OM-2017: Proceedings of the Twelfth International Workshop on Ontology Matching

shvaiko2017aInternational audienceOntology matching is a key interoperability enabler for the semantic web, as well as auseful tactic in some classical data integration tasks dealing with the semantic heterogeneityproblem. It takes ontologies as input and determines as output an alignment,that is, a set of correspondences between the semantically related entities of those ontologies.These correspondences can be used for various tasks, such as ontology merging,data translation, query answering or navigation on the web of data. Thus, matchingontologies enables the knowledge and data expressed with the matched ontologies tointeroperate

Ontology Matching: OM-2018: Proceedings of the ISWC Workshop

International audienceno abstrac

Minimal Definition Signatures: Computation and Application to Ontology Alignment

In computer science, ontologies define a domain to facilitate knowledge representation and sharing, in a machine processable way. Ontologies approximate an actual world representation, and thus ontologies will differ for many reasons. Therefore knowledge sharing, and in general semantic interoperability, is inherently hindered or even precluded between heterogenous ontologies. Ontology matching addresses this fundamental issue by producing alignments, i.e. sets of correspondences that describe relations between semantically related entities of different ontologies. However, alignments are typically incomplete. In order to support and improve ontology alignment, and semantic interoperability in general, this thesis exploits the notion of implicit definability. Implicit definability is a semantic property of ontologies, signatures, and concepts (and roles) stating that whenever the signature is fixed under a given ontology then the definition of a particular concept (or role) is also fixed. This thesis introduces the notion of minimal definition signature (MDS) from which a given entity is implicitly definable, and presents a novel approach that provides an efficient way to compute in practice all MDSs of the definable entities. Furthermore, it investigates the application of MDSs in the context of alignment generation, evaluation, and negotiation (whereby agents cooperatively establish a mutually acceptable alignment to support opportunistic communication within open environments). As implicit definability permits defined entities to be removed without semantic loss, this thesis argues, that if the meaning of the defined entity is wholly fixed by the terms of its definition, only the terms in the definition are required to be mapped in order to map the defined entity itself; thus implicit definability entails a new type of definability-based correspondence correspondence. Therefore this thesis defines and explores the properties of definability- based correspondences, and extends several ontology alignment evaluation metrics in order to accommodate their assessment. As task signature coverage is a prerequisite of many knowledge-based tasks (e.g. service invocation), a definability-based, efficient approximation approach to obtaining minimal signature cover sets is presented. Moreover, this thesis outlines a specific alignment negotiation approach and shows that by considering definability, agents are better equipped to: (i) determine whether an alignment provides the necessary coverage to achieve a particular task (align the whole ontology, formulate a message or query); (ii) adhere to privacy and confidentiality constraints; and (iii) minimalise the cardinality of the resulting mutual alignment

Automatic schema matching utilizing hypernymy relations extracted from the web

This thesis explores how a large corpus of Is-a statements can be exploited for the task of schema matching

Semantic Enrichment of Ontology Mappings

Schema and ontology matching play an important part in the field of data integration and semantic web. Given two heterogeneous data sources, meta data matching usually constitutes the first step in the data integration workflow, which refers to the analysis and comparison of two input resources like schemas or ontologies. The result is a list of correspondences between the two schemas or ontologies, which is often called mapping or alignment. Many tools and research approaches have been proposed to automatically determine those correspondences. However, most match tools do not provide any information about the relation type that holds between matching concepts, for the simple but important reason that most common match strategies are too simple and heuristic to allow any sophisticated relation type determination. Knowing the specific type holding between two concepts, e.g., whether they are in an equality, subsumption (is-a) or part-of relation, is very important for advanced data integration tasks, such as ontology merging or ontology evolution. It is also very important for mappings in the biological or biomedical domain, where is-a and part-of relations may exceed the number of equality correspondences by far. Such more expressive mappings allow much better integration results and have scarcely been in the focus of research so far. In this doctoral thesis, the determination of the correspondence types in a given mapping is the focus of interest, which is referred to as semantic mapping enrichment. We introduce and present the mapping enrichment tool STROMA, which obtains a pre-calculated schema or ontology mapping and for each correspondence determines a semantic relation type. In contrast to previous approaches, we will strongly focus on linguistic laws and linguistic insights. By and large, linguistics is the key for precise matching and for the determination of relation types. We will introduce various strategies that make use of these linguistic laws and are able to calculate the semantic type between two matching concepts. The observations and insights gained from this research go far beyond the field of mapping enrichment and can be also applied to schema and ontology matching in general. Since generic strategies have certain limits and may not be able to determine the relation type between more complex concepts, like a laptop and a personal computer, background knowledge plays an important role in this research as well. For example, a thesaurus can help to recognize that these two concepts are in an is-a relation. We will show how background knowledge can be effectively used in this instance, how it is possible to draw conclusions even if a concept is not contained in it, how the relation types in complex paths can be resolved and how time complexity can be reduced by a so-called bidirectional search. The developed techniques go far beyond the background knowledge exploitation of previous approaches, and are now part of the semantic repository SemRep, a flexible and extendable system that combines different lexicographic resources. Further on, we will show how additional lexicographic resources can be developed automatically by parsing Wikipedia articles. The proposed Wikipedia relation extraction approach yields some millions of additional relations, which constitute significant additional knowledge for mapping enrichment. The extracted relations were also added to SemRep, which thus became a comprehensive background knowledge resource. To augment the quality of the repository, different techniques were used to discover and delete irrelevant semantic relations. We could show in several experiments that STROMA obtains very good results w.r.t. relation type detection. In a comparative evaluation, it was able to achieve considerably better results than related applications. This corroborates the overall usefulness and strengths of the implemented strategies, which were developed with particular emphasis on the principles and laws of linguistics

Design and foundations of ontologies with meta-modelling.

Ontologies are broadly used and proved modelling artifacts to conceptualize a domain. In particular the W3C standard ontology language OWL, based on description logics, allows the ontology engineer to formally represent a domain as a set of assertions about concepts, individuals and roles. Nowadays, complex applications leads to combine autonomously built ontologies into ontology networks by relating them through di erent kind of relations. Some relations, such as the mapping of two concepts from di erent ontologies, can be expressed by the standard ontology language OWL, i.e. by the description logics behind it. However, there are other kind of relations that are not soundly represented by OWL, such as the meta-modelling relation. The meta-modelling relation has to do with the modelling of the same real object with di erent abstraction levels, e.g. as a concept in one ontology and as an individual in another ontology. Even though there are a set of approaches that extend description logics to deal with meta-modelling, they do not solve relevant requirements of some real scenarios. The present thesis work introduces an extension to the description logic SHIQ which provides a exible syntax and a strong semantics, and moreover ensures the well-foundedness of the interpretation domain. This approach is di erent from existing meta-modelling approaches either in the syntax or in the semantics (or both), and moreover ensures the well-foundedness of the domain which is an original contribution from the theoretical point of view. The meta-modelling extension of SHIQ introduced in the present work is justi ed by a detailed description of a set of real case studies, with an analysis of the bene ts of the new approach to solve some relevant requirements. Finally, the present work addresses the methodological issue by introducing a design pattern to help the ontology engineer in the use of the proposed meta-modelling approach

Extracting information from biological networks

Thesis (Ph. D.)--Massachusetts Institute of Technology, Dept. of Mathematics, 2010.Cataloged from PDF version of thesis.Includes bibliographical references (p. 175-194).Systems biology, the study of biological systems in a holistic manner, has been catalyzed by a dramatic improvement in experimental techniques, coupled with a constantly increasing availability of biological data. The representation and analysis of this heterogeneous data is facilitated by the powerful abstraction of biological networks. This thesis examines several types of these networks and looks in detail at the kind of information their analysis can yield. The first part discusses protein interaction networks. We introduce a new algorithm for the pairwise alignment of these networks. We show that these alignments can provide important clues to the function of proteins as well as insights into the evolutionary history of the species under examination. The second part discusses regulatory networks. We present an approach for validating putative drug targets based on the information contained in these networks. We show how this approach can also be used to discover drug targets. The third part discusses metabolic networks. We provide new insights into the structure of constraint-based models of cell metabolism and describe a methodology for performing a complete analysis of a metabolic network. We also present an implementation of this methodology and discuss its application to a variety of problems related to the metabolism of bacteria. The final part describes an application of our methodology to Mycobacterium tuberculosis, the pathogen responsible for almost 2 million deaths around the world every year. We introduce a method for reconciling metabolic network reconstructions and apply it to merge the two published networks for tuberculosis. We analyze the merged network and show how it can be refined based on available experimental data to improve its predictive power. We conclude with a list of potential drug targets.by Leonid Alexandrovich Chindelevitch.Ph.D

The significance of silence. Long gaps attenuate the preference for ‘yes’ responses in conversation.

In conversation, negative responses to invitations, requests, offers and the like more often occur with a delay – conversation analysts talk of them as dispreferred. Here we examine the contrastive cognitive load ‘yes’ and ‘no’ responses make, either when given relatively fast (300 ms) or delayed (1000 ms). Participants heard minidialogues, with turns extracted from a spoken corpus, while having their EEG recorded. We find that a fast ‘no’ evokes an N400-effect relative to a fast ‘yes’, however this contrast is not present for delayed responses. This shows that an immediate response is expected to be positive – but this expectation disappears as the response time lengthens because now in ordinary conversation the probability of a ‘no’ has increased. Additionally, however, 'No' responses elicit a late frontal positivity both when they are fast and when they are delayed. Thus, regardless of the latency of response, a ‘no’ response is associated with a late positivity, since a negative response is always dispreferred and may require an account. Together these results show that negative responses to social actions exact a higher cognitive load, but especially when least expected, as an immediate response