Formal Methods For The Analysis Of Biomedical Ontologies
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Formal Methods for the Analysis of Biomedical Ontologies
The book synthesizes research on the analysis of biomedical ontologies using formal concept analysis, including through auditing, curation, and enhancement. As the evolution of biomedical ontologies almost inevitably involves manual work, formal methods are a particularly useful tool for ontological engineering and practice, particularly in uncovering unexpected "bugs" and content materials. The book first introduces simple but formalized strategies for discovering undesired and incoherent patterns in ontologies before exploring the application of formal concept analysis for semantic completeness. The book then turns to formal concept analysis, a classical approach used in the mathematical treatment of orders and lattices, as an ontological engineering principle, focusing on the structural property of ontologies with respect to its conformation to lattice or not (non-lattice). The book helpfully covers the development of more efficient algorithms for non-lattice detection and extraction required by exhaustive lattice/non-lattice analysis. The book goes on to highlight the power and utility of uncovering non-lattice structure for debugging ontologies and describes methods that leverage the linguistic information in concept names (labels) for ontological analysis. It also addresses visualization and performance evaluation issues before closing with an overview and forward-looking perspectives on the field. This book is intended for graduate students and researchers interested in biomedical ontologies and their applications. It can be a useful supplement for courses on knowledge representation and engineering and also provide readers with a reference for related scientific publications and literature to assist in identifying potential research topics. All mathematical concepts and notations used in this book can be found in standard discrete mathematics textbooks, and the appendix at the end of the book provides a list of key ontological resources, as well as annotated non-lattice and lattice examples that were discovered using the authors' methods, demonstrating how "bugs are fixed" by converting non-lattices to lattices with minimal edit changes.
Formal Ontology in Information Systems
Ontology, originally a fundamental part of philosophical enquiry, is concerned with the analysis and categorization of what exists. The advent of complex information systems which rely on robust and coherent formal representations of their subject matter has led to a renewed focus on ontological enquiry, and the systematic study of such representations are at the center of the modern discipline of formal ontology. This is now a research focus in domains as diverse as conceptual modeling, database design, software engineering, artificial intelligence, computational linguistics, the life sciences, bioinformatics, geographic information science, knowledge engineering, information retrieval and the semantic web. This book presents the proceedings of the 9th edition of the Formal Ontology in Information Systems conference (FOIS 2016) held in Annecy, France, in July 2016. It contains the 25 full papers delivered at the conference (an acceptance rate of 30.9% for the main track), as well as the abstracts of the 3 keynotes by Gilberto Câmara, Stephen Mumford and Friederike Moltmann. The remainder of the book is divided into the sections: Foundations; Space, Time and Change; Cognition, Language and Semantics; Empiricism and Measurement; Ontology for Engineering; Biomedical Ontologies; and Ontology of Social Reality. The domains addressed by the papers include geography, biomedicine, economics, social reality and engineering, and the book will be of interest to all those working in these fields, as well as to anybody with an interest in formal ontology.
The Handbook of Formal Methods in Human-Computer Interaction
This book provides a comprehensive collection of methods and approaches for using formal methods within Human-Computer Interaction (HCI) research, the use of which is a prerequisite for usability and user-experience (UX) when engineering interactive systems. World-leading researchers present methods, tools and techniques to design and develop reliable interactive systems, offering an extensive discussion of the current state-of-the-art with case studies which highlight relevant scenarios and topics in HCI as well as presenting current trends and gaps in research and future opportunities and developments within this emerging field. The Handbook of Formal Methods in Human-Computer Interaction is intended for HCI researchers and engineers of interactive systems interested in facilitating formal methods into their research or practical work.