Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Type 2 Diabetes Specific Spatial Differential Gene Expression in Pancreas Visium Data

ABSTRACT: Type 2 Diabetes Specific Spatial Differential Gene Expression in Pancreas Visium Data

PROVIDER: PRJNA1101984 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Type 2 Diabetes Specific Spatial Differential Gene Expression in Pancreas Visium Data

Project description:Understanding the spatial distribution of gene expression in the pancreas could provide new insights into its function and islet biology. Visium spatial gene expression is a powerful tool for quantifying gene expression of cells within their spatial context. We describe the generation and analysis of spatial transcriptomics data from six pancreas samples from healthy donors. Our analysis revealed high expression of INS within islets. However, we also identified a bleed of highly abundant islet genes (e.g., INS, GCG) into surrounding tissue areas. Through computational analyses, we successfully corrected for this bleed. We then identify genes which are spatially differentially expressed in the Type 2 Diabetes samples. We provide these data for researchers to study the organization of the pancreas and islets.

2024-08-31 | GSE264331 | GEO

Visium Spatial Transcriptomics expression profiles from IPMN samples of the pancreas

Project description:Visium Spatial Transcriptomics expression profiles from IPMN samples of the pancreas

| PRJNA975814 | ENA

Spatial Visium FFPE Samples

Project description:Spatial Visium FFPE Samples

| PRJNA971973 | ENA

Single cell transcriptomic and spatial landscapes of the developing human pancreas - spatial transcriptomics

Project description:The progress made in directed differentiation of stem cells has shown that understanding human pancreas development can provide cues for generating unlimited amounts of insulin-producing beta cells for transplantation therapy in diabetes. However, current differentiation protocols have not been successful in reproducibly generating functional human beta cells in vitro, partly due to incomplete understanding of human pancreas development. Here, we present detailed transcriptomic analysis of the various cell types of the developing human pancreas, including their spatial gene patterns. We integrated single cell RNA sequencing with spatial transcriptomics at multiple developmental timepoints and revealed distinct temporal-spatial gene cascades in the developing human pancreas.

2022-12-21 | GSE197317 | GEO

Comparing 10x Visium spatial transcriptomic technologies

Project description:Spatial transcriptomics facilitates the understanding of gene expression within complex tissue contexts. Among the array of spatial capture technologies available is 10x Genomics’ Visium which provides whole tissue section profiling, enabling whole transcriptome spatial analysis. Our dataset comprises spleen tissue from mice infected with malaria, spanning multiple experiments and sample preparation protocols for tissue preservation, either as fresh frozen at optimal cutting temperature (OCT) or formalin-fixed paraffin-embedded (FFPE). Tissue placement was also considered, comparing direct tissue placement on the slide with the use of CytAssist (CA), which expands the Visium platform’s capabilities by allowing for the pre-selection of tissue sections and genes through a set of probes. We also include a matching scRNA-seq dataset that can be integrated with the spatial data.

2024-02-26 | GSE254652 | GEO

Spatial transcriptomics of human dorsal root ganglia from subjects with a history of diabetes

Project description:Visium spatial RNA sequencing was performed on 16 human dorsal root ganglia (DRG) tissue sections collected from 7 different DRGs, from 6 human subjects with a history of diabetes.

2025-04-21 | GSE295206 | GEO

Single cell transcriptomic and spatial landscapes of the developing human pancreas

2022-12-21 | GSE197064 | GEO

Visium Spatial transcriptomics analysis of human primary colorectal cancer

Project description:To reveal the spatial distribution and the difference gene expression pattern of cancer cells in colorectal cancer, Visium spatial transcriptomics of four CRC patients was applied

2023-03-14 | GSE226997 | GEO

Comparing 10x Visium spatial transcriptomic technologies

Project description:Comparing 10x Visium spatial transcriptomic technologies

| PRJNA1071205 | ENA

Spatial transcriptomics (Visium, 10x Genomics) data of Duchenne mouse models

Project description:Quadricep sections of 10µm thick were placed on Visium spatial transcriptomics slide to obtain spatial datasets for these skeletal muscle sections

2023-06-28 | GSE199659 | 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