Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Clinically-relevant cell type cross-talk identified from a lung tumor microenvironment interactome

ABSTRACT: Clinically-relevant cell type cross-talk identified from a lung tumor microenvironment interactome

PROVIDER: PRJNA438518 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR11491800_1.fastq.gz	Fastqsanger.gz
	SRR11491800_2.fastq.gz	Fastqsanger.gz
	SRR11491900_1.fastq.gz	Fastqsanger.gz
	SRR11491900_2.fastq.gz	Fastqsanger.gz
	SRR11491801_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 370

Similar Datasets

Clinically-relevant cell type cross-talk identified from a lung tumor microenvironment interactome

Project description:Tumors comprise a complex microenvironment of interacting malignant and stromal cell types. Much of our understanding of the tumor microenvironment comes from in vitro studies isolating the interactions between malignant cells and a single stromal cell type, often along a single pathway. To develop a deeper understanding of the interactions between cells within human lung tumors we performed RNA-seq profiling of flow-sorted malignant cells, endothelial cells, immune cells, fibroblasts, and bulk cells from freshly resected human primary non-small-cell lung tumors. We mapped the cell-specific differential expression of prognostically-associated secreted factors and cell surface genes, and computationally reconstructed cross-talk between these cell types to generate a novel resource we call the Lung Tumor Microenvironment Interactome (LTMI). Using this resource, we identified and validated a prognostically unfavourable influence of Gremlin-1 production by fibroblasts on proliferation of malignant lung adenocarcinoma cells. We also found a favorable association between infiltration of mast cells and less aggressive tumor cell behavior. These results illustrate the utility of the LTMI as a resource for generating hypotheses concerning tumor-microenvironment interactions that may have prognostic and therapeutic relevance.

2018-06-01 | GSE111907 | GEO

A human lung tumor microenvironment interactome identifies clinically relevant cell-type cross-talk.

Project description:BackgroundTumors comprise a complex microenvironment of interacting malignant and stromal cell types. Much of our understanding of the tumor microenvironment comes from in vitro studies isolating the interactions between malignant cells and a single stromal cell type, often along a single pathway.ResultTo develop a deeper understanding of the interactions between cells within human lung tumors, we perform RNA-seq profiling of flow-sorted malignant cells, endothelial cells, immune cells, fibroblasts, and bulk cells from freshly resected human primary non-small-cell lung tumors. We map the cell-specific differential expression of prognostically associated secreted factors and cell surface genes, and computationally reconstruct cross-talk between these cell types to generate a novel resource called the Lung Tumor Microenvironment Interactome (LTMI). Using this resource, we identify and validate a prognostically unfavorable influence of Gremlin-1 production by fibroblasts on proliferation of malignant lung adenocarcinoma cells. We also find a prognostically favorable association between infiltration of mast cells and less aggressive tumor cell behavior.ConclusionThese results illustrate the utility of the LTMI as a resource for generating hypotheses concerning tumor-microenvironment interactions that may have prognostic and therapeutic relevance.

| S-EPMC7206807 | biostudies-literature

10 Intellectual Disability samples for clinically relevant CNV detection

Project description:10 patients with Intellectual Disability diagnosed with a clinically relevant copy number change, selected to assess the dection performance of alternative platforms.

2013-08-01 | GSE46060 | GEO

10 Intellectual Disability samples for clinically relevant CNV detection

Project description:10 patients with Intellectual Disability diagnosed with a clinically relevant copy number change, selected to assess the dection performance of alternative platforms. 10 Affymetrix arrays were performed according to the manufacturer's directions on DNA extracted from peripheral blood samples.

2013-08-01 | E-GEOD-46060 | biostudies-arrayexpress

Anti-inflammatory Chromatinscape Associated with Clinically Relevant Timing of Glucocorticoid Treatment

Project description:Anti-inflammatory Chromatinscape Associated with Clinically Relevant Timing of Glucocorticoid Treatment

| PRJNA362226 | ENA

Molecular characterization of choroid plexus tumors reveals novel clinically relevant subgroups

Project description:Molecular characterization of choroid plexus tumors reveals novel clinically relevant subgroups

| PRJNA259766 | ENA

New genetic biomarkers to differentiate pathogenic and clinically relevant Bacillus cereus strains

Project description:New genetic biomarkers to differentiate pathogenic and clinically relevant Bacillus cereus strains

| PRJNA718492 | ENA

Genomic analysis reveals HDAC1 regulates clinically relevant transcriptional programs in Pancreatic cancer

Project description:Genomic analysis reveals HDAC1 regulates clinically relevant transcriptional programs in Pancreatic cancer

| PRJNA862896 | ENA

Development and characterization of a clinically relevant model of breast cancer brain metastasis

Project description:Development and characterization of a clinically relevant model of breast cancer brain metastasis

| PRJNA437156 | ENA

Replication timing alterations in leukemia reflect stable clinically-relevant changes in genome architecture

Project description:Replication timing alterations in leukemia reflect stable clinically-relevant changes in genome architecture

| PRJNA539934 | ENA

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