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Single cell RNA sequencing redefines the mesenchymal cell landscape of mouse endometrium [bulkRNAseq]

ABSTRACT: Single cell RNA sequencing redefines the mesenchymal cell landscape of mouse endometrium [bulkRNAseq]

PROVIDER: PRJNA673138 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12933300_1.fastq.gz	Fastqsanger.gz
	SRR12933300_2.fastq.gz	Fastqsanger.gz
	SRR12933301_1.fastq.gz	Fastqsanger.gz
	SRR12933301_2.fastq.gz	Fastqsanger.gz
	SRR12933302_1.fastq.gz	Fastqsanger.gz

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Single cell RNA sequencing redefines the mesenchymal cell landscape of mouse endometrium [bulkRNAseq]

Project description:The goal of this study was to generate an NGS-derived transcriptome profile (RNA-seq) for a population of perivascular mesenchymal cells from healthy cycling Pdgfrb-BAC-eGFP mouse uterus. Bulk RNAseq revealed cells in the perivascular niche which express high levels of Pdgfrb (GFPhigh) also express genes previously identified in pericytes and/or vascular smooth muscle cells including Acta2, Myh11, Olfr78, Cspg4, Rgs4, Rgs5, Kcnj8 and Abcc9. Our work uncovers novel target genes for perivascular cell populations in mouse endometrium providing a platform to understand the role of these cells in endometrial physiology and disease.

2020-10-30 | GSE160386 | GEO

Single cell RNA sequencing redefines the mesenchymal cell landscape of mouse endometrium [single cell RNA-seq]

Project description:Single cell RNA sequencing redefines the mesenchymal cell landscape of mouse endometrium [single cell RNA-seq]

| PRJNA674385 | ENA

Single-cell RNA sequencing redefines the mesenchymal cell landscape of mouse endometrium.

Project description:The endometrium is a dynamic tissue that exhibits remarkable resilience to repeated episodes of differentiation, breakdown, regeneration, and remodeling. Endometrial physiology relies on a complex interplay between the stromal and epithelial compartments with the former containing a mixture of fibroblasts, vascular, and immune cells. There is evidence for rare populations of putative mesenchymal progenitor cells located in the perivascular niche of human endometrium, but the existence of an equivalent cell population in mouse is unclear. We used the Pdgfrb-BAC-eGFP transgenic reporter mouse in combination with bulk and single-cell RNA sequencing to redefine the endometrial mesenchyme. In contrast to previous reports we show that CD146 is expressed in both PDGFRβ + perivascular cells and CD31 + endothelial cells. Bulk RNAseq revealed cells in the perivascular niche which express the high levels of Pdgfrb as well as genes previously identified in pericytes and/or vascular smooth muscle cells (Acta2, Myh11, Olfr78, Cspg4, Rgs4, Rgs5, Kcnj8, and Abcc9). scRNA-seq identified five subpopulations of cells including closely related pericytes/vascular smooth muscle cells and three subpopulations of fibroblasts. All three fibroblast populations were PDGFRα+/CD34 + but were distinct in their expression of Ngfr/Spon2/Angptl7 (F1), Cxcl14/Smoc2/Rgs2 (F2), and Clec3b/Col14a1/Mmp3 (F3), with potential functions in the regulation of immune responses, response to wounding, and organization of extracellular matrix, respectively. Immunohistochemistry was used to investigate the spatial distribution of these populations revealing F1/NGFR + cells in most abundance beside epithelial cells. We provide the first definitive analysis of mesenchymal cells in the adult mouse endometrium identifying five subpopulations providing a platform for comparisons between mesenchymal cells in endometrium and other adult tissues which are prone to fibrosis.

| S-EPMC9328940 | biostudies-literature

Single cell RNA sequencing redefines the mesenchymal cell landscape of mouse endometrium [single cell RNA-seq]

Project description:We profile the transcriptomes of over 5,000 mouse single cells, yielding molecular definitions for mesenchymal cell types present in heathy cycling mouse uterus. We uncover novel heterogeneity within the Pdgfrb+ mesenchymal cell compartment of the mouse uterus, defining five subpopulations including two closely related Cspg4+ pericytes/vascular smooth muscle cells and three Pdgfra+Cd34+ subpopulations of fibroblasts.Our work dissects cellular heterogeneity within the mouse uterine mesenchyme providing a platform to understand the roles of these cell populations in uterine physiology and disease and for comparisons between mesenchymal cells in endometirum and other adult tissue which are prone to fibrosis.

2020-11-16 | GSE160772 | GEO

Structured wound angiogenesis instructs mesenchymal barrier compartments in the regenerating nerve [bulkRNASeq]

Project description:Structured wound angiogenesis instructs mesenchymal barrier compartments in the regenerating nerve [bulkRNASeq]

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LXR signaling controls homeostatic dendritic cell maturation [BulkRNAseq]

Project description:LXR signaling controls homeostatic dendritic cell maturation [BulkRNAseq]

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endometrium

Project description:Endometrium Gland - EPIC Methylation Array

| EGAD00010002199 | EGA

Stromal fibroblasts exhibit a similar transcriptome to mesenchymal stem cells in the perimenopausal endometrium

Project description:Mesenchymal stem cells (eMSC) from perimenopausal (PeriM) endometrium do not exhibit significantly different transcriptomes from their premenopausal (PreM) counterparts, but PeriM endometrial stromal fibroblasts (eSF) demonstrate altered pathway activation.We compared transcriptomes of PeriM and PreM eSF, investigated if eMSC persist in PeriM endometrium, and whether eMSC and eSF undergo changes as a result of the perimenopausal endocrine milieu.Endometrium was obtained from 9 PeriM and 9 PreM women. Microarray analysis was performed on FACS-isolated eSF and eMSC and data were validated by quantitative RT-PCR. eMSC were immuofluorescently localized to the perivascular region of PeriM endometrium.Principal component analysis showed that cells clustered into three distinct groups in 3-dimensional space: PeriM eMSC and PreM eMSC clustered together, while PeriM eSF and PreM eSF formed two discrete clusters separate from eMSC. Hierarchical clustering revealed a branching pattern consistent with the PCA results, indicating that eMSC from PreM and PeriM women exhibited a similar transcriptomic signature. Pathway analysis revealed dysregulation of cytoskeleton, proliferation, and survival pathways in PeriM vs. PreM eSF. A number of small nucleolar RNAs were also differentially regulated in PeriM eSF.Cell populations have altered gene expression in PeriM vs. PreM endometrium. While eMSC populations exhibited similar transcriptomes, PeriM eSF had altered pathway activation when compared to PreM eSF. This study provides insight into aging endometrium with relevance to function, including pregnancy establishment in reproductively older women.

2017-03-29 | GSE97163 | GEO

Endometriosis: normal and ectopic endometrium

Project description:To explore the difference between ectopic and normal endometrium and find out the characteristics and critical changes in ectopic endometrium, we analyzed transcripts of stromal cells from two groups of patients. The ectopic endometrium and normal endometrium had similar tissue structures and compositions, unlike normal ovaries. The similarity of gene expression profile between the two groups is as high as 97.2%, only 2.8% is significantly different. The differentially expressed genes in the ectopic endometrium are mainly enriched in the adhesion process and the adhesion pathway, which has the adhesion characteristics. Among these differentially expressed genes, CNTN1 is the most variable and participates in multiple pathogenic pathways, which is considered as the core gene to enhance stromal cell adhesion. The up-regulated expression of CNTN1 in all stages of ectopic endometrium is confirmed.

2022-05-01 | GSE132464 | GEO

bulkRNAseq

Project description:bulkRNAseq

2024-07-08 | OEX00028459 | NODE