Showing papers by "Ian Horrocks published in 2014"

HermiT: An OWL 2 Reasoner

Abstract: This system description paper introduces the OWL 2 reasoner HermiT. The reasoner is fully compliant with the OWL 2 Direct Semantics as standardised by the World Wide Web Consortium (W3C). HermiT is based on the hypertableau calculus, and it supports a wide range of standard and novel optimisations that improve the performance of reasoning on real-world ontologies. Apart from the standard OWL 2 reasoning task of entailment checking, HermiT supports several specialised reasoning services such as class and property classification, as well as a range of features outside the OWL 2 standard such as DL-safe rules, SPARQL queries, and description graphs. We discuss the system's architecture, and we present an overview of the techniques used to support the mentioned reasoning tasks. We further compare the performance of reasoning in HermiT with that of FaCT++ and Pellet--two other popular and widely used OWL 2 reasoners.

Parallel materialisation of datalog programs in centralised, main-memory RDF systems

Abstract: We present a novel approach to parallel materialisation (i.e., fixpoint computation) of datalog programs in centralised, main-memory, multi-core RDF systems. Our approach comprises an algorithm that evenly distributes the workload to cores, and an RDF indexing data structure that supports efficient, 'mostly' lock-free parallel updates. Our empirical evaluation shows that our approach parallelises computation very well: with 16 physical cores, materialisation can be up to 13.9 times faster than with just one core.

Description Logics

Abstract: This article provides a self-contained first introduction to description logics (DLs). The main concepts and features are explained with examples before the syntax and semantics of the DL SROIQ are defined in detail. Additional sections review lightweight DL languages, discuss the relationship to the Web Ontology Language (OWL), and give pointers to further reading.

Acyclicity Notions for Existential Rules and Their Application to Query Answering in Ontologies

Abstract: Answering conjunctive queries (CQs) over a set of facts extended with existential rules is a prominent problem in knowledge representation and databases. This problem can be solved using the chase algorithm, which extends the given set of facts with fresh facts in order to satisfy the rules. If the chase terminates, then CQs can be evaluated directly in the resulting set of facts. The chase, however, does not terminate necessarily, and checking whether the chase terminates on a given set of rules and facts is undecidable. Numerous acyclicity notions were proposed as sufficient conditions for chase termination. In this paper, we present two new acyclicity notions called model-faithful acyclicity (MFA) and model-summarising acyclicity (MSA). Furthermore, we investigate the landscape of the known acyclicity notions and establish a complete taxonomy of all notions known to us. Finally, we show that MFA and MSA generalise most of these notions. Existential rules are closely related to the Horn fragments of the OWL 2 ontology language; furthermore, several prominent OWL 2 reasoners implement CQ answering by using the chase to materialise all relevant facts. In order to avoid termination problems, many of these systems handle only the OWL 2 RL profile of OWL 2; furthermore, some systems go beyond OWL 2 RL, but without any termination guarantees. In this paper we also investigate whether various acyclicity notions can provide a principled and practical solution to these problems. On the theoretical side, we show that query answering for acyclic ontologies is of lower complexity than for general ontologies. On the practical side, we show that many of the commonly used OWL 2 ontologies are MSA, and that the number of facts obtained by materialisation is not too large. Our results thus suggest that principled development of materialisation-based OWL 2 reasoners is practically feasible.

Hypertableau Reasoning for Description Logics

Abstract: We present a novel reasoning calculus for the description logic SHOIQ^+---a knowledge representation formalism with applications in areas such as the Semantic Web. Unnecessary nondeterminism and the construction of large models are two primary sources of inefficiency in the tableau-based reasoning calculi used in state-of-the-art reasoners. In order to reduce nondeterminism, we base our calculus on hypertableau and hyperresolution calculi, which we extend with a blocking condition to ensure termination. In order to reduce the size of the constructed models, we introduce anywhere pairwise blocking. We also present an improved nominal introduction rule that ensures termination in the presence of nominals, inverse roles, and number restrictions---a combination of DL constructs that has proven notoriously difficult to handle. Our implementation shows significant performance improvements over state-of-the-art reasoners on several well-known ontologies.

EL−ifying Ontologies

Abstract: The OWL 2 profiles are fragments of the ontology language OWL 2 for which standard reasoning tasks are feasible in polynomial time. Many OWL ontologies, however, contain a typically small number of out-of-profile axioms, which may have little or no influence on reasoning outcomes. We investigate techniques for rewriting axioms into the EL and RL profiles of OWL 2. We have tested our techniques on both classification and data reasoning tasks with encouraging results.

Pay-as-you-go OWL query answering using a triple store

Abstract: We present an enhanced hybrid approach to OWL query answering that combines an RDF triple-store with an OWL reasoner in order to provide scalable pay-as-you-go performance. The enhancements presented here include an extension to deal with arbitrary OWLontologies, and optimisations that significantly improve scalability. We have implemented these techniques in a prototype system, a preliminary evaluation of which has produced very encouraging results.

Pushing the Boundaries of Tractable Ontology Reasoning

Abstract: We identify a class of Horn ontologies for which standard reasoning tasks such as instance checking and classification are tractable. The class is general enough to include the OWL 2 EL, QL, and RL profiles. Verifying whether a Horn ontology belongs to the class can be done in polynomial time. We show empirically that the class includes many real-world ontologies that are not included in any OWL 2 profile, and thus that polynomial time reasoning is possible for these ontologies.

Towards Exploiting Query History for Adaptive Ontology-Based Visual Query Formulation

Abstract: Grounded on real industrial use cases, we recently proposed an ontology-based visual query system for SPARQL, named OptiqueVQS. Ontology-based visual query systems employ ontologies and visual representations to depict the domain of interest and queries, and are promising to enable end users without any technical background to access data on their own. However, even with considerably small ontologies, the number of ontology elements to choose from increases drastically, and hence hinders usability. Therefore, in this paper, we propose a method using the log of past queries for ranking and suggesting query extensions as a user types a query, and identify emerging issues to be addressed.

A rule-based ontological framework for the classification of molecules.

Abstract: A variety of key activities within life sciences research involves integrating and intelligently managing large amounts of biochemical information. Semantic technologies provide an intuitive way to organise and sift through these rapidly growing datasets via the design and maintenance of ontology-supported knowledge bases. To this end, OWL—a W3C standard declarative language— has been extensively used in the deployment of biochemical ontologies that can be conveniently organised using the classification facilities of OWL-based tools. One of the most established ontologies for the chemical domain is ChEBI, an open-access dictionary of molecular entities that supplies high quality annotation and taxonomical information for biologically relevant compounds. However, ChEBI is being manually expanded which hinders its potential to grow due to the limited availability of human resources. In this work, we describe a prototype that performs automatic classification of chemical compounds. The software we present implements a sound and complete reasoning procedure of a formalism that extends datalog and builds upon an off-the-shelf deductive database system. We capture a wide range of chemical classes that are not expressible with OWL-based formalisms such as cyclic molecules, saturated molecules and alkanes. Furthermore, we describe a surface ‘less-logician-like’ syntax that allows application experts to create ontological descriptions of complex biochemical objects without prior knowledge of logic. In terms of performance, a noticeable improvement is observed in comparison with previous approaches. Our evaluation has discovered subsumptions that are missing from the manually curated ChEBI ontology as well as discrepancies with respect to existing subclass relations. We illustrate thus the potential of an ontology language suitable for the life sciences domain that exhibits a favourable balance between expressive power and practical feasibility. Our proposed methodology can form the basis of an ontology-mediated application to assist biocurators in the production of complete and error-free taxonomies. Moreover, such a tool could contribute to a more rapid development of the ChEBI ontology and to the efforts of the ChEBI team to make annotated chemical datasets available to the public. From a modelling point of view, our approach could stimulate the adoption of a different and expressive reasoning paradigm based on rules for which state-of-the-art and highly optimised reasoners are available; it could thus pave the way for the representation of a broader spectrum of life sciences and biomedical knowledge.

Querying Distributed RDF Graphs: The Effects of Partitioning.

Abstract: Web-scale RDF datasets are increasingly processed using distributed RDF data stores built on top of a cluster of shared-nothing servers. Such systems critically rely on their data partitioning scheme and query answering scheme, the goal of which is to facilitate correct and efficient query processing. Existing data partitioning schemes are commonly based on hashing or graph partitioning techniques. The latter techniques split a dataset in a way that minimises the number of connections between the resulting subsets, thus reducing the need for communication between servers; however, to facilitate efficient query answering, considerable duplication of data at the intersection between subsets is often needed. Building upon the known graph partitioning approaches, in this paper we present a novel data partitioning scheme that employs minimal duplication and keeps track of the connections between partition elements; moreover, we propose a query answering scheme that uses this additional information to correctly answer all queries. We show experimentally that, on certain well-known RDF benchmarks, our data partitioning scheme often allows more answers to be retrieved without distributed computation than the known schemes, and we show that our query answering scheme can efficiently answer many queries.

Why not simply Google

Abstract: We demonstrate an ontology-based visual query system, namely OptiqueVQS, for end users without any technical background to formulate rather complex information needs into formal queries over databases. It is built on multiple and coordinated representation and interaction paradigms and a flexible widget-based architecture.

Handling owl:sameAs via Rewriting

Abstract: Rewriting is widely used to optimise owl:sameAs reasoning in materialisation based OWL 2 RL systems. We investigate issues related to both the correctness and efficiency of rewriting, and present an algorithm that guarantees correctness, improves efficiency, and can be effectively parallelised. Our evaluation shows that our approach can reduce reasoning times on practical data sets by orders of magnitude.

Pay−as−you−go Ontology Query Answering Using a Datalog Reasoner

Abstract: We describe a hybrid approach to conjunctive query answering over OWL 2 ontologies that combines a datalog reasoner with a fully-fledged OWL 2 reasoner in order to provide scalable “pay as you go” performance. Our approach delegates the bulk of the computation to the highly scalable datalog engine and resorts to expensive OWL 2 reasoning only as necessary to fully answer the query. We have implemented a prototype system that uses RDFox as a datalog reasoner, and HermiT as an OWL 2 reasoner. Our evaluation over both benchmark and realistic ontologies and datasets suggests the feasibility of our approach.

OptiqueVQS: visual query formulation for OBDA

Abstract: Ontology Based Data Access (OBDA) is a recently proposed prominent approach that aims at providing domain experts with a direct access to available enterprise data sources without IT-experts being involved. OBDA is an alternative to centralised approaches, where an IT-expert translates the requirements of domain experts into Extract-Transform-Load (ETL) processes to first integrate the data and then to apply predefined analytical reporting tools. Currently, centralised approaches are commonly used in enterprises; they, however, can become too heavy-weight and inflexible in some cases, that can be addressed the OBDA approach.

Reasoning Web. Reasoning on the Web in the Big Data Era

Abstract: With Linked Data, a very pragmatic approach towards achieving the vision of the Semantic Web has gained some traction in the last years. The term Linked Data refers to a set of best practices for publishing and interlinking structured data on the Web. While many standards, methods and technologies developed within by the Semantic Web community are applicable for Linked Data, there are also a number of specific characteristics of Linked Data, which have to be considered. In this article we introduce the main concepts of Linked Data. We present an overview of the Linked Data life-cycle and discuss individual approaches as well as the state-of-the-art with regard to extraction, authoring, linking, enrichment as well as quality of Linked Data. We conclude the chapter with a discussion of issues, limitations and further research and development challenges of Linked Data. This article is an updated version of a similar lecture given at Reasoning Web Summer School 2013.

Parallel OWL 2 RL Materialisation in Centralised‚ Main−Memory RDF Systems

Abstract: We present a novel approach to parallel materialisation (i.e., fixpoint computation) of OWL RL Knowledge Bases in centralised, main-memory, multicore RDF systems. Our approach comprises a datalog reasoning algorithm that evenly distributes the workload to cores, and an RDF indexing data structure that supports efficient, ‘mostly’ lock-free parallel updates. Our empirical evaluation shows that our approach parallelises computation very well so, with 16 physical cores, materialisation can be up to 13.9 times faster than with just one core.

Is Your Ontology as Hard as You Think? Rewriting Ontologies into Simpler DLs

Abstract: We investigate cases where an ontology expressed in a seemingly hard DL can be polynomially reduced to one in a simpler logic, while preserving reasoning outcomes for classification and fact entailment. Our transformations target the elimination of inverse roles, universal and existential restrictions, and in the best case allow us to rewrite the given ontology into one of the OWL 2 profiles. Even if an ontology cannot be fully rewritten into a profile, in many cases our transformations allow us to exploit further optimisation techniques. Moreover, the elimination of some out-of-profile axioms can improve the performance of modular reasoners, such as MORe. We have tested our techniques on both classification and data reasoning tasks with encouraging results.

Ontology Module Extraction via Datalog Reasoning

Abstract: Module extraction - the task of computing a (preferably small) fragment M of an ontology T that preserves entailments over a signature S - has found many applications in recent years. Extracting modules of minimal size is, however, computationally hard, and often algorithmically infeasible. Thus, practical techniques are based on approximations, where M provably captures the relevant entailments, but is not guaranteed to be minimal. Existing approximations, however, ensure that M preserves all second-order entailments of T w.r.t. S, which is stronger than is required in many applications, and may lead to large modules in practice. In this paper we propose a novel approach in which module extraction is reduced to a reasoning problem in datalog. Our approach not only generalises existing approximations in an elegant way, but it can also be tailored to preserve only specific kinds of entailments, which allows us to extract significantly smaller modules. An evaluation on widely-used ontologies has shown very encouraging results.