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The high osmolarity glycerol (HOG) signalling system in yeast belongs to the class of Mitogen Activated Protein Kinase (MAPK) pathways that are found in all eukaryotic organisms. It includes at least three scaffold proteins that form complexes, and involves reactions that are strictly dependent on the set of species bound to a certain complex. The scaffold(More)
Result Based on the analysis proposed in the article, we computed the robustness of expression of different genes against random parameter variations using Monte Carlo simulations. To this end, we performed multiple simulation runs with different parameter sets, each generating a distinct result. The resulting mRNA concentrations have been averaged for each(More)
A range of attributes determines the virulence of human pathogens. During interactions with their hosts, pathogenic microbes often undergo transitions between distinct stages, and the ability to switch between these can be directly related to the disease process. Understanding the mechanisms and dynamics of these transitions is a key factor in understanding(More)
BACKGROUND Gene Regulatory Networks (GRNs) control the differentiation, specification and function of cells at the genomic level. The levels of interactions within large GRNs are of enormous depth and complexity. Details about many GRNs are emerging, but in most cases it is unknown to what extent they control a given process, i.e. the grade of completeness(More)
Saccharomyces cerevisiae is considered as a model organism for the investigation of cellular and molecular processes and gene regulation. Specifically, the response of S. cerevisiae to increase in osmolarity of the external medium (osmoadaptation) is a model adaptation process. The first mathematical model of volume changes in S. cerevisiae due to(More)
BACKGROUND Hybrid revascularization (HyR), combining minimally invasive left internal mammary artery (LIMA) bypass grafting to the left anterior descending coronary artery (LAD) and catheter interventional treatment of the remaining coronary lesions, avoids the disadvantages associated with cardiopulmonary bypass (CPB). We investigated the clinical(More)
We present a model of osmoadaptation in S. cerevisiae based on existing experimental and theoretical work. In order to investigate the impact of osmoadaptation on glycolysis, this model focuses on the interactions between glycolysis and osmoadaptation, namely the production of glycerol and its influence on flux towards pyruvate. Evaluation of this model(More)
Modeling of specification events during development poses new challenges to biochemical modeling. These include data limitations and a notorious absence of homeostasis in developing systems. The sea urchin is one of the best studied model organisms concerning development and a network, the Endomesoderm Network, has been proposed that is presumed to control(More)
Mathematical modeling has proven to be a powerful tool to understand and predict functional and regulatory properties of metabolic processes. High accuracy dynamic modeling of individual pathways is thereby opposed by simplified but genome scale constraint based approaches. A method that links these two powerful techniques would greatly enhance predictive(More)
The recent sequencing of the genome of the sea urchin Strongylocentrotus purpuratus opens up exciting perspectives for scientists. One of the most exciting and also most challenging goals is to fully understand the mechanisms driving the development of a fertilized egg to an adult organism. This understanding is achieved by combining experimental and(More)