomic analyses revealed that the proportion of genes located close to evolutionarily accelerated regions was far more abundant among the genes differentially expressed between the two cortical areas examined, but not among those differentially expressed between different stages of development. In silico screening enabled to identify accelerated regions displaying increased turnover of change in transcription factor binding sites, which were enriched among those closer to genes differentially expressed between cortical areas. Overall our work points to the identification of cortical genes that display a unique combination of patterns of evolution and expression, which may constitute an important part of the genetic framework underlying human-specific neural traits and diseases. We determined gene expression patterns in cortical domains that contain areas thought to have undergone significant divergence during primate evolution, including language areas of Broca and Wernicke, as well as association areas of the frontal and parieto-temporal cortex in the right and left sides of human fetal brains at 17 and 19 gestional weeks.

2011-06-01 | E-GEOD-21858 | biostudies-arrayexpress

Multi-omic profiling of the developing human cerebral cortex at the single cell level

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

2023-10-12 | GSE204684 | GEO