COMPUTER SIMULATION AND COMPUTABILITY OF BIOLOGICAL SYSTEMS

The ability to simulate a biological organism by employing a computer is related to the ability of the computer to calculate the behavior of such a dynamical system, or the "computability" of the system.* However, the two questions of computability and simulation are not equivalent. Since the question of computability can be given a precise answer in terms of recursive functions, automata theory and dynamical systems, it will be appropriate to consider it first. The more elusive question of adequate simulation of biological systems by a computer will be then addressed and a possible connection between the two answers given will be considered. A conjecture is formulated that suggests the possibility of employing an algebraic-topological, "quantum" computer (Baianu, 1971b) for analogous and symbolic simulations of biological systems that may include chaotic processes that are not, in genral, either recursively or digitally computable. Depending on the biological network being modelled, such as the Human Genome/Cell Interactome or a trillion-cell Cognitive Neural Network system, the appropriate logical structure for such simulations might be either the Quantum MV-Logic (QMV) discussed in recent publications (Chiara, 2004, and references cited therein)or Lukasiewicz Logic Algebras that were shown to be isomorphic to MV-logic algebras (Georgescu et al, 2001)

A Topological-Based Method for Allocating Sensors by Using CSP Techniques

Model-based diagnosis enables isolation of faults of a system. The diagnosis process uses a set of sensors (observations) and a model of the system in order to explain a wrong behaviour. In this work, a new approach is proposed with the aim of improving the computational complexity for isolating faults in a system. The key idea is the addition of a set of new sensors which allows the improvement of the diagnosability of the system. The methodology is based on constraint programming and a greedy method for improving the computational complexity of the CSP resolution. Our approach maintains the requirements of the user (detectability, diagnosability,. . .).Ministerio de Ciencia y Tecnología DPI2003-07146-C02-0

Applying Constraint Databases in the Determination of Potential Minimal Conflicts to Polynomial Model-Based Diagnosis

Model-based Diagnosis allows the identification of the parts which fail in a system. The models are based on the knowledge of the system to diagnose, and may be represented by constraints associated to the components. The variables of these constraints can be observable or non-observable, depending on the situation of the sensors. In order to obtain the potential minimal diagnosis in a system, an important issue is related to finding out the potential minimal conflicts in an efficient way. We consider that Constraint Databases represent an excellent option in order to solve this problem in complex systems. In this work we have used a novel logical architecture of Constraint Databases which has allowed obtaining these potential conflicts by means of the corresponding queries. Moreover, we have considered Gröbner Bases as a projection operator to obtain the potential minimal conflicts of a system. The first results obtained on this work, which are shown in a heat exchangers example, have been very promising.Ministerio de Ciencia y Tecnología DPI2003-07146-C02-0

Case Adaptation with Qualitative Algebras

This paper proposes an approach for the adaptation of spatial or temporal cases in a case-based reasoning system. Qualitative algebras are used as spatial and temporal knowledge representation languages. The intuition behind this adaptation approach is to apply a substitution and then repair potential inconsistencies, thanks to belief revision on qualitative algebras. A temporal example from the cooking domain is given. (The paper on which this extended abstract is based was the recipient of the best paper award of the 2012 International Conference on Case-Based Reasoning.

Changing a semantics: opportunism or courage?

The generalized models for higher-order logics introduced by Leon Henkin, and their multiple offspring over the years, have become a standard tool in many areas of logic. Even so, discussion has persisted about their technical status, and perhaps even their conceptual legitimacy. This paper gives a systematic view of generalized model techniques, discusses what they mean in mathematical and philosophical terms, and presents a few technical themes and results about their role in algebraic representation, calibrating provability, lowering complexity, understanding fixed-point logics, and achieving set-theoretic absoluteness. We also show how thinking about Henkin's approach to semantics of logical systems in this generality can yield new results, dispelling the impression of adhocness. This paper is dedicated to Leon Henkin, a deep logician who has changed the way we all work, while also being an always open, modest, and encouraging colleague and friend.Comment: 27 pages. To appear in: The life and work of Leon Henkin: Essays on his contributions (Studies in Universal Logic) eds: Manzano, M., Sain, I. and Alonso, E., 201