Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The tumor microenvironment shows a hierarchy of cell-cell interactions dominated by fibroblasts [cancer CM]

ABSTRACT: The tumor microenvironment shows a hierarchy of cell-cell interactions dominated by fibroblasts [cancer CM]

PROVIDER: PRJNA902726 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR22320100_1.fastq.gz	Fastqsanger.gz
	SRR22320100_2.fastq.gz	Fastqsanger.gz
	SRR22383200_1.fastq.gz	Fastqsanger.gz
	SRR22383200_2.fastq.gz	Fastqsanger.gz
	SRR22320101_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 52

Similar Datasets

The tumor microenvironment shows a hierarchy of cell-cell interactions dominated by fibroblasts

Project description:The tumor microenvironment shows a hierarchy of cell-cell interactions dominated by fibroblasts

| PRJNA902724 | ENA

The tumor microenvironment shows a hierarchy of cell-cell interactions dominated by fibroblasts [cancer CM]

Project description:We preformed RNA seq on invitro fibroblasts after mono-cultured or co-cultured with macrophages in DMEM or with 4T1-conditioned medium , In order to understand the affect of cancer on macrophages-fibroblasts interactions

2023-08-27 | GSE218196 | GEO

The tumor microenvironment shows a hierarchy of cell-cell interactions dominated by fibroblasts.

Project description:The tumor microenvironment (TME) is comprised of non-malignant cells that interact with each other and with cancer cells, critically impacting cancer biology. The TME is complex, and understanding it requires simplifying approaches. Here we provide an experimental-mathematical approach to decompose the TME into small circuits of interacting cell types. We find, using female breast cancer single-cell-RNA-sequencing data, a hierarchical network of interactions, with cancer-associated fibroblasts (CAFs) at the top secreting factors primarily to tumor-associated macrophages (TAMs). This network is composed of repeating circuit motifs. We isolate the strongest two-cell circuit motif by culturing fibroblasts and macrophages in-vitro, and analyze their dynamics and transcriptomes. This isolated circuit recapitulates the hierarchy of in-vivo interactions, and enables testing the effect of ligand-receptor interactions on cell dynamics and function, as we demonstrate by identifying a mediator of CAF-TAM interactions - RARRES2, and its receptor CMKLR1. Thus, the complexity of the TME may be simplified by identifying small circuits, facilitating the development of strategies to modulate the TME.

| S-EPMC10509226 | biostudies-literature

The tumor microenvironment shows a hierarchy of cell-cell interactions dominated by fibroblasts

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

2023-08-27 | GSE218197 | GEO

Oscillospiraceae bacterium CM strain:CM

Project description:Chloromethanomonas sp. CM strain:CM Genome sequencing

| PRJNA678572 | ENA

social hierarchy

Project description:social hierarchy Raw sequence reads

| PRJNA1108947 | ENA

Single cell hierarchy of the mouse vaginal epithelium

Project description:Single cell hierarchy of the mouse vaginal epithelium

| PRJNA596227 | ENA

Next Generation Sequencing of H292 cell line cultured with CAFs CM or SL-CAFs CM

Project description:Next Generation Sequencing of H292 cell line cultured with CAFs CM or SL-CAFs CM

| PRJNA770530 | ENA

Phaffomycetaceae sp. UFMG-CM-Y7052 isolate:UFMG-CM-Y7052

Project description:Phaffomycetaceae sp. UFMG-CM-Y7052 isolate:UFMG-CM-Y7052 Genome sequencing

| PRJNA1125418 | ENA

Gene expression profiles in black soybean sprouts: 0.5 cm long vs 5 cm long

Project description:To explore the mechanism underlying antioxidant activity of extracts from black soybean sprouts 0.5 cm long, Agilent-016772 G. max (Soybean) Oligo Microarray 4x44K was used to compare mRNA expression between the black soybean sprouts 0.5 cm long (n=4) and the black soybean sprouts 5 cm long (n=4). GO term enrichment analysis showed ten up-regulated genes (BE823689.1_567, GMFL01-02-F14-R_381, GMFL01-03-G22-R_364, GMFL01-14-M12-R_553, GMFL01-51-M23-R_265, AW757007.1_297, AW761420.1_260, BI788389.1_501, BQ273202.1_332 and GMFL01-10-I14-F_701) in the 0.5 cm seedlings were associated with response to oxidative stress. qRT-PCR assay confirmed the up-regulation of these ten genes in sprouts 0.5 cm long. In conclusion, these ten genes may contribute to antioxidant activity of sprout extract.

2012-08-10 | GSE40002 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data