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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

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			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

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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

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

Gene expression profilling of day 30 cerebral organoids at the single cell level

Project description:To characterize cerebral organoids generated using STEMdiff Dorsal Forebrain Organoid Differentiation Kit were flash frozen on Day 30, we performed single cell RNA sequencing

2024-12-19 | GSE280812 | GEO

Single cell RNA-sequencing of 90-day old astrocyte conditioned medium treated forebrain organoids (ACMOs) and control forebrain organoids

Project description:The scRNA-seq analysis of 90-day old ACMOs and forebrain organoids reveals six well-defined major clusters. All cells were categorized into six distinct clusters: (1) deep layer subcortical projection neurons, (2) upper layer projection neurons, (3) intermediate progenitors, (4) radial glial cells, (5) dividing cells, (6) astrocytes. Both ACMOs and control organoids underwent a correct trajectory of cell diversification and contained a large diversity of progenitor and neuronal cell types belonging to the neuroectodermal lineage. Transcriptomic comparisons and pathway enrichment analysis were performed between control organoids and ACMOs.

2024-08-04 | GSE273941 | GEO

Impact of KIF26A loss in human forebrain organoids

Project description:KIF26A is an unconventional kinesin that lacks motor activity. To characterize its role in brain development, we generated KIF26A knock-out iPSC lines and differentiated forebrain organoids. We performed single cell RNA sequencing at Day 60 and Day 80 to compare between control and KIF26A-deleted organoids at the molecular level, which revealed cell type-specific transcriptional changes in MAPK, MYC and E2F pathways.

2022-09-20 | GSE213330 | GEO

Impact of KIF26A loss in human forebrain organoids

Project description:Impact of KIF26A loss in human forebrain organoids

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Single cell RNA-sequencing of 90-day old astrocyte conditioned medium treated forebrain organoids (ACMOs) and control forebrain organoids

Project description:Single cell RNA-sequencing of 90-day old astrocyte conditioned medium treated forebrain organoids (ACMOs) and control forebrain organoids

| PRJNA1144131 | ENA

Single-Cell RNA Sequencing Analysis of Human Embryonic Stem Cell-Derived Neural Organoids

Project description:Human pluripotent stem cell-derived 3D neural organoids have been shown to recapitulate the major features and cytoarchitecture of early human brain development. We used three commercially available kits: STEMdiff™ Cerebral Organoid Kit, STEMdiff™ Dorsal Forebrain Organoid Differentiation Kit, and STEMdiff™ Ventral Forebrain Organoid Differentiation Kit. These neural organoids contain unique and diverse cell types which model the early brain and are patterned with developmental cues. Here, we sought to investigate the cellular diversity of these organoids using single-cell RNA sequencing.

2023-02-23 | GSE218457 | GEO

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