Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of human dorsal forebrain organoids treated with Hyper-IL-6

ABSTRACT: Transcription profiling of human dorsal forebrain organoids treated with Hyper-IL-6

PROVIDER: PRJEB60352 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR10949674_1.fastq.gz	Fastqsanger.gz
	ERR10949674_2.fastq.gz	Fastqsanger.gz
	ERR10949675_1.fastq.gz	Fastqsanger.gz
	ERR10949675_2.fastq.gz	Fastqsanger.gz
	ERR10949676_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 48

Similar Datasets

Single-cell transcription profiling human dorsal forebrain organoids treated with Hyper-IL-6

Project description:We performed single-cell RNA sequencing of dorsal forebrain organoids at day 53 of differentiation upon treatment with Hyper-IL-6. The study aimed at investigation of the effects of Hyper-IL-6 on transcriptional profiles of dorsal forebrain organoids at single-cell level.

2023-03-08 | E-MTAB-12743 | biostudies-arrayexpress

Transcription profiling of human dorsal forebrain organoids treated with Hyper-IL-6

Project description:Description: RNA-seq of total RNA isolated from dorsal forebrain organoids at days 50 and 55 of differentiation. The study aimed at investigating the effects of 5 or 10 days of Hyper-IL-6 exposure on transcriptional profiles of dorsal forebrain organoids.

2023-03-08 | E-MTAB-12702 | biostudies-arrayexpress

Single-cell transcription profiling human dorsal forebrain organoids treated with Hyper-IL-6

Project description:Single-cell transcription profiling human dorsal forebrain organoids treated with Hyper-IL-6

| PRJEB60344 | ENA

Genomewide analysis of S6K1-depleted human dorsal forebrain organoids

Project description:Genomewide analysis of S6K1-depleted human dorsal forebrain organoids

| PRJNA885019 | ENA

Multiomic analysis identifies VPA induced changes in neural progenitor cells, ventricular-like regions and cellular microenvironment in dorsal forebrain organoids

Project description:Pharmaceutical agents, such as antiepileptic medications, can cross fetal barriers and affect the developing brain. Prenatal exposure to the antiepileptic drug valproate (VPA) is associated with an increased risk of neurodevelopmental disorders, including congenital malformations and autism spectrum disorder. VPA-treated animal models and neural organoids proposed defects in intracellular mechanisms such as Wnt signaling underlying VPA-induced neurodevelopmental adversities. However, the influence of extracellular mechanisms on these defects remains unexplored. Here, we showed that VPA treatment disrupted ventricular-like regions, suggesting defects in cell-cell and cell-matrix interactions. Transcriptomics analyses confirmed the disruption of ECM secretion as well as intracellular processes related to microenvironment sensing, such as cellular mechanosensing and Hippo-YAP/TAZ signaling pathway. Finally, proteomics analysis corroborated that VPA alters the microenvironment of the human dorsal forebrain organoids by disrupting the secretion of extracellular matrix (ECM) proteins. Altogether, our study suggests VPA-treated dorsal forebrain organoids serve as a model to investigate the role of extracellular processes in brain development and to understand how their disruptions might contribute to neurodevelopmental disorders.

2025-05-26 | MSV000097991 | MassIVE

Genomewide analysis of S6K1-depleted human dorsal forebrain organoids [ATAC-seq]

Project description:Genomewide analysis of S6K1-depleted human dorsal forebrain organoids [ATAC-seq]

| PRJNA885026 | ENA

Genomewide analysis of S6K1-depleted human dorsal forebrain organoids [RNA-seq]

Project description:Genomewide analysis of S6K1-depleted human dorsal forebrain organoids [RNA-seq]

| PRJNA885025 | ENA

Proteome and secretome analysis of human dorsal forebrain organoids reveals a time-dependent shift in the abundance of cell adhesion and extracellular matrix proteins

Project description:Temporal dynamics of prenatal brain development are influenced by changes in the microenvironment. Particularly, extracellular proteins contribute to the dynamic niche that balances neural stem cell proliferation and differentiation. Here, we present a resource for proteome and secretome analysis of human induced pluripotent stem cell-derived dorsal forebrain organoids over the early developmental period. We used liquid chromatography-mass spectrometry to identify proteins found in whole organoid and secreted proteins at days 20, 35, and 50 of dorsal forebrain organoid differentiation. We show that the whole organoid proteome demonstrates progression in the neurodevelopmental trajectory with reduced proliferation and increased neural differentiation over time. However, secretome analysis revealed a unique signature for developmental progression. Cell adhesion molecules are enriched in the secretome of day 35 organoids, while secretome of day 50 organoids is enriched with extracellular matrix proteins, demonstrating a change in the extracellular interactions over time of organoid differentiation and maturation. We, therefore, show the relevance of secretome analysis for the thorough study of extracellular matrix-related proteins and the importance of time course study of neural organoids to understand the subtle changes that guide human neurodevelopment.

2024-05-27 | MSV000094878 | MassIVE

Genomewide analysis of S6K1-depleted human dorsal forebrain organoids [single-cell RNA-seq]

Project description:Genomewide analysis of S6K1-depleted human dorsal forebrain organoids [single-cell RNA-seq]

| PRJNA972001 | ENA

Braingeneers mouse organoids

Project description:We characterized the cell composition of cortical organoids of dorsal forebrain identity derived from three independent cell lines using single-cell RNA sequencing to complement electrophysiological data from spontaneous neuronal activity.

2025-02-24 | GSE290330 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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