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We introduce a method for analysing emergent behaviours in multi-agent simulations using complex events. Complex events are composed of interrelated events, and they can be defined at any level of spatio-temporal abstraction (equal to or above the lowest level of abstraction given by the model). Minimal types of complex events define sets, which are equated(More)
It is a common phenomenon for research projects to collect and analyse valuable data using ad-hoc information systems. These costly-to-build systems are often composed of incompatible variants of the same modules, and record data in ways that prevent any meaningful result analysis across similar projects. We present a framework that uses a combination of(More)
A major issue in Complexity Science is the formal description of emergent properties and behaviours in terms of lower level properties and behaviours. As a consequence, there are few techniques for empirically investigating specific emergent properties. In this paper, we introduce a general compositional approach to specifying such properties, using(More)
Proteins are complex adaptive systems. Their functional and structural units, termed domains, are conserved and recombined during evolution. Domains are thermodynamically stable and fold independently within the context of the whole protein, and can arguably be seen as stable units of evolution. New domain functions evolve within the constraints of(More)
Computational techniques for modelling and simulating biological systems are surveyed and their semantic and representational capabilities evaluated. To illustrate some of these capabilties, their main applications in this area are also described. A broad range of perspectives is included, represented by three important computational approaches: rewriting(More)
Ligand-binding sites in homologous protein domains can diverge greatly during evolution. This poses a particularly interesting problem in those cases where the ligand-binding site is situated in, or close to, the domain core, or where ligand-docking induces dramatic conformational changes. These features are present in many receptors and enzymes; the(More)
Cancer treatment decisions should be based on all available evidence. But this evidence is complex and varied: it includes not only the pa-tient's symptoms and expert knowledge of the relevant causal processes, but also clinical databases relating to past patients, databases of observations made at the molecular level, and evidence encapsulated in(More)
Cancer treatment decisions should be based on all available evidence. But this evidence is complex and varied: it includes not only the patient's symptoms and expert knowledge of the relevant causal processes, but also clinical databases relating to past patients, databases of observations made at the molecular level, and evidence encapsulated in scientific(More)
According to objective Bayesianism, an agent's degrees of belief should be determined by a probability function, out of all those that satisfy constraints imposed by background knowledge, that maximises entropy. A Bayesian net offers a way of efficiently representing a probability function and efficiently drawing inferences from that function. An objective(More)