Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Spatial Transcriptomics of Human Cardiac Tissue

ABSTRACT: Transplanted (healthy) and explanted human heart tissue sections (affected by different heart failure etiologies) were investigated for gene expression differences by using the Spatial Transcriptomics technology.

ORGANISM(S): Homo sapiens

PROVIDER: GSE135805 | GEO | 2019/08/15

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

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

changes in cardiac transcription profiles brought about by heart failure

Project description:To establish changes in cardiac transcription profiles brought about by heart failure we collected myocardial samples from patients undergoing cardiac transplantation whose failure arises from different etiologies (e.g. idiopathic dilated cardiomyopathy, ischemic cardiomyopathy, alcoholic cardiomyopathy, valvular cardiomyopathy, and hypertrophic cardiomyopathy) and from "normal" organ donors whose hearts cannot be used for transplants. The transcriptional profile of the mRNA in these samples will be measured with gene array technology. Changes in transcriptional profiles can be correlated with the physiologic profile of heart-failure hearts acquired at the time of transplantation. Keywords: other

2004-03-24 | E-GEOD-1145 | biostudies-arrayexpress

Spatial transcriptomics of whole mouse lung cells

Project description:We report the distribution of mRNA in fibrotic lung sections on spatial trancriptomics sequencing.

2022-03-02 | GSE183683 | GEO

Spatial transcriptomics on human dorsal root ganglion (DRG)

Project description:Visium Spatial Gene Expression by the 10X genomics protocol was performed on 2 sections of human DRG tissue to elucidate the spatial transcriptomic organization.

2023-09-14 | GSE215994 | GEO

Targeting Immune-Fibroblast Crosstalk in Myocardial Infarction and Cardiac Fibrosis I

Project description:To define the cellular landscape of human myocardial infarction and heart failure, we performed Cellular Indexing of Transcriptomes and Epitomes by sequencing (CITE-seq) in 22 explanted human hearts from healthy donors, acute myocardial infarction (MI),and chronic ischemic and non-ischemic cardiomyopathy patients.

2024-07-01 | GSE217494 | GEO

Spatial Transcriptomics correlated Electron Microscopy [MERFISH]

Project description:Current spatial transcriptomics methods provide molecular and spatial information but no morphological readout. Here, we present STEM - a method that correlates multiplexed error-robust FISH with electron microscopy from neighboring tissue sections of the same sample. STEM links transcriptional and spatial organization of single cells with ultrastructural morphology of the tissue in vivo. Using STEM to characterize demyelinated white-matter lesions allowed us to link morphology of myelin-laden foamy microglia to transcriptional signature. Moreover, we revealed that interferon-response microglia have unique morphology and are enriched near CD8 T-cells.

2023-06-21 | GSE202623 | GEO

Gut transcriptome analysis in GvHD mice comparing CMKLR1 knockout to wildtype mice

Project description:Whole transcriptome profiles of gut sections, explanted from allogeneic transplanted mice, were evaluated. Different groups of mice were considered, comparing CMKLR1 knock out vs. Wild type mice.

2024-10-03 | E-MTAB-12231 | biostudies-arrayexpress

changes in cardiac transcription profiles brought about by heart failure

2004-03-24 | GSE1145 | GEO

Spatial transcriptomics revealing host-microbe interactions

Project description:We developed an analysis pipeline that can extract microbial sequences from Spatial Transcriptomic (ST) data and assign taxonomic labels, generating a spatial microbial abundance matrix in addition to the default host expression matrix, enabling simultaneous analysis of host expression and microbial distribution. We called the pipeline Spatial Meta-transcriptome (SMT) and applied it on both human and murine intestinal sections and validated the spatial microbial abundance information with alternative assays. Biological insights were gained from this novel data that that demonstrated host-microbe interaction at various spatial scales. Finally, we tested experimental modification that can increase microbial capture while preserving host spatial expression quality and, by use of positive controls, quantitatively demonstrated the capture efficiency and recall of our methods. This proof of concept work demonstrates the feasibility of Spatial Meta-transcriptomic analysis, and paves the way for further experimental optimization and application.

2022-08-10 | GSE210738 | GEO

Nova-ST: Nano-Patterned Ultra-Dense platform for spatial transcriptomics [Nova-ST]

Project description:Spatial transcriptomics workflows using barcoded capture arrays are commonly used for resolving gene expression in tissues. However, existing techniques are either limited by capture array density or are cost prohibitive for large scale atlasing. We present Nova-ST, a dense nano-patterned spatial transcriptomics technique derived from randomly barcoded Illumina sequencing flow cells. Nova-ST enables customized, low cost, flexible, and high-resolution spatial profiling of large tissue sections. Benchmarking on mouse brain sections demonstrates significantly higher sensitivity compared to existing methods, at reduced cost.

2024-02-22 | GSE256318 | 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