Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Spatially discrete signalling niches regulate fibroblast heterogeneity in human lung cancer [single-cell RNA-seq]

ABSTRACT: Spatially discrete signalling niches regulate fibroblast heterogeneity in human lung cancer [single-cell RNA-seq]

PROVIDER: PRJNA644572 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR12164439.fastq.gz	Fastqsanger.gz
	SRR12164440.fastq.gz	Fastqsanger.gz
	SRR12164441.fastq.gz	Fastqsanger.gz
	SRR12164442.fastq.gz	Fastqsanger.gz
	SRR12164443.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 44

Similar Datasets

Spatially discrete signalling niches regulate fibroblast heterogeneity in human lung cancer

Project description:Spatially discrete signalling niches regulate fibroblast heterogeneity in human lung cancer

| PRJNA641368 | ENA

Spatially discrete signalling niches regulate fibroblast heterogeneity in human lung cancer

Project description:Fibroblasts are functionally heterogeneous cells, capable of promoting and suppressing tumour progression. Across cancer types, the extent and cause of this phenotypic diversity remains unknown. We used single-cell RNA sequencing and multiplexed immunohistochemistry to examine fibroblast heterogeneity in human lung and non-small cell lung cancer (NSCLC) samples. This identified seven fibroblast subpopulations: including inflammatory fibroblasts and myofibroblasts (representing terminal differentiation states), quiescent fibroblasts, proto-myofibroblasts (x2) and proto-inflammatory fibroblasts (x2). Fibroblast subpopulations were variably distributed throughout tissues but accumulated at discrete niches associated with differentiation status. Bioinformatics analyses suggested TGF-β1 and IL-1 as key regulators of myofibroblastic and inflammatory differentiation respectively. However, in vitro analyses showed that whilst TGF-β1 stimulation in combination with increased tissue tension could induce myofibroblast marker expression, it failed to fully re-capitulate ex-vivo phenotypes. Similarly, IL-1β treatment only induced upregulation of a subset of inflammatory fibroblast marker genes. In silico modelling of ligand-receptor signalling identified additional pathways and cell interactions likely to be involved in fibroblast activation, This highlighted a potential role for IL-11 and IL-6 (among other ligands) in myofibroblast and inflammatory fibroblast activation respectively. This analysis provides valuable insight into fibroblast subtypes and differentiation mechanisms in NSCLC.

2020-06-24 | GSE153032 | GEO

Spatially discrete signalling niches regulate fibroblast heterogeneity in human lung cancer [single-cell RNA-seq]

2020-07-08 | GSE153935 | GEO

Different fibroblast subtypes propel spatially defined ileal inflammation through TNFR1 signalling in murine ileitis

Project description:Different fibroblast subtypes propel spatially defined ileal inflammation through TNFR1 signalling in murine ileitis

| PRJNA1074727 | ENA

Spatially resolved multiomics of human cardiac niches - Visium

Project description:Spatially resolved multiomics of human cardiac niches - Visium

| PRJEB62497 | ENA

Spatially resolved multiomics of human cardiac niches - Multiome GEX

Project description:Spatially resolved multiomics of human cardiac niches - Multiome GEX

| PRJEB61891 | ENA

Spatially resolved multiomics of human cardiac niches - Multiome ATAC

Project description:Spatially resolved multiomics of human cardiac niches - Multiome ATAC

| PRJEB61895 | ENA

Spatially resolved multiomics of human cardiac niches - Visium

Project description:Using Multiome and previously published sc/snRNA-seq data, we studied eight anatomical regions of the human heart including left and right ventricular free walls (LV and RV), left and right atria (LA and RA), left ventricular apex (AX), interventricular septum (SP), sino-atrial node (SAN) and atrioventricular node (AVN). For the first time, we profile the cells of the human cardiac conduction system, revealing their distinctive repertoire of ion channels, G-protein coupled receptors and cell-cell interactions. We map the identified cells to spatial transcriptomic data to discover cellular niches within the eight regions of the heart.

2023-06-01 | E-MTAB-12975 | biostudies-arrayexpress

Spatially resolved multiomics of human cardiac niches - Multiome GEX

2023-06-13 | E-MTAB-12916 | biostudies-arrayexpress

Spatially resolved multiomics of human cardiac niches - Multiome ATAC

2023-06-13 | E-MTAB-12919 | biostudies-arrayexpress