Jochen Kursawe

The paper uses an active matter model to simulate and reproduce actomyosin oscillations in Drosophila cells during morphogenesis, showing that cell geometry and polarity drive these dynamics.

This paper introduces DEFORM-Net, a deep learning method for estimating full-field displacement in biological images, outperforming traditional and recent approaches in accuracy, speed, and spatial sampling.

This study uses a 3D cell-based computational model to show that oriented cell divisions and repulsive mechanical interactions drive columnar cartilage formation in embryos.

This paper introduces a Bayesian method to infer kinetic parameters of oscillatory gene regulation from single-cell time series data and demonstrates its effectiveness on murine neural progenitor cells.

The paper identifies spatially periodic HES5 microclusters in the mouse spinal cord during neurogenesis, showing their dynamic regulation by Notch signaling and their role in progenitor differentiation.

The paper shows that miR-9 levels increase stepwise during zebrafish neurogenesis through sequential activation of distinct pri-mir-9 loci, which helps overcome adaptation in Her6 dynamics.

The paper shows that miR-9 optimizes noise in the Her6 oscillator, enabling cell state progression in zebrafish hindbrain neurogenesis.

The paper uses live imaging and mathematical modeling to show HES5 protein dynamics correlate with cell-state transitions and fate decisions in murine neurogenesis.

This study uses approximate Bayesian computation to show that repeated measurements are essential for reliably parameterizing cell-based models of tissue growth.

The paper examines how implementation choices in vertex models affect quantitative predictions of tissue dynamics, finding sensitivity to parameters like time step size and cell rearrangement thresholds.

This paper introduces a cell tracking algorithm for epithelial tissues using maximum common subgraphs, demonstrating robustness to morphogenetic deformations and low temporal resolution.

QuickStitch corrects vignetting in confocal mosaics through recursive normalization, enabling seamless stitching of large immunofluorescence images without visible seams.

This paper develops a computational model to study size control in Drosophila embryonic tissues, showing that passive mechanical forces can explain size regulation but require patterning for asymmetries in cell death.