Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A single cell transcriptome atlas of the developing zebrafish hindbrain

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Danio rerio

PROVIDER: GSE141428 | GEO | 2019/12/05

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

A single cell transcriptome atlas of the developing zebrafish hindbrain.

Project description:Segmentation of the vertebrate hindbrain leads to the formation of rhombomeres, each with a distinct anteroposterior identity. Specialised boundary cells form at segment borders that act as a source or regulator of neuronal differentiation. In zebrafish, there is spatial patterning of neurogenesis in which non-neurogenic zones form at boundaries and segment centres, in part mediated by Fgf20 signalling. To further understand the control of neurogenesis, we have carried out single cell RNA sequencing of the zebrafish hindbrain at three different stages of patterning. Analyses of the data reveal known and novel markers of distinct hindbrain segments, of cell types along the dorsoventral axis, and of the transition of progenitors to neuronal differentiation. We find major shifts in the transcriptome of progenitors and of differentiating cells between the different stages analysed. Supervised clustering with markers of boundary cells and segment centres, together with RNA-seq analysis of Fgf-regulated genes, has revealed new candidate regulators of cell differentiation in the hindbrain. These data provide a valuable resource for functional investigations of the patterning of neurogenesis and the transition of progenitors to neuronal differentiation.

| S-EPMC7097387 | biostudies-literature

Single-cell transcriptome and 3D genome atlas of the developing mouse brain

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

2021-01-07 | GSE162511 | GEO

A single cell transcriptome atlas of the developing zebrafish hindbrain [fgfr1]

Project description:RNA-seq profile of transgenic hindbrains expressing heat-shock induced constitutively activated fgfR1 (Tg(hsp70:ca-fgfr1)) and compared to heat-shocked counterparts Method: 22hpf embryos were heat-shocked for 30min at 38.5°C and then incubated for 2hr at 28.5°C . After hindbrains were microdissected and the RNA was extracted. fgfR1 overexpression was checked by qPCR and samples were selected for sequencing

2019-12-05 | GSE141426 | GEO

A single cell transcriptome atlas of the developing zebrafish hindbrain [Fgf20a]

Project description:RNA-seq profile of Fgf20a homozygous mutant hindbrains compared with wilde-type hindbrains Method: 24hpf hindbrains were microdissected and the RNA was extracted. Qulity of dissection was monitored by qPCR and samples were selected for sequencing

2019-12-05 | GSE141425 | GEO

A single cell transcriptome atlas of the developing zebrafish hindbrain [scRNA-Seq]

Project description:Purpose: The goal of this study is to understand the progressive patterning of neurogenesis of the developing zebrafish hindbrain. 16hpf, 24hpf and 44hpf zebrafish hindbrains were used for single-cell RNA-sequencing with the aim to uncover hindbrain development. Methods: 40 microdissected hindbrains per each stage were dissociated at loaded into the 10x Genomics Chromium Platform, and sequenced using Illumina HiSeq 4000. Conclusions: Our study constitute a resource of hindbrain gene expression during development. We have identified transcriptional programs involved in: rhombomere segmental identity, dorso-ventral patterning, boundary and centre progenitor cells and temporal regulation of neurogenesis.

2019-12-05 | GSE141427 | GEO

TTP binding site atlas in the macrophage transcriptome reveals a switch for inflammation resolution

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2016-05-17 | E-GEOD-63468 | biostudies-arrayexpress

Functional genomic analysis of the periodic transcriptome in the developing Drosophila wing.

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-03-15 | E-GEOD-54928 | biostudies-arrayexpress

A single cell transcriptomic map of the developing Atoh1-lineage uncovers neural fate decisions and neuronal diversity in the hindbrain.

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

2024-06-23 | GSE233966 | GEO