Carsten Tobias Kuenne

This study uses iPSC-derived endothelial cells from Marfan syndrome patients to show impaired inflammatory resolution and endothelial dysfunction linked to FBN1 variants.

SC-Framework provides a unified, containerized environment for single-cell data analysis to improve reproducibility and scalability.

This study identifies REG3β as a factor that removes aged neutrophils after myocardial infarction, promoting inflammation resolution and cardiac repair.

FRED generates FAIR-compliant metadata for omics experiments, enabling structured data management and interoperability.

This study identifies nuclear eNOS's role in modulating ADAR1 activity and type I interferon signaling, linking NO bioavailability to endothelial function and atherogenesis.

PEAKQC evaluates single-cell ATAC-seq quality using wavelet-based convolution of fragment length distribution patterns, improving downstream analysis by filtering low-quality cells.

This study identifies DUXBL as a key factor promoting the silencing of the 2C transcriptional program during exit from totipotency.

TF-COMB identifies co-occurring transcription factors and their binding grammar using ChIP-seq data and ATAC-seq footprinting.

i2dash creates customizable, interactive web dashboards for visualizing omics data, integrating with R-based analysis pipelines and supporting single-cell RNA-seq workflows.

multicrispr is a gRNA design tool that enables efficient and specific gRNA creation for CRISPR-based applications like Prime Editing and large-scale screening.

TOBIAS enables genome-wide analysis of TF binding dynamics using ATAC-seq data, revealing complex TF interactions during zygotic genome activation in humans and mice.

This study shows adult zebrafish can regenerate cardiac valves after decellularization, with TGF-β signaling promoting this process by enhancing progenitor cell proliferation and differentiation.

This study identifies interferon-stimulated gene and cellular stress pathway activation in zebrafish morpholino-injected embryos, suggesting morpholinos may trigger innate immune responses.

The paper shows that mutant mRNA degradation triggers transcriptional adaptation in zebrafish and mouse, leading to upregulation of related genes.

The paper identifies Npas4l target genes involved in cardiovascular development using zebrafish models and genome-wide approaches.

The paper uses single-cell RNA-seq and ATAC-seq to study cardiac progenitor cell fate transitions, identifying roles for Isl1 and Nkx2-5 in lineage commitment and gene regulatory networks.

The paper introduces a web-based GUI for the UROPA tool to simplify genomic region annotation for biologists and clinicians.