Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomics of mouse wildtype and Hoxa2-/- pharyngeal arches 1 and 2

ABSTRACT: Transcriptomics of mouse wildtype and Hoxa2-/- pharyngeal arches 1 and 2

PROVIDER: PRJNA688911 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	SRR13337615.fastq.gz	Fastqsanger.gz
	SRR13337616.fastq.gz	Fastqsanger.gz
	SRR13337617.fastq.gz	Fastqsanger.gz
	SRR13337618.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 69

Similar Datasets

Single-cell transcriptomics of mouse wildtype and Hoxa2-/- pharyngeal arches 1 and 2 at E10.5.

Project description:The Hox genes play a key role in specifying the axial identity of neural crest cells (NCCs) migrating into the pharyngeal arches of the developing mouse embryo. In the absence of Hoxa2, NCC derivatives of the second pharyngeal arch (PA2) duplicate those formed by NCCs of the first arch (PA1). In this study, we use bulk and single-cell RNAseq to establish the molecular mechanisms driving this phenotypic reversion to a ground state. Comparing the transcriptomes of PA1 and PA2 in wildtype and Hoxa2-/- embryos during NCC migration and differentiation, we find that Hoxa2-/- PA2 does not revert to a molecular ‘ground state’ corresponding to the NCC derivatives. This separation of phenotypic and molecular states has significant implications for our understanding of NCC biology. We also identify putative targets through which HOXA2 likely acts to impart PA2 identity. The heterogenous expression of these targets within the PAs and their responses to the absence of HOXA2 suggest that subsets of NCCs may respond to HOXA2 activity in distinct manners related to their ultimate fate. To understand the heterogeneity of neural crest cells (NCCs) and other tissues of pharyngeal arches (PAs) 1 and 2 in the mouse embryo at E10.5, during NCC differentiation, we collected PA1 and PA2 from wildtype embryos and Hoxa2-/- embryos. We used the 10x Chromium single-cell sequencing system to compare the transcriptional profiles between PA1 and PA2 as well as wildtype and Hoxa2-/- PAs.

2021-02-09 | GSE164108 | GEO

Transcriptomes of mouse wildtype and Hoxa2-/- pharyngeal arches 1 and 2 at E9.0, E9.5, E10.0, and E10.5.

Project description:The Hox genes play a key role in specifying the axial identity of neural crest cells (NCCs) migrating into the pharyngeal arches of the developing mouse embryo. In the absence of Hoxa2, NCC derivatives of the second pharyngeal arch (PA2) duplicate those formed by NCCs of the first arch (PA1). In this study, we use bulk and single-cell RNAseq to establish the molecular mechanisms driving this phenotypic reversion to a ground state. Comparing the transcriptomes of PA1 and PA2 in wildtype and Hoxa2-/- embryos during NCC migration and differentiation, we find that Hoxa2-/- PA2 does not revert to a molecular ‘ground state’ corresponding to the NCC derivatives. This separation of phenotypic and molecular states has significant implications for our understanding of NCC biology. We also identify putative targets through which HOXA2 likely acts to impart PA2 identity. The heterogenous expression of these targets within the PAs and their responses to the absence of HOXA2 suggest that subsets of NCCs may respond to HOXA2 activity in distinct manners related to their ultimate fate. To understand the specification of axial identity in neural crest cells (NCCs), we collected pharyngeal arches (PAs) 1 and 2 from mouse embryos at four time points during NCC migration and the beginning of differentiation (E9.0, E9.5, E10.0, and E10.5). We collected these tissues from both wildtype embryos and embryos homozygous for a mutation abrogating Hoxa2 expression. By performing comparative analysis of these tissues, we set out to understand the molecular underpinnings of NCC axial identity, as well as the mechanistic role of Hoxa2 in establishing PA2 identity.

2021-02-09 | GSE164110 | GEO

Single-cell transcriptomics of mouse wildtype and Hoxa2-/- pharyngeal arches 1 and 2 at E10.5.

Project description:Single-cell transcriptomics of mouse wildtype and Hoxa2-/- pharyngeal arches 1 and 2 at E10.5.

| PRJNA688909 | ENA

Transcriptomes of mouse wildtype and Hoxa2-/- pharyngeal arches 1 and 2 at E9.0, E9.5, E10.0, and E10.5.

Project description:Transcriptomes of mouse wildtype and Hoxa2-/- pharyngeal arches 1 and 2 at E9.0, E9.5, E10.0, and E10.5.

| PRJNA688912 | ENA

ChIP-seq for Hoxa2 on mouse posterior branchial arches at E11.5

Project description:Hoxa2 ChIP-seq on mouse posterior branchial arches connected to outflow tract of the heart (PBA/OFT) at embryonic day (E) 11.5.

2020-10-16 | E-MTAB-8606 | biostudies-arrayexpress

Transcriptomics of mouse wildtype and Hoxa2-/- pharyngeal arches 1 and 2

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

2021-02-09 | GSE164111 | GEO

Transcription profiling of mouse HoxA2 knockout

Project description:Transcription profiling was performed of second branchial arches of E11.5 embryos from Hoxa2+/- intercrosses. After genotyping the embryos, wild type and Hoxa2-/- were profiled by microarray.

2011-12-01 | E-MEXP-3261 | biostudies-arrayexpress

ChIP-seq for Hoxa2 on mouse posterior branchial arches at E11.5

Project description:ChIP-seq for Hoxa2 on mouse posterior branchial arches at E11.5

| PRJEB35873 | ENA

ChIP-seq for Hoxa2 on mouse second branchial arches at E11.5.

Project description:ChIP-seq for Hoxa2 on mouse second branchial arches at E11.5.

| PRJEB31674 | ENA

ChIP-seq for Hoxa2 on mouse second branchial arches at E11.5.

Project description:Hoxa2 ChIP-seq on mouse second branchial arch (BA2) at embryonic day (E) 11.5.

2020-01-06 | E-MTAB-7766 | biostudies-arrayexpress