Higher-order Representation and Reasoning for Automated Ontology Evolution

Abstract: The GALILEO system aims at realising automated ontology evolution. This is necessary to enable intelligent agents to manipulate their own knowledge autonomously and thus reason and communicate effectively in open, dynamic digital environments characterised by the heterogeneity of data and of representation languages. Our approach is based on patterns of diagnosis of faults detected across multiple ontologies. Such patterns allow to identify the type of repair required when conflicting ontologies yield erroneous inferences. We assume that each ontology is locally consistent, i.e. inconsistency arises only across ontologies when they are merged together. Local consistency avoids the derivation of uninteresting theorems, so the formula for diagnosis can essentially be seen as an open theorem over the ontologies. The system’s application domain is physics; we have adopted a modular formalisation of physics, structured by means of locales in Isabelle, to perform modular higher-order reasoning, and visualised by means of development graphs.

A Realist Interpretation of the Quantum Measurement Problem

A new, realist interpretation of the quantum measurement processes is given. In this scenario a quantum measurement is a non-equilibrium phase transition in a ``resonant cavity'' formed by the entire physical universe including all its material and energy content. Both the amplitude and the phase of the quantum mechanical wavefunction acquire substantial meaning in this picture, and the probabilistic element is removed from the foundations of quantum mechanics, its apparent presence in the quantum measurement process is viewed as a result of the sensitive dependence on initial/boundary conditions of the non-equilibrium phase transitions in a many degree-of-freedom system. The implications of adopting this realist ontology to the clarification and resolution of lingering issues in the foundations of quantum mechanics, such as wave-particle duality, Heisenberg's uncertainty relation, Schrodinger's Cat paradox, first and higher order coherence of photons and atoms, virtual particles, the existence of commutation relations and quantized behavior, etc., are also presented.Comment: 8 pages, submiited to the Proceedings of the international conference "Albert Einstein Century", held July 2005 in Paris, Franc

Categorical Ontology of Complex Systems, Meta-Systems and Theory of Levels: The Emergence of Life, Human Consciousness and Society

Single cell interactomics in simpler organisms, as well as somatic cell interactomics in multicellular organisms, involve biomolecular interactions in complex signalling pathways that were recently represented in modular terms by quantum automata with ‘reversible behavior’ representing normal cell cycling and division. Other implications of such quantum automata, modular modeling of signaling pathways and cell differentiation during development are in the fields of neural plasticity and brain development leading to quantum-weave dynamic patterns and specific molecular processes underlying extensive memory, learning, anticipation mechanisms and the emergence of human consciousness during the early brain development in children. Cell interactomics is here represented for the first time as a mixture of ‘classical’ states that determine molecular dynamics subject to Boltzmann statistics and ‘steady-state’, metabolic (multi-stable) manifolds, together with ‘configuration’ spaces of metastable quantum states emerging from complex quantum dynamics of interacting networks of biomolecules, such as proteins and nucleic acids that are now collectively defined as quantum interactomics. On the other hand, the time dependent evolution over several generations of cancer cells --that are generally known to undergo frequent and extensive genetic mutations and, indeed, suffer genomic transformations at the chromosome level (such as extensive chromosomal aberrations found in many colon cancers)-- cannot be correctly represented in the ‘standard’ terms of quantum automaton modules, as the normal somatic cells can. This significant difference at the cancer cell genomic level is therefore reflected in major changes in cancer cell interactomics often from one cancer cell ‘cycle’ to the next, and thus it requires substantial changes in the modeling strategies, mathematical tools and experimental designs aimed at understanding cancer mechanisms. Novel solutions to this important problem in carcinogenesis are proposed and experimental validation procedures are suggested. From a medical research and clinical standpoint, this approach has important consequences for addressing and preventing the development of cancer resistance to medical therapy in ongoing clinical trials involving stage III cancer patients, as well as improving the designs of future clinical trials for cancer treatments.\ud \ud \ud KEYWORDS: Emergence of Life and Human Consciousness;\ud Proteomics; Artificial Intelligence; Complex Systems Dynamics; Quantum Automata models and Quantum Interactomics; quantum-weave dynamic patterns underlying human consciousness; specific molecular processes underlying extensive memory, learning, anticipation mechanisms and human consciousness; emergence of human consciousness during the early brain development in children; Cancer cell ‘cycling’; interacting networks of proteins and nucleic acids; genetic mutations and chromosomal aberrations in cancers, such as colon cancer; development of cancer resistance to therapy; ongoing clinical trials involving stage III cancer patients’ possible improvements of the designs for future clinical trials and cancer treatments. \ud \u