integrative cluster analysis of single cell and single nuclei data
SEEK ID: https://fairdomhub.org/assays/1262
Modelling Analysis
Projects: iRhythmics
Investigation: hidden item
Study: integrative cluster analysis - proliferative cardiomyocytes
Assay position:
Biological problem addressed: Model Analysis Type
Organisms: No organisms
Export PNG
Download
Creators and Submitter
Views: 472
Created: 18th Mar 2020 at 15:57
Last updated: 4th May 2020 at 09:44
TagsThis item has not yet been tagged.
Related items
https://orcid.org/0000-0002-7968-3152
Projects that do not fall under current programmes.
Projects: Manchester Institute for Biotechnology, ICYSB 2015 - International Practical Course in Systems Biology, iRhythmics, INBioPharm, EmPowerPutida, Systo models, MycoSynVac - Engineering Mycoplasma pneumoniae as a broad-spectrum animal vaccine, Multiscale modelling of state transitions in the host-microbiome-brain network, Extremophiles metabolsim, NAD COMPARTMENTATION, Agro-ecological modelling, Bergen(Ziegler lab) project AF-NADase, NAMPT affinity, Stress granules, Modelling COVID-19 epidemics, Bio-crop, ORHIZON, Coastal Data, SASKit: Senescence-Associated Systems diagnostics Kit for cancer and stroke, hybrid sequencing, HOST-PAR, BioCreative VII, Boolean modeling of Parkinson disease map, Orphan cytochrome P450 20a1 CRISPR/Cas9 mutants and neurobehavioral phenotypes in zebrafish, Selective Destruction in Ageing, Viral Metagenomic, Synthetic biology in Synechococcus for bioeconomy applications (SynEco), testproject, SDBV ephemeral data exchanges, Test project, The BeeProject, PHENET, LiceVault, EbN1 Systems Biology
Web page: Not specified
The project addresses the generation and establishment of programmed pacemaker cells for an in vitro drug testing possibility to perform predictive tests. This may lead to an improved treatment of cardiac arrhythmias or an accurate identification of potential drug molecules at a very early stage of development. Important benefits will arise in verifying the safety of a wide variety of medicines while reducing animal testing. For more information you may visit our project website at ...
Programme: Independent Projects
Public web page: https://irhythmics.med.uni-rostock.de/
This study includes the single snRNA-seq in whole adult murine hearts from an inbred (C57BL/6NRj) and an outbred (Fzt:DU) mouse strain in comparison to publicly available scRNA-seq data of the tabula muris project.
Submitter: Anne-Marie Galow
Investigation: 1 hidden item
Assays: integrative cluster analysis of single cell and single nuclei data
This pdf file contains all figures of the article "Integrative Cluster Analysis of Whole Hearts Reveals Proliferative Cardiomyocytes in Adult Mice" in high resolution.
Creators: Anne-Marie Galow, Markus Wolfien
Submitter: Anne-Marie Galow
Relationship type: Not specified
This pdf contains the top 10 markers for each identified cell type as a dot-plot.
The file contains an UMAP representation illustrating the expression of the stem cell marker Cd34 in all identified cell clusters.
The file contains FeaturePlots of 4 different cardiomyocyte markers (Actn2, Tnnc1, Actc1 and Ryr2) to demonstrate how annotation of clusters needs to be based on several markers and approaches, which in the aggregate allow for more reliable conclusions/results.
The file contains the absolute and relative cell/nuclei numbers per cluster for each individual dataset used in the integrated analysis. Subpopulations were grouped together for the representation of relative cell/nuclei numbers.
This file contains the top 100 transcripts for the identified cell types in the integrated dataset.
This file contains the R-script to analyse single nuclei and single cell data of Bl6 and Fzt:DU mice previously processed with cellranger. The analyses utilizes the Seurat and harmony package to integrate three datasets before subsequent downstream analysis characterizing proliferative cardiomyocytes.
Creator: Anne-Marie Galow
Submitter: Anne-Marie Galow
This file contains the detailed experimental protocol to isolate nuclei from murine hearts.
Creators: Markus Wolfien, Anne-Marie Galow
Submitter: Markus Wolfien
