Sabine Fischer

Dynamic coupling of cell fate specification and cell sorting during mouse preimplantation development

This study uses agent-based modeling to show that cell fate specification and cell sorting can dynamically couple during mouse preimplantation development, with their relative contributions changing over time.

An agent-based model of Trypanosoma brucei social motility to explore determinants of colony pattern formation

This paper develops an agent-based model of Trypanosoma brucei social motility to determine the mechanisms driving colony pattern formation, finding that chemotactic signal diffusion is key.

VESNA: An Open-Source Tool for Automated 3D Vessel Segmentation and Network Analysis

VESNA is an open-source Fiji macro for automated 3D vessel segmentation and network analysis, demonstrating adaptability across various experimental conditions and tissue culturing methods.

Visualizing the transcription and replication of influenza A viral RNAs in cells by multiple direct RNA padlock probing and in-situ sequencing (mudRapp-seq)

This study introduces mudRapp-seq to visualize influenza A viral RNA transcription and replication at the single-cell level, revealing early mRNA expression and differential segment expression.

Wnt/β-catenin signalling assists cell fate decision making in the early mouse embryo

This study shows Wnt/β-catenin signalling promotes primitive endoderm (PrE) fate in mouse preimplantation embryos by working with FGF/ERK and regulating GATA6/GATA4 stability.

Quantification of Trypanosoma Brucei social motilityindicates different colony growth phases

This study quantifies social motility in Trypanosoma brucei colonies using scale-free metrics and identifies two distinct growth phases.

Anomalous diffusion analysis reveals cooperative locomotion of adult parasitic nematodes in sex-mixed groups.

This study analyzes the locomotion of parasitic nematodes in sex-mixed groups, finding cooperative, super-diffusive movement driven by mating, while individual movement remains random.

The salt-and-pepper pattern in mouse blastocysts is compatible with signalling beyond the nearest neighbours.

The paper analyzes the salt-and-pepper pattern in mouse blastocysts and shows it results from long-range signaling, not just local interactions.

Interactive, visual simulation of a spatio-temporal model of gas exchange in the human alveolus

The paper introduces an interactive visualization tool for simulating gas exchange in human alveoli, demonstrating its utility in research and education.

Cell Fate Clusters in ICM Organoids Arise from Cell Fate Heredity & Division - a Modeling Approach

The paper develops an agent-based model to quantify how cell proliferation and fate heredity contribute to cell lineage clustering in ICM organoids, showing that clustering arises from division rather than random fate assignment.

Three-dimensional cell neighbourhood impacts differentiation in the inner mass cells of the mouse blastocyst

The paper investigates how three-dimensional cell neighbourhoods in mouse blastocysts influence cell fate decisions by analyzing NANOG and GATA6 expression patterns.