Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Spatial Transcriptomics of Pancreatic Tumors Reveal Distinct Compartmentalisation of Neutrophil Subsets [Spatial Transcriptomics]

ABSTRACT: Spatial Transcriptomics of Pancreatic Tumors Reveal Distinct Compartmentalisation of Neutrophil Subsets [Spatial Transcriptomics]

PROVIDER: PRJNA1023510 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR26264921_1.fastq.gz	Fastqsanger.gz
	SRR26264921_2.fastq.gz	Fastqsanger.gz
	SRR26264922_1.fastq.gz	Fastqsanger.gz
	SRR26264922_2.fastq.gz	Fastqsanger.gz
	SRR26264923_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

Spatial Transcriptomics of Pancreatic Tumors Reveal Distinct Compartmentalisation of Neutrophil Subsets [Spatial Transcriptomics]

Project description:Neutrophils are increasingly recognized as key players in the tumour immune response, and are associated with poor clinical outcomes. Multiple studies have characterised various neutrophil states within the tumor, with associated pro- and anti- tumoral functions. However, it is unknown if this heterogeneity of neutrophils is contributed by their surrounding tumor microenivironment. To answer this, we performed 10X Visium spatial transcriptomics on a murine model of pancreatic cancer. We discovered that terminally differentiated T3 neutrophils localise primarily in regions near hypoxic and glycolytic areas, while transitional immature T1 and mature T2 neutrophils localise towards the peripheral regions of the tumors. This results points to a spatially dependent role of T3 neutrophils, which may be critical to carry out pro-tumorigenic functions.

2024-01-11 | GSE244534 | GEO

Single-Cell and Spatial Transcriptomics Analysis of Human Adrenal Aging (spatial transcriptomics)

Project description:These data were used in the spatial transcriptomics analysis of the article titled \\"Single-Cell and Spatial Transcriptomics Analysis of Human Adrenal Aging\\".

2024-04-22 | E-MTAB-13991 | biostudies-arrayexpress

Transcriptome analysis of CD16/CD62L neutrophil subsets during human experimental endotoxemia

Project description:During systemic inflammation, different neutrophil subsets are mobilized to the blood circulation. These neutrophil subsets can be distinguished from normal circulating neutrophils (CD16bright/CD62Lbright) based on either an immature CD16dim/CD62Lbright or a CD16bright/CD62Ldim phenotype. Interestingly, the latter neutrophil subset is known to suppress lymphocyte proliferation ex vivo, but the underlying mechanism is largely unknown. We performed transcriptome analysis on the different neutrophil subsets to identify changes that are relevant for their functions. Neutrophil subsets were isolated by FACS sorting from the blood of healthy volunteers who were administered a single dose of lipopolysaccharide (LPS). The transcriptome was determined by microarray. The mobilized neutrophil subsets were characterized by specific transcriptome profiles reflecting their phase in neutrophil lifespan. Interestingly, the CD16bright/CD62Ldim suppressive neutrophils showed an interferon-induced transcriptome profile. This was confirmed by stimulation of peripheral neutrophils with IFNgamma. These cells acquired the capacity to suppress lymphocyte proliferation through the expression of programmed death ligand 1 (PD-L1). These data demonstrate that the suppressive phenotype of the neutrophil subset is induced by IFNgamma. Specific stimulation of neutrophils might have a pivotal role in regulating lymphocyte-mediated inflammation and autoimmune disease. After LPS infusion, blood was taken at t=0 and t=4 hours. Neutrophils were FACS sorted based on CD16 and CD62L expression. Gene expression of neutrophil subsets was assessed relative to t=0 as control.

2013-05-01 | E-GEOD-42358 | biostudies-arrayexpress

Spatial transcriptomics of the axolotl forebrain

Project description:To investigate spatial heterogeneities in the axolotl forebrain, a coronal section of it was obtained for spatial transcriptomics using Visium V1.

2022-07-20 | E-MTAB-11665 | biostudies-arrayexpress

Spatial transcriptomics of ovarian cancer tumors

Project description:Spatial transcriptomics of ovarian cancer tumors

| PRJNA882081 | ENA

Spatial transcriptomics of bat gut sections

Project description:Single-cell analysis on spatial transcriptomics from bat gut

2024-11-19 | E-MTAB-13279 | biostudies-arrayexpress

mousemodel_Heptablastoma spatial transcriptomics

Project description:mousemodel_Heptablastoma spatial transcriptomics

| PRJNA801265 | ENA

Spatial transcriptomics of fetal skin

Project description:Spatial organization of different cell types within prenatal skin across various anatomical sites is not well understood. To address this, here we have generated spatial transcriptomics data from prenatal facial and abdominal skin obtained from a donor at 10 post conception weeks. This in combination with our prenatal skin scRNA-seq dataset has helped us map the location of various identified cell types.

2024-06-04 | E-MTAB-13024 | biostudies-arrayexpress

Proteome profiling of human neutrophil granule subsets, secretory vesicles, and cell membrane

Project description:In the present work neutrophil subcellular fractionation by density gradient centrifugation was conducted in order to perform a quantitative proteomic profiling of human neutrophil granule subsets, secretory vesicles, and cell membrane

2017-06-23 | PXD005559 | Pride

Spatial Transcriptomics of the human musculotendinous unit, the myotendinous junction

Project description:Identification of cell types in the interphase between muscle and tendon by Visium Spatial Transcriptomics of four human semitendinous muscle-tendon biopsies. Cell types identified by single nuclei RNA seq on similar tissue were localized in situ with the use of Spatial Transcriptomics.

2023-03-02 | E-MTAB-12530 | biostudies-arrayexpress

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