Markus Wolfien
SEEK ID: https://fairdomhub.org/people/577
Location:
Germany
Expertise: Bioinformatics, Transcriptomics, RNA-Seq, AI, Data Integration
https://orcid.org/0000-0002-1887-4772 
Project roles
Their tagsRelated items
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.
This project is funded by the European Social Fund (ESF) program of the
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Programme: Independent Projects
Public web page: Not specified
The gut–brain axis (GBA) provides a bidirectional homeostatic communication between the gastrointestinal tract and the central nervous system. The interdisciplinary collaboration is going to fully explore a first comprehensive GBA cross-disease map of genetic, expression and regulatory changes associated with ulcerative colitis and schizophrenia disease entities.
Dysfunction of this axis can have pathophysiological consequences. Genome-wide association studies (GWAS) have identified >300
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Programme: This Project is not associated with a Programme
Public web page: https://www.sbi.uni-rostock.de/research/projects/detail/49
Start date: 1st Feb 2019
End date: 12th Feb 2019
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.
This study contains our single nuclei characterisation of whole hearts from Fzt.DU mice published in Cells.
Contributor: Markus Wolfien
Biological problem addressed: Model Analysis Type
Snapshots: No snapshots
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
Contributor: Anne-Marie Galow
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File contains the detailed cluster names for each data set, number of nuclei per cluster, average reads per nucleus, and average reads per cluster.
Creator: Markus Wolfien
Contributor: Markus Wolfien
This dot-plot represents only the most significant genes per identified cell type cluster.
Creators: Markus Wolfien, Anne-Marie Galow
Contributor: Markus Wolfien
This file contains the top markers for the identified cell types.
Creators: Markus Wolfien, Anne-Marie Galow
Contributor: Markus Wolfien
This pdf contains the top 10 markers for each identified cell type as a dot-plot.
Creators: Markus Wolfien, Anne-Marie Galow
Contributor: Markus Wolfien
This file contains the R-script to analyse single nuclei data previously processed with kallisto and bustools. The analyses utilizes the Seurat, harmony and RNAvelocity package.
Creators: Markus Wolfien, Anne-Marie Galow
Contributor: Markus Wolfien
This file contains the detailed UNIX commands for mm10 index file creation (suitable for RNAvelocity) for kallisto as well as the commands used for the alignment with kallisto and the subsequent quantification with bustools.
Creator: Markus Wolfien
Contributor: Markus Wolfien
This file contains the IDs, adj. p-values and official gene names of the top 100 marker genes (where applicable) for each of the identified cluster.
Creator: Markus Wolfien
Contributor: Markus Wolfien
This file contains the detailed experimental protocol to isolate nuclei from murine hearts.
Creators: Markus Wolfien, Anne-Marie Galow
Contributor: Markus Wolfien
This R-script contains the single nuclei analysis for our Fzt:DU and BL6 data, namely bustools file integration, preprocessing, scaling, clustering, marker indentification and annotation of markers and RNAvelocity computation.
Creator: Markus Wolfien
Contributor: Markus Wolfien
Sehr geehrte Damen und Herren,
mit diesem Informationsflyer erfahren Sie mehr über das iRhythmics Projekt unseres Konsortiums.
Mit freundlichen Grüßen
Anna Skorska
Projektmanagerin iRhythmics
Creator: Anna Skorska
Contributor: Markus Wolfien
This file contains a detailed description of the underlying experimental procedure and the computational analysis.
Creators: Markus Wolfien, Anne-Marie Galow
Contributor: Markus Wolfien
This PDF contains a dotplot indicating the gene expression of the top 100 markers (where applicable) for each of the identified 23 clusters.
Creator: Markus Wolfien
Contributor: Markus Wolfien
