Related papers: A Model Checking-based Analysis Framework for Syst…
Mathematical modeling with Ordinary Differential Equations (ODEs) has proven to be extremely successful in a variety of fields, including biology. However, these models are completely deterministic given a certain set of initial conditions.…
In this report, we present work towards a framework for modeling and checking behavior of spatially distributed component systems. Design goals of our framework are the ability to model spatial behavior in a component oriented, simple and…
A key problem in verification of multi-agent systems by model checking concerns the fact that the state-space of the system grows exponentially with the number of agents present. This makes practical model checking unfeasible whenever the…
Increasingly sophisticated experiments, coupled with large-scale computational models, have the potential to systematically test biological hypotheses to drive our understanding of multicellular systems. In this short review, we explore key…
Model-based testing (MBT) provides an automated approach for finding discrepancies between software models and their implementation. If we want to incorporate MBT into the fast and iterative software development process that is Continuous…
We propose a method of classifying the operation of a system into finitely many modes. Each mode has its own objectives for the system's behaviour and its own mathematical models and algorithms designed to accomplish its objectives. A…
Experiments on online marketplaces and social networks suffer from interference, where the outcome of a unit is impacted by the treatment status of other units. We propose a framework for modeling interference using a ubiquitous deployment…
The case study analyzed in the report involves the behavioral specification and verification of a three-stage pipeline consisting of mutually concurrent modules which also compete for a shared resource. The system components are specified…
Membrane systems are a biologically-inspired computational model based on the structure of biological cells and the way chemicals interact and traverse their membranes. Although their dynamics are described by rules, encoding membrane…
The need to model and analyse dynamic systems operating over complex data is ubiquitous in AI and neighboring areas, in particular business process management. Analysing such data-aware systems is a notoriously difficult problem, as they…
In Bounded Model Checking both the system model and the checked property are translated into a Boolean formula to be analyzed by a SAT-solver. We introduce a new encoding technique which is particularly optimized for managing quantitative…
High-dimensional tests are applied to find relevant sets of variables and relevant models. If variables are selected by analyzing the sums of products matrices and a corresponding mean-value test is performed, there is the danger that the…
All biological systems are subject to perturbations: due to thermal fluctuations, external environments, or mutations. Yet, while biological systems are composed of thousands of interacting components, recent high-throughput experiments…
Disordered proteins play essential roles in myriad cellular processes, yet their structural characterization remains a major challenge due to their dynamic and heterogeneous nature. We here present a community-driven initiative to address…
A system is data-independent with respect to a data type X iff the operations it can perform on values of type X are restricted to just equality testing. The system may also store, input and output values of type X. We study model checking…
In robotic radiation therapy, high-energy photon beams from different directions are directed at a target within the patient. Target motion can be tracked by robotic ultrasound and then compensated by synchronous beam motion. However,…
Probabilistic model checking is an approach to the formal modelling and analysis of stochastic systems. Over the past twenty five years, the number of different formalisms and techniques developed in this field has grown considerably, as…
A normally functioning menstrual cycle requires significant crosstalk between hormones originating in ovarian and brain tissues. Reproductive hormone dysregulation may cause abnormal function and sometimes infertility. The inherent…
Models of physical systems are used to explain and predict experimental results and observations. When students encounter discrepancies between the actual and expected behavior of a system, they revise their models to include the newly…
Computational models of biological processes provide one of the most powerful methods for a detailed analysis of the mechanisms that drive the behavior of complex systems. Logic-based modeling has enhanced our understanding and…