Related papers: Some Remarks on Input Choices for Biochemical Syst…

One of the most essential parts of any recommender system is personalization-- how acceptable the recommendations are from the user's perspective. However, in many real-world applications, there are other stakeholders whose needs and…

We study subsystems of open induction which are strongly connected to methods of automated inductive theorem proving. Specifically, we consider systems obtained from restricting induction to atoms, literals, clauses, and dual clauses. We…

Modelling, parameter identification, and simulation play an important role in systems biology. Usually, the goal is to determine parameter values that minimise the difference between experimental measurement values and model predictions in…

The paper presents partial-realization theory and realization algorithms for linear switched systems. Linear switched systems are a particular subclass of hybrid systems. We formulate a notion of a partial realization and we present…

The fields of computing and biology have begun to cross paths in new ways. In this paper a review of the current research in biological computing is presented. Fundamental concepts are introduced and these foundational elements are explored…

This habilitation thesis is intended to be a good introduction to enumeration, the problem of listing solutions. It focuses on the different ways of measuring complexity in enumeration, with a particular emphasis on my contributions to the…

Biological cells, by definition, are the basic units which contain the fundamental molecules of life of which all living things are composed. Understanding how they function and differentiating cells from one another therefore is of…

Most ethical work is done at a low level of formality. This makes practical moral questions inaccessible to formal and natural sciences and can lead to misunderstandings in ethical discussion. In this paper, we use Bayesian inference to…

We introduce a hierarchical classification of theories that describe systems with fundamentally limited information content. This property is introduced in an operational way and gives rise to the existence of mutually complementary…

This paper describes a mathematical formulation for measuring how one system can estimate the consciousness of another. This consciousness estimate is always relative to the observer. The paper shows how this formulation leads to simple…

Many biological decision-making processes can be viewed as performing a classification task over a set of inputs, using various chemical and physical processes as "biological hardware." In this context, it is important to understand the…

In order to develop systems capable of modeling artificial life, 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…

We extend the definitions of upper and lower valuations on partially ordered sets, and consider the metrics they induce, in particular the metrics available (or not) based on the logarithms of such valuations. Motivating applications in…

Bayesian optimization has become widely popular across various experimental sciences due to its favorable attributes: it can handle noisy data, perform well with relatively small datasets, and provide adaptive suggestions for sequential…

Adding explanations to recommender systems is said to have multiple benefits, such as increasing user trust or system transparency. Previous work from other application areas suggests that specific user characteristics impact the users'…

This chapter is a short pedagogical introduction to the use of quantum logic for the simulation of complex quantum systems, including a simulation example on actual quantum hardware.

This chapter revisits the concept of excitability, a basic system property of neurons. The focus is on excitable systems regarded as behaviors rather than dynamical systems. By this we mean open systems modulated by specific interconnection…

We show that a large number of elementary cellular automata are computationally simple. This work is the first systematic classification of elementary cellular automata based on a formal notion of computational complexity. Thanks to the…

Theoretical physics is the search for simple and universal mathematical descriptions of the natural world. In contrast, much of modern biology is an exploration of the complexity and diversity of life. For many, this contrast is prima facie…

With information systems becoming larger scale, recommendation systems are a topic of growing interest in machine learning research and industry. Even though progress on improving model design has been rapid in research, we argue that many…