Wolfgang Marwan

Quantifying 35 transcripts in a single tube: Model-based calibration of the GeXP RT-PCR assay

The paper develops a kinetic model and data processing workflow to calibrate the GeXP RT-PCR assay for precise transcript quantification in Physarum polycephalum.

True time series of gene expression from multinucleate single cells reveal essential information on the regulatory dynamics of cell differentiation

The paper uses multinucleate cells to generate true time series of gene expression, revealing structured regulatory dynamics in cell differentiation through reachability graphs.

Disentangling a Complex Response in Cell Reprogramming and Probing the Waddington Landscape by Automatic Construction of Petri Nets

The paper uses Petri nets to analyze gene expression trajectories in Physarum polycephalum, revealing developmental routes, metastable states, and molecular signatures in cell reprogramming.

Developmental switching in Physarum polycephalum: Petri net analysis of single cell trajectories of gene expression indicates responsiveness and genetic plasticity of the Waddington quasipotential landscape

The paper analyzes gene expression trajectories in Physarum polycephalum using Petri nets to model developmental switching and genetic plasticity in response to light stimuli.