相关论文: Types for BioAmbients

We present a calculus that models a form of process interaction based on copyless message passing, in the style of Singularity OS. The calculus is equipped with a type system ensuring that well-typed processes are free from memory faults,…

To maintain homeostasis, living cells process information with networks of interacting molecules. Traditional models for cellular information processing have focused on networks of chemical reactions between molecules. Here, we describe how…

In order to develop systems capable of artificial evolution, we need to identify which systems can produce complex behavior. We present a novel classification method applicable to any class of deterministic discrete space and time dynamical…

An algebraic model for the relation between a certain classical particle system and the quantum environment is proposed. The quantum environment is described by the category of possible quantum states. The initial particle system is…

Contextuality means non-existence of a joint distribution for random variables recorded under mutually incompatible conditions, subject to certain constraints imposed on how the identity of these variables may change across these…

Often in Software Engineering, a modeling formalism has to support scenarios of inconsistency in which several requirements either reinforce or contradict each other. Paraconsistent transition systems are proposed in this paper as one such…

The computational treatment of many-electron systems capable of exchanging {electrons and nuclei} with the environment represents one of the outermost frontiers in simulation methodology. The exchanging process occurs in a large variety of…

We propose a method to systematically represent both the static and the dynamic components of environments, i.e. objects and agents, as well as the changes that are happening in the environment, i.e. the actions and skills performed by…

One of the defining features of living systems is their adaptability to changing environmental conditions. This requires organisms to extract temporal and spatial features of their environment, and use that information to compute the…

Living organisms rely on molecular networks, such as gene circuits and signaling pathways, for information processing and robust decision-making in crowded, noisy environments. Recent advances show that interacting biomolecules…

From behavioral sciences to biology to quantum mechanics, one encounters situations where (i) a system outputs several random variables in response to several inputs, (ii) for each of these responses only some of the inputs may "directly"…

Spatio-temporal processes in environmental applications are often assumed to follow a Gaussian model, possibly after some transformation. However, heterogeneity in space and time might have a pattern that will not be accommodated by…

Systems biology models are useful models of complex biological systems that may require a large amount of experimental data to fit each model's parameters or to approximate a likelihood function. These models range from a few to thousands…

Bayesian methods are increasingly being applied to parameterize mechanistic process models used in environmental prediction and forecasting. In particular, models describing ecosystem dynamics with multiple states that are linear and…

Within the diverse interdisciplinary life sciences domains, semantic, workflow, and methodological ambiguities can prevent the appreciation of explanations of phenomena, handicap the use of computational models, and hamper communication…

Composition is a powerful principle for systems biology, focused on the interfaces, interconnections, and orchestration of distributed processes to enable integrative multiscale simulations. Whereas traditional models focus on the structure…

Agent-based modeling is a computational dynamic modeling technique that may be less familiar to some readers. Agent-based modeling seeks to understand the behaviour of complex systems by situating agents in an environment and studying the…

Mathematical models are increasingly used in both academia and the pharmaceutical industry to understand how phenotypes emerge from systems of molecular interactions. However, their current construction as monolithic sets of equations…

Occupancy models are used in statistical ecology to estimate species dispersion. The two components of an occupancy model are the detection and occupancy probabilities, with the main interest being in the occupancy probabilities. We show…

We implement in systems of fermions the formalism of pseudoclassical paths that we recently developed for systems of bosons and show that quantum states of fermionic fields can be described, in the Heisenberg picture, as linear combinations…