Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Novel time-resolved reporter mouse reveals spatial and transcriptional heterogeneity during alpha cell differentiation

ABSTRACT: Novel time-resolved reporter mouse reveals spatial and transcriptional heterogeneity during alpha cell differentiation

PROVIDER: PRJNA952797 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR24088221_1.fastq.gz	Fastqsanger.gz
	SRR24088221_2.fastq.gz	Fastqsanger.gz
	SRR24088222_1.fastq.gz	Fastqsanger.gz
	SRR24088222_2.fastq.gz	Fastqsanger.gz
	SRR24088223_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

Novel time-resolved reporter mouse reveals spatial and transcriptional heterogeneity during alpha cell differentiation

Project description:Glucagon-expressing pancreatic α cells have attracted much attention for their plasticity to transdifferentiate into insulin-producing β cells; however, it remains unclear precisely when and where α cells emerge from and what regulates α-cell fate. We therefore explored the spatial and transcriptional heterogeneity of 　α-cell differentiation by a novel time-resolved reporter system. We established the mouse model, ‘Gcg-Timer’, in which newly generated α cells can be distinguished from more differentiated cells by their fluorescence. Transcriptome analysis of Gcg-Timer embryos revealed that the mRNAs related to angiogenesis were enriched in newly generated-α cells. Novel time-resolved analysis with Gcg-Timer reporter mouse uncovered spatiotemporal features of α-cell neogenesis, which will enhance our understanding of cellular identity and plasticity within the islets.

2023-09-15 | GSE229090 | GEO

Time-resolved single-cell and spatial gene regulatory atlas of plants under pathogen attack

Project description:Plant leaf intercellular space provides a nutrient-rich and heterogeneous niche for microbes that have a critical impact on plant health. However, how individual plant cells respond to heterogeneous microbial colonization remains largely elusive. Here, by time-resolved simultaneous single-cell transcriptome and epigenome profiling of plants (Arabidopsis thaliana) infected by virulent and avirulent bacterial pathogens (Pseudomonas syringae), we present an atlas of gene regulatory logic involving transcription factors, potential cis-regulatory elements, and target genes associated with disease and immunity. We also identify previously uncharacterized cell populations with distinct immune gene expression within major developmental cell types. Furthermore, we employ time-resolved spatial transcriptomics to reveal spatial heterogeneity of plant immune responses linked to pathogen distribution. Integration of our single-cell multiomics and spatial omics data enables spatiotemporal mapping of defense gene regulatory logic. Overall, this study provides a molecularly-defined spatiotemporal map of plant-microbe interaction at the single-cell resolution.

2023-04-24 | GSE226826 | GEO

Single-cell time-resolved multi-omics reveal apoptotic and ferroptotic heterogeneity during foam cell formation

Project description:<p>Macrophage-derived foam cell plays a pivotal role in the plaque formation and rupture during the progression of atherosclerosis. Foam cells are destined to divergent cell fate and functions in response to external stimuli based on their internal states, which however is hidden in the traditional studies based on population of cells. Herein, we used time-resolved and single-cell multi-omics to investigate the macrophage heterogeneity along foam cell formation. Dynamic metabolome and lipidome outlined the dual regulating axis of inflammation and ferroptosis. Single cell metabolomics and lipidomics further demonstrated a macrophage continuum featuring a differed susceptibility to apoptosis and ferroptosis. Using single-cell transcriptomic profiling, we verified the divergent cell fate toward apoptosis or ferroptosis. Therefore, the molecular choreography underlying the divergent cell fate during foam cell formation was revealed, which is of high significance for the understanding of the pathogenesis of atherosclerosis and development of new drug targets.</p>

2023-09-08 | MTBLS6366 | MetaboLights

Multimodal single-cell resolved spatial proteomics reveal pancreatic tumor heterogeneity

Project description:In this study, we offer a competitive solution for uncovering the comprehensive heterogeneity of tissue context.

2024-10-23 | PXD038882 |

Single-cell time-resolved multi-omics reveal macrophage heterogeneity during foam cell formation

Project description:Single-cell time-resolved multi-omics reveal macrophage heterogeneity during foam cell formation

| PRJNA898297 | ENA

Single-cell time-resolved multi-omics reveal apoptotic and ferroptotic heterogeneity during foam cell formation

Project description:Macrophage-derived foam cell plays a pivotal role in the plaque formation and rupture during the progression of atherosclerosis. Foam cells are destined to divergent cell fate and functions in response to external stimuli based on their internal states, which however is hidden in the traditional studies based on population of cells. Herein, we used time-resolved and single-cell multi-omics to investigate the macrophage heterogeneity along foam cell formation. Dynamic metabolome and lipidome outlined the dual regulating axis of inflammation and ferroptosis. Single cell metabolomics and lipidomics further demonstrated a macrophage continuum featuring a differed susceptibility to apoptosis and ferroptosis. Using single-cell transcriptomic profiling, we verified the divergent cell fate toward apoptosis or ferroptosis. Therefore, the molecular choreography underlying the divergent cell fate during foam cell formation was revealed, which is of high significance for the understanding of the pathogenesis of atherosclerosis and development of new drug targets.

2024-08-10 | GSE240820 | GEO

Single-cell time-resolved multi-omics reveal apoptotic and ferroptotic heterogeneity during foam cell formation

Project description:Single-cell time-resolved multi-omics reveal apoptotic and ferroptotic heterogeneity during foam cell formation

| PRJNA1005309 | ENA

Single-cell time-resolved multi-omics reveal macrophage heterogeneity during foam cell formation

Project description:The study aims to investigate the macrophage heterogeneity during foam cell formation.

2023-12-01 | GSE217251 | GEO

Spatial transcriptomic analysis of Sonic Hedgehog Medulloblastoma identified that loss of heterogeneity and promotion of differentiation underlies the response to CDK4/6 inhibition

Project description:We used spatially resolved transcriptomics to define the cellular diversity within a sonic hedgehog (SHH) patient-derived model of Medulloblastoma (MB) and identify how cells specific to a transcriptional state or spatial location are pivotal in responses to treatment with the CDK4/6 inhibitor, Palbociclib. Our analysis reveals that SHH tumour in the mouse brain contains multiple malignant transcriptional states, recapitulating the extent of intratumoural cellular diversity identified in primary human SHH MB. Our study offers new insight into the previously described features of CDK4/6 inhibition in MB, with Palbociclib treatment inducing neuronal differentiation across all remaining cell types comprising the bulk of the SHH patient-derived orthotropic xenograft model. This study is, to the best of our knowledge, the first spatially resolved gene expression atlas of SHH PDOX MB and acts as proof-of-principle for the use of ST-seq in identifying spatially-organised tumour heterogeneity of MB.

2022-06-16 | E-MTAB-11720 | biostudies-arrayexpress

Spatiotemporal heterogeneity of inflammatory changes in Alzheimer's disease analyzed spatially resolved transcriptome

Project description:Spatiotemporal heterogeneity of inflammatory changes in Alzheimer's disease analyzed spatially resolved transcriptome

| PRJNA729436 | ENA