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  • 1.
    Adlemo, Anders
    et al.
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics. Jönköping University / School of Engineering.
    Tan, He
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Tarasov, Vladimir
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Test case quality as perceived in Sweden2018In: Proceedings - International Conference on Software Engineering / [ed] Michael Unterkalmsteiner, ACM Digital Library, 2018, p. 9-12Conference paper (Refereed)
    Abstract [en]

    In order to reach an acceptable level of confidence in the quality of a software product, testing of the software is paramount. To obtain "good" quality software it is essential to rely on "good" test cases. To define the criteria for what make up for a "good" test case is not a trivial task. Over the past 15 years, a short list of publications have presented criteria for "good" test cases but without ranking them based on their importance. This paper presents a non-exhaustive and non-authoritative tentative list of 15 criteria and a ranking of their relative importance. A number of the criteria come from previous publications but also from discussions with our industrial partners. The ranking is based on results collected via a questionnaire that was sent out to a limited number of randomly chosen respondents in the Swedish software industry. This means that the results are more indicative than conclusive.

  • 2.
    Backofen, Rolf
    et al.
    Friedrich-Schiller-Universität Jena, Germany.
    Badea, Liviu
    National Institute for Research and Development in Informatics, Bucharest, Romania.
    Barahona, Pedro
    Universidade Nova de Lisboa, Portugal.
    Berndtsson, Mikael
    University of Skövde, Sweden.
    Burger, Albert
    Heriot-Watt University/MRC Human GeneticsUnit, Edinburgh, UK.
    Dawelbait, Gihan
    Technische Universität Dresden, Germany.
    Doms, Andreas
    Technische Universität Dresden, Germany.
    Fages, Francois
    INRIA Rocquencourt, Paris, France.
    Hotaran, Anca
    National Institute for Research and Development in Informatics, Bucharest, Romania.
    Jakoniené, Vaida
    (Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Krippahl, Ludwig
    Universidade Nova de Lisboa, Portugal.
    Lambrix, Patrick
    (Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    McLeod, Kenneth
    Heriot-Watt University/MRC Human GeneticsUnit, Edinburgh, UK.
    Nutt, Werner
    Heriot-Watt University/MRC Human GeneticsUnit, Edinburgh, UK.
    Olsson, Bjorn
    University of Skövde, Sweden.
    Schroeder, Michael
    Technische Universität Dresden, Germany.
    Schroiff, Anna
    University of Skövde, Sweden.
    Royer, Luc
    Technische Universität Dresden, Germany.
    Soliman, Sylvain
    INRIA Rocquencourt, Paris, France.
    Tan, He
    (Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tilivea, Doina
    National Institute for Research and Development in Informatics, Bucharest, Romania.
    Will, Sebastian
    Friedrich-Schiller-Universit¨at Jena, Germany.
    Requirements and specification of bioinformatics use cases2005Report (Other academic)
    Abstract [en]

    This deliverable specifies use cases based on bioinformatics research carried out by members ofA2. The use cases involve the use of rules to reason over ontologies and pathways (Dresden,Edinburgh, Paris, Linköping) and rules to specify workflows to integrate bioinformatics data (Lisbon, Skövde, Jena, Bucharest). The use cases are designed as a reference point to foster the take up of A2 use cases by I-work packages. Most notably, many of the use cases specify the need for querying and reactivity with languages like Xcerpt (I4), Erus (I5) and Prova (I5). The use cases range from basic research applications to fully deployed software with an international user base.

  • 3.
    Backofen, Rolf
    et al.
    Albert-Ludwigs-universität Freiburg, Germany.
    Burger, Albert
    Heriot-Watt university Edinburgh, UK.
    Busch, Anke
    Albert-Ludwigs-universität Freiburg, Germany.
    Dawelbait, Gihan
    TU Dresden, Germany.
    Fages, Francois
    INRIA Rocquencourt Paris, France.
    Jakoniené, Vaida
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Lambrix, Patrick
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    McLeod, Kenneth
    Heriot-Watt university Edinburgh, UK.
    Soliman, Sylvain
    INRIA Rocquencourt Paris, France.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Will, Sebastian
    Albert-Ludwigs-universität Freiburg, Germany.
    Implementation of prototypes2007Report (Other academic)
  • 4.
    Backofen, Rolf
    et al.
    Friedrich-Schiller-Universität Jena, Germany.
    Mike, Badea
    Victoria University of Manchester, UK.
    Barahona, Pedro
    FCT-UNL, Lisbon.
    Burger, Albert
    Harriot-Watt University, Edinburgh, UK.
    Dawelbait, Gihan
    Technical University of Dresden, Germany.
    Doms, Andreas
    Technical University of Dresden, Germany.
    Fages, Francois
    INRIA Rocquencourt, France.
    Hotaran, Anca
    National Institute for Research and Development in Informatics, Romania.
    Jakoniené, Vaida
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Krippahl, Ludwig
    FCT-UNL, Lisbon.
    Lambrix, Patrick
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    McLeod, Kenneth
    Harriot-Watt University, Edinburgh, UK.
    Möller, Steffen
    Universität Rostock, Germany.
    Nutt, Werner
    Harriot-Watt University, Edinburgh, UK.
    Olsson, Björn
    University of Skövde, Sweden.
    Schroeder, Michael
    Technical University of Dresden, Germany.
    Soliman, Sylvain
    INRIA Rocquencourt, France.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tilivea, Doina
    National Institute for Research and Development in Informatics, Romania.
    Will, Sebastian
    Friedrich-Schiller-Universität Jena, Germany.
    Usage of bioinformatics tools and identification of information sources2005Report (Other academic)
    Abstract [en]

    Bioinformatics is an important application area for semantic web technologies as much of the data is online and accessible in XML format, as some sites already support web services, and as ontologies are widely used to annotate data. In this deliverable, we give a survey over 18 of the most important bioinformatics resources and discuss their availability and accessibility, which are two of the main criteria for these resources to act as bases for later demonstrators.

  • 5. Chen, Bi
    et al.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Lambrix, Patrick
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Structure-Based Filtering for Ontology Alignment2006In: Proceedings of the 15th IEEE WETICE Workshop on Semantic Technologies in Collaborative Applications, 2006, p. 364-369Conference paper (Refereed)
    Abstract [en]

    Ontologies are an important technology for the Semantic Web and many ontologies have already been developed. Many ontologies also contain overlapping information and to be able to use them together effectively, we need to align them. Some of the current alignment techniques use information about the structure of the ontologies, but they have not produced good results in evaluations. We propose an approach where, in contrast to the other approaches, structural information is used as a filtering method in the alignment process. We evaluate the approach in terms of quality and performance.

  • 6.
    Lambrix, Patrick
    et al.
    Linköpings universitet, Institutionen för datavetenskap, IISLAB - Laboratoriet för intelligenta informationssystem.
    Edberg, Anna
    Manis, Carolyn
    Linköpings universitet, Institutionen för datavetenskap.
    Tan, He
    Linköpings universitet, Institutionen för datavetenskap, IISLAB - Laboratoriet för intelligenta informationssystem.
    Merging DAML+OIL bio-ontologies2003In: Proceedings of the 2003 International Workshop on Description Logics (DL2003), Rome, Italy, September 5-7, 2003 / [ed] Diego Calvanese, Giuseppe De Giacomo, Enrico Franconi, 2003Conference paper (Refereed)
    Abstract [en]

    Ontologies are being used nowadays in many areas. Within the bioinformatics area there are a number of bio-ontologies that cover different aspects in molecular biology. Many of these ontologies contain overlapping information. In applications using multiple ontologies it is therefore of interest to be able to merge these ontologies. In this paper we describe a prototype implementation of an ontology merging tool for DAML+OIL ontologies. The tool generates suggestions for merging roles and concepts and for is-a relationships between concepts. We also evaluate the quality of the suggestions using well-known bio-ontologies

  • 7.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Liu, Qiang
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    A system for repairing missing is-a structure in ontologies2009In: Proceedings of the Workshop on Semantic Web Applications and Tools for Life Sciences, Amsterdam, The Netherlands, November 20, 2009 / [ed] M. Scott Marshall, Albert Burger, Paolo Romano, Adrian Paschke, Andrea Splendiani, 2009Conference paper (Refereed)
    Abstract [en]

    Developing ontologies is not an easy task and often the resulting ontologies are not consistent or strucurally complete. Such ontologies, although often useful, also lead to problems when used in semantically-enabled applications. Wrong conclusions may be derived or valid conclusions may be missed. To deal with this problem we may want to repair the ontologies. In this demo we present a system that supports the repair of the is-a hierarchy in ontologies. We have developed a tool that, given missing is-a relations, generates and recommends relevant ways to repair the is-a structure of the ontology and that allows a domain expert to do the repair in a semi-automatic way.

  • 8.
    Lambrix, Patrick
    et al.
    Linköpings universitet, Institutionen för datavetenskap, IISLAB - Laboratoriet för intelligenta informationssystem.
    Liu, Qiang
    Linköpings universitet, Institutionen för datavetenskap, IISLAB - Laboratoriet för intelligenta informationssystem.
    Tan, He
    Linköpings universitet, Institutionen för datavetenskap, IISLAB - Laboratoriet för intelligenta informationssystem.
    Aligning anatomy ontologies in the Ontology Alignment Evaluation Initiative2009In: The Swedish AI Society Workshop, May 27-28, 2009, IDA, Linköping University: conference proceedings / [ed] Fredrik Heintz, Jonas Kvarnström, 2009, p. 13-20Conference paper (Refereed)
  • 9.
    Lambrix, Patrick
    et al.
    (Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Liu, Qiang
    (Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    (Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Repairing the missing is-a structure of ontologies2009In: The semantic web: Fourth Asian Conference, ASWC 2009, Shanghai, China, December 6-9, 2009 : Proceedings / [ed] Asunción Gómez-Pérez, Yong Yu, Ying Ding, 2009, p. 76-90Conference paper (Refereed)
    Abstract [en]

    Developing ontologies is not an easy task and often the resulting ontologies are not consistent or complete. Such ontologies, although often useful, also lead to problems when used insemantically-enabled applications. Wrong conclusions may be derived or valid conclusions may be missed. To deal with this problem we may want to repair the ontologies. Up to date most work has been performed on finding and repairing the semantic defects such as unsatisfiable concepts and inconsistent ontologies. In this paper we tackle the problem of repairing modeling defects and in particular, the repairing of structural relations (is-a hierarchy) in the ontologies. We study the case where missing is-arelations are given. We define the notion of a structural repair and develop algorithms to compute repairing actions that would allow deriving the missing is-a relations in the repaired ontology. Further, we define preferences between repairs. We also look at how we can use external knowledge to recommend repairing actions to a domain expert. Further, we discuss an implemented prototype and its use as well as an experiment using the ontologies of the Anatomy track of the Ontology Alignment Evaluation Initiative.

  • 10.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Liu, Qiang
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    RepOSE: an environment for repairing missing ontological structure2009In: The semantic web: fourth Asian Conference, ASWC 2009, Shanghai, China, December 6-9, 2009 : proceedings / [ed] A. Gómez-Pérez, Y. Yu, Y. Ding, 2009, p. 365-366Conference paper (Refereed)
  • 11.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Strömbäck, Lena
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Information integration in bioinformatics with ontologies and standards2009In: Semantic Techniques for the Web: The REWERSE perspective, Berlin: Springer, 2009, p. 343-376Chapter in book (Other academic)
    Abstract [en]

    New experimental methods allow researchers within molecular and systems biology to rapidly generate larger and larger amounts of data. This data is often made publicly available on the Internet and although this data is extremely useful, we are not using its full capacity. One important reason is that we still lack good ways to connect or integrate information from different resources. One kind of resource is the over 1000 data sources freely available on the Web. As most data sources are developed and maintained independently, they are highly heterogeneous. Information is also updated frequently. Other kinds of resources that are not so well-known or commonly used yet are the ontologies and the standards. Ontologies aim to define a common terminology for a domain of interest. Standards provide a way to exchange data between data sources and tools, even if the internal representations of the data in the resources and tools are different. In this chapter we argue that ontological knowledge and standards should be used for integration of data. We describe properties of the different types of data sources, ontological knowledge and standards that are available on the Web and discuss how this knowledge can be used to support integrated access to multiple biological data sources. Further, we present an integration approach that combines the identified ontological knowledge and standards with traditional information integration techniques. Current integration approaches only cover parts of the suggested approach. We also discuss the components in the model on which much recent work has been done in more detail: ontology-based data source integration, ontology alignment and integration using standards. Although many of our discussions in this chapter are general we exemplify mainly using work done within the REWERSE working group on Adding Semantics to the Bioinformatics Web.

  • 12.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    A Framework for Aligning Ontologies2005In: Principles and Practice of Semantic Web Reasoning: Third International Workshop, PPSWR 2005, Dagstuhl Castle, Germany, September 11-16, 2005 : Proceedings / [ed] François Fages, Sylvain Soliman, 2005, p. 17-31Conference paper (Refereed)
    Abstract [en]

    Ontologies are an important technology for the Semantic Web. In different areas ontologies have already been developed and many of these ontologies contain overlapping information. Often we would therefore want to be able to use multiple ontologies and thus the ontologies need to be aligned. Currently, there exist a number of systems that support users in aligning ontologies, but not many comparative evaluations have been performed. In this paper we present a general framework for aligning ontologies where different alignment strategies can be combined. Further, we exemplify the use of the framework by describing a system (SAMBO) that is developed according to this framework. Within this system we have implemented some already existing alignment algorithms as well as some new algorithms. We also show how the framework can be used to experiment with combinations of strategies. This is a first step towards defining a framework that can be used for comparative evaluations of alignment strategies. For our tests we used several well-known bio-ontologies.

  • 13.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    A semi-automatic tool for merging bio-ontologies2004Conference paper (Refereed)
  • 14.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    A Semi-Automatic Tool for Merging Bio-Ontologies2004Conference paper (Other academic)
  • 15.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    A semi-automatic tool for merging bio-ontologies2003Conference paper (Refereed)
  • 16.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    A Tool for Evaluating Ontology Alignment Strategies2007In: Journal on Data Semantics, ISSN 1861-2032, Vol. VIII, p. 182-202Article in journal (Refereed)
    Abstract [en]

    Ontologies are an important technology for the Semantic Web. In different areas ontologies have already been developed and many of these ontologies contain overlapping information. Often we would therefore want to be able to use multiple ontologies. To obtain good results, we need to find the relationships between terms in the different ontologies, i.e. we need to align them. Currently, there exist a number of systems that support users in aligning ontologies, but not many comparative evaluations have been performed and there exists little support to perform such evaluations. However, the study of the properties, the evaluation and comparison of the alignment strategies and their combinations, would give us valuable insight in how the strategies could be used in the best way. In this paper we propose the KitAMO framework for comparative evaluation of ontology alignment strategies and their combinations and present our current implementation. We evaluate the implementation with respect to performance. We also illustrate how the system can be used to evaluate and compare alignment strategies and their combinations in terms of performance and quality of the proposed alignments. Further, we show how the results can be analyzed to obtain deeper insights into the properties of the strategies.

  • 17.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Aligning Biomedical Ontologies2007Conference paper (Other academic)
  • 18.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Merging DAML+OIL Ontologies2005In: Databases and Information Systems (Selected Papers from the Sixth International Baltic Conference DB&IS'2004), Amsterdam: IOS Press, 2005, p. 249-258Chapter in book (Other academic)
    Abstract [en]

    Ontologies arebeing used nowadays in many areas. Within eacharea there are a number of ontologies, each with their own focus,that containoverlapping information. In applications using multiple ontologiesit istherefore of interest to be able to merge these ontologies. In thispaper wedescribe a prototype implementation of SAMBO, an ontology mergetool forDAML+OIL ontologies. The tool generates suggestions for mergingconceptsand relations and for creating is-a relationships between concepts.Weevaluate different strategies for the generation of suggestions. Wealsocompare our tool with the ontology merge tools Protégé-2000 withPROMPTand Chimaera in terms of the quality of suggestions and the time ittakes tomerge ontologies using these tools.

  • 19.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Merging DAML+OIL Ontologies2004In: Proceedings of the Sixth International Baltic Conference on Databases and Information Systems, 2004, p. 425-435Conference paper (Refereed)
  • 20.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Ontology alignment and merging2008In: Anatomy Ontologies for Bioinformatics: Principles and Practice, Springer, 2008, p. 133-150Chapter in book (Other academic)
    Abstract [en]

    In recent years many biomedical ontologies, including anatomy ontologies, have been developed. Many of these ontologies contain overlapping information and often we would want to be able to use multiple ontologies. This requires finding the relationships between terms in the different ontologies, i.e. we need to align them. Sometimes we also want to merge ontologies into a new one. In this chapter we give an overview of current ontology alignment and merging systems. We focus on systems that compute similarities between terms in the different ontologies. We present a general framework for these kind of systems and discuss the existing strategies. We also present such a system (SAMBO) and discuss its use using anatomy ontologies. Further, we take a first step in dealing with the problem of using the best alignment algorithms for the ontologies we want to align. We present and illustrate the use of a framework and a tool (KitAMO) for comparative evaluation of ontology alignment strategies and their combinations.

  • 21.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    SAMBO - A System for Aligning and Merging Biomedical Ontologies2006In: Journal of Web Semantics, ISSN 1570-8268, E-ISSN 1873-7749, Vol. 4, no 3, p. 196-206Article in journal (Refereed)
    Abstract [en]

    Due to the recent explosion of the amount of on-line accessible biomedical data and tools, finding and retrieving the relevant information is not an easy task. The vision of a Semantic Web for life sciences alleviates these difficulties. A key technology for the Semantic Web is ontologies. In recent years many biomedical ontologies have been developed and many of these ontologies contain overlapping information. To be able to use multiple ontologies they have to be aligned or merged. In this paper we propose a framework for aligning and merging ontologies. Further, we developed a system for aligning and merging biomedical ontologies (SAMBO) based on this framework. The framework is also a first step towards a general framework that can be used for comparative evaluations of alignment strategies and their combinations. In this paper we evaluated different strategies and their combinations in terms of quality and processing time and compared SAMBO with two other systems.

  • 22.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Jakoniené, Vaida
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Strömbäck, Lena
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Biological Ontologies2007In: Semantic Web: Revolutionizing Knowledge Discovery in the Life Sciences, Berlin: Springer, 2007, p. 85-99Chapter in book (Other academic)
    Abstract [en]

    Biological ontologies define the basic terms and relations in biological domains and are being used among others, as community reference, as the basis for interoperability between systems, and for search, integration, and exchange of biological data. In this chapter we present examples of biological ontologies and ontology-based knowledge, show how biological ontologies are used and discuss some important issues in ontology engineering.

  • 23.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Liu, Qiang
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    SAMBO and SAMBOdtf results for the Ontology Alignment Evaluation Initiative 20082008In: Proceedings of the 3rd International Workshop on Ontology Matching (OM-2008), 2008, p. 190-198Conference paper (Refereed)
    Abstract [en]

    This article describes a base system for ontology alignment, SAMBO, and an extension, SAMBOdtf. We present their results for the benchmark, anatomy and FAO tasks in the 2008 Ontology Alignment Evaluation Initiative. For the benchmark and FAO tasks SAMBO uses a strategy based on string matching as well as the use of a thesaurus. It obtains good results in many cases. For the anatomy task SAMBO uses a combination of string matching and the use of domain knowledge. This combination performed well in former evaluations using other anatomy ontologies. SAMBOdtf uses the same strategies but, in addition, uses an advanced filtering technique that augments recall while maintaining a high precision.

  • 24.
    Lambrix, Patrick
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Xu, Wei
    Literature-based alignment of ontologies2008In: Proceedings of the 3rd International Workshop on Ontology Matching (OM-2008), 2008, p. 219-223Conference paper (Refereed)
    Abstract [en]

    In this paper we propose and evaluate new strategies for aligning ontologies based on text categorization of literature using support vector machines-based text classifiers, and compare them with existing literature-based strategies. We also compare and combine these strategies with linguistic strategies.

  • 25.
    Resmini, Andrea
    et al.
    Jönköping University, Jönköping International Business School, JIBS, Informatics.
    Tan, He
    Jönköping University, School of Engineering, JTH. Research area Computer Science and Informatics. Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Tarasov, Vladimir
    Jönköping University, School of Engineering, JTH. Research area Computer Science and Informatics. Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Adlemo, Anders
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics. Jönköping University, School of Engineering, JTH. Research area Computer Science and Informatics.
    #ViewFromTheOffice - Reconceptualizing the Workplace as an Information-based Ecosystem2016In: Proceedings of the 6th STS Conference on Socio-technical Ecosystems, 2016Conference paper (Refereed)
  • 26.
    Strömbäck, Lena
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Jakoniené, Vaida
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Lambrix, Patrick
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Representing, storing and accessing molecular interaction data: a review of models and tools2006In: Briefings in Bioinformatics, ISSN 1467-5463, E-ISSN 1477-4054, Vol. 7, no 4, p. 331-338Article in journal (Refereed)
    Abstract [en]

    One important aim within systems biology is to integrate disparate pieces of information, leading to discovery of higher-level knowledge about important functionality within living organisms. This makes standards for representation of data and technology for exchange and integration of data important key points for development within the area. In this article, we focus on the recent developments within the field. We compare the recent updates to the three standard representations for exchange of data SBML, PSI MI and BioPAX. In addition, we give an overview of available tools for these three standards and a discussion on how these developments support possibilities for data exchange and integration.

  • 27.
    Tan, He
    Jönköping University, School of Engineering, JTH. Research area Information Engineering. Jönköping University, School of Engineering, JTH, Computer and Electrical Engineering. Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    A Method for Building FrameNet-like Corpus for the Biomedical Domain2014In: Proceedings of the 5th International Workshop on Health Text Mining and Information Analysis (Louhi) / [ed] Martin Duneld, Association for Computational Linguistics, 2014, p. 46-53Conference paper (Refereed)
    Abstract [en]

    Semantic Role Labeling (SRL) plays an important role in different text mining tasks. The development of SRL systems for the biomedical area is frustrated by the lack of large-scale domain specific corpora that are annotated with semantic roles. In our previous work, we proposed a method for building FramenNet-like corpus for the area using domain knowledge provided by ontologies. In this paper, we present a framework for supporting the method and the system which we developed based on the framework. In the system we have developed the algorithms for selecting appropriate concepts to be translated into semantic frames, for capturing the information that describes frames from ontology terms, and for collecting example sentence using ontological knowledge.

  • 28.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    A study on the relation between linguistics-oriented and domain-specific semantics2010In: Proceedings of the 3rd International Workshop on Semantic Web Applications and Tools for the Life Sciences, 2010Conference paper (Refereed)
  • 29.
    Tan, He
    Linköpings universitet, Institutionen för datavetenskap, IISLAB - Laboratoriet för intelligenta informationssystem.
    Aligning and Merging Biomedical Ontologies2006Licentiate thesis, comprehensive summary (Other academic)
    Abstract [en]

    Due to the explosion of the amount of biomedical data, knowledge and tools that are often publicly available over the Web, a number of difficulties are experienced by biomedical researchers. For instance, it is difficult to find, retrieve and integrate information that is relevant to their research tasks. Ontologies and the vision of a Semantic Web for life sciences alleviate these difficulties. In recent years many biomedical ontologies have been developed and many of these ontologies contain overlapping information. To be able to use multiple ontologies they have to be aligned or merged. A number of systems have been developed for aligning and merging ontologies and various alignment strategies are used in these systems. However, there are no general methods to support building such tools, and there exist very few evaluations of these strategies. In this thesis we give an overview of the existing systems. We propose a general framework for aligning and merging ontologies. Most existing systems can be seen as instantiations of this framework. Further, we develop SAMBO (System for Aligning and Merging Biomedical Ontologies) according to this framework. We implement different alignment strategies and their combinations, and evaluate them in terms of quality and processing time within SAMBO. We also compare SAMBO with two other systems. The work in this thesis is a first step towards a general framework that can be used for comparative evaluations of alignment strategies and their combinations.

  • 30.
    Tan, He
    Linköpings universitet, Institutionen för datavetenskap, IISLAB - Laboratoriet för intelligenta informationssystem.
    Aligning Biomedical Ontologies2007Doctoral thesis, comprehensive summary (Other academic)
    Abstract [en]

    The amount of biomedical information that is disseminated over the Web increases every day. This rich resource is used to find solutions to challenges across the life sciences. The Semantic Web for life sciences shows promise for effectively and efficiently locating, integrating, querying and inferring related information that is needed in daily biomedical research. One of the key technologies in the Semantic Web is ontologies, which furnish the semantics of the Semantic Web. A large number of biomedical ontologies have been developed. Many of these ontologies contain overlapping information, but it is unlikely that eventually there will be one single set of standard ontologies to which everyone will conform. Therefore, applications often need to deal with multiple overlapping ontologies, but the heterogeneity of ontologies hampers interoperability between different ontologies. Aligning ontologies, i.e. identifying relationships between different ontologies, aims to overcome this problem. A number of ontology alignment systems have been developed. In these systems various techniques and ideas have been proposed to facilitate identification of alignments between ontologies. However, there still is a range of issues to be addressed when we have alignment problems at hand. The work in this thesis contributes to three different aspects of identification of high quality alignments: 1) Ontology alignment strategies and systems. We surveyed the existing ontology alignment systems, and proposed a general ontology alignment framework. Most existing systems can be seen as instantiations of the framework. Also, we developed a system for aligning biomedical ontologies (SAMBO) according to this framework. We implemented various alignment strategies in the system. 2) Evaluation of ontology alignment strategies. We developed and implemented the KitAMO framework for comparative evaluation of different alignment strategies, and we evaluated different alignment strategies using the implementation. 3) Recommending optimal alignment strategies for different applications. We proposed a method for making recommendations.

  • 31.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Knowledge-based gene symbol disambiguation2008In: Proceedings of the 2nd international workshop on Data and text mining in bioinformatics, 2008, p. 73-76Conference paper (Refereed)
    Abstract [en]

    Since there is no standard naming convention for genes and gene products, gene symbol disambiguation (GSD) has become a big challenge when mining biomedical literature. Several GSD methods have been proposed based on MEDLINE references to genes. However, nowadays gene databases, e.g. Entrez Gene, provide plenty of information about genes, and many biomedical ontologies, e.g. UMLS Metathesaurus and Semantic Network, have been developed. These knowledge sources could be used for disambiguation, in this paper we propose a method which relies on information about gene candidates from gene databases, contexts of gene symbols and biomedical ontologies. We implement our method, and evaluate the performance of the implementation using BioCreAtIvE II data sets.

  • 32.
    Tan, He
    Jönköping University, School of Engineering, JTH, Computer and Electrical Engineering.
    Semantic Role Labeling for Biological Event2012In: Advances in Secure and Networked Information Systems - The ADIT Perspective: Festschrift in honor of professor Nahid Shahmehri / [ed] Patrick Lambrix, Linköping: Linköping University Electronic Press, 2012, p. 165-174Chapter in book (Other academic)
    Abstract [en]

    In this chapter, we present that ontologies, as a formal representation of domain knowledge, can instruct us and ease all the tasks in building domain corpus annotated with semantic roles. We have built such a corpus for biological transport events using Gene Ontology. Then we report on a word-chunking approach for identifying semantic roles of biomedical predicates describing transport events. The results show that the system performance varies between different roles and the performance was not improved for all roles by introducing domain specific features

  • 33.
    Tan, He
    et al.
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Adlemo, Anders
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics.
    Tarasov, Vladimir
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Johansson, Mats E.
    Saab AB, Jönköping, Sweden.
    Evaluation of an Application Ontology2017In: The Joint Ontology Workshops / [ed] Stefano Borgo, Oliver Kutz, Frank Loebe, Fabian Neuhaus, Kemo Adrian, Mihailo Antović, Valerio Basile, Martin Boeker, Diego Calvanese, Tommaso Caselli, Giorgio Colombo, Roberto Confalonieri, Laura Daniele, Jérôme Euzenat, Antony Galton, Dagmar Gromann, Maria M. Hedblom, Heinrich Herre, Inge Hinterwaldner, Andrea Janes, Ludger Jansen, Kris Krois, Antonio Lieto, Claudio Masolo, Rafael Peñaloza, Daniele Porello, Daniele P. Radicioni, Emilio M. Sanfilippo, Daniel Schober, Rossella Stufano, Amanda Vizedom, CEUR-WS , 2017, Vol. 2050Conference paper (Refereed)
    Abstract [en]

    The work presented in this paper demonstrates an evaluation procedure for a real-life application ontology, coming from the avionics domain. The focus of the evaluation has specifically been on three ontology quality features, namely usability, correctness and applicability. In the paper, the properties of the three features are explained in the context of the application domain, the methods and tools used for the evaluation of the features are presented, and the evaluation results are presented and discussed. The results indicate that the three quality features are significant in the evaluation of our application ontology, that the proposed methods and tools allow for the evaluation of the three quality features and that the inherent quality of the application ontology can be confirmed.

  • 34.
    Tan, He
    et al.
    Jönköping University, School of Engineering, JTH. Research area Information Engineering. Jönköping University, School of Engineering, JTH, Computer and Electrical Engineering. Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Barakat, George
    Jönköping University, School of Engineering, JTH, Computer and Electrical Engineering.
    Tarasov, Vladimir
    Jönköping University, School of Engineering, JTH, Computer and Electrical Engineering. Jönköping University, School of Engineering, JTH. Research area Information Engineering. Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Translating XML Models into OWL Ontologies for Interoperability of Simulation Systems2015In: Proceedings of the 3rd Workshop on Ontologies and Information Systems (WOIS 2015), Tartu, Estonia, August 26, 2015 / [ed] Raimundas Matulevičius, Fabrizio Maria Maggi and Peep Küngas, 2015, p. 116-123Conference paper (Refereed)
    Abstract [en]

    Today XML is a common format supporting interoperabilityand information exchange between systems in the modeling and simulationeld. Although XML enables systems to agree on a common syntaxand understand the exchanged information, systems can misinterpretthem due to their dierent conceptualizations of the domain of interest.In this paper, we present a framework for automatic translation ofXML simulation models which follow the High Level Architecture (HLA) object model template specication, into OWL ontologies. In OWL ontologiesthe semantics of information is formally dened. It provides thebasis for interoperability and information exchange between simulationsystems on semantic level.

  • 35.
    Tan, He
    et al.
    Jönköping University, School of Engineering, JTH. Research area Information Engineering. Jönköping University, School of Engineering, JTH, Computer and Electrical Engineering.
    Chowdari, Srikanth
    Linköping University, Department of Biomedical Engineering.
    Semantic Role Labeling for Biological Transport2012Conference paper (Refereed)
  • 36.
    Tan, He
    et al.
    Jönköping University, School of Engineering, JTH. Research area Computer Science and Informatics. Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Ismail, Muhammad
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics. Jönköping University, School of Engineering, JTH. Research area Computer Science and Informatics.
    Tarasov, Vladimir
    Jönköping University, School of Engineering, JTH. Research area Computer Science and Informatics. Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Adlemo, Anders
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics. Jönköping University, School of Engineering, JTH. Research area Computer Science and Informatics.
    Johansson, Mats
    Saab Avionics Systems, Jönköping.
    Development and evaluation of a software requirements ontology2016In: SKY 2016 - 7th International Workshop on Software Knowledge, Proceedings - In conjuction with IC3K 2016 / [ed] Iaakov Exman, Juan Llorens and Anabel Fraga, SciTePress, 2016, p. 11-18Conference paper (Refereed)
    Abstract [en]

    This paper presents an ontology which has been developed to represent the requirements of a software component pertaining to an embedded system in the avionics industry. The ontology was built based on the software requirements documents and was used to support advanced methods in the subsequent stages of the software development process. In this paper it is described theprocess that was used to build the ontology. Two pertinent quality measures that were applied to the ontology, i.e. usability and applicability, are also described, as well as the methods used to evaluate the quality measures and the result of these evaluations.

  • 37.
    Tan, He
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Jakoniené, Vaida
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Lambrix, Patrick
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Åberg, Johan
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Shahmehri, Nahid
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Alignment of Biomedical Ontologies using Life Science Literature2006In: Knowledge Discovery in Life Science Literature: PAKDD 2006 International Workshop, KDLL 2006, Singapore, April 9, 2006, Proceedings, 2006, p. 1-17Conference paper (Refereed)
    Abstract [en]

    In recent years many biomedical ontologies have been developed and many of these ontologies contain overlapping information. To be able to use multiple ontologies they have to be aligned. In this paper we propose strategies for aligning ontologies based on life science literature. We propose a basic algorithm as well as extensions that take the structure of the ontologies into account. We evaluate the strategies and compare them with strategies implemented in the alignment system SAMBO. We also evaluate the combination of the proposed strategies and the SAMBO strategies.

  • 38.
    Tan, He
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Kaliyaperumal, Rajaram
    Linköping University, Department of Biomedical Engineering.
    Benis, Nirupama
    Linköping University, Department of Biomedical Engineering.
    Building frame-based corpus on the basis of ontological domain knowledge2011In: BioNLP 2011: Proceedings of the Workshop, 2011, p. 74-82Conference paper (Refereed)
    Abstract [en]

    Semantic Role Labeling (SRL) plays a key role in many NLP applications. The development of SRL systems for the biomedical domain is frustrated by the lack of large domain-specific corpora that are labeled with semantic roles. Corpus development has been very expensive and time-consuming. In this paper we propose a method for building frame-based corpus on the basis of domain knowledge provided by ontologies. We believe that ontologies, as a structured and semantic representation of domain knowledge, can instruct and ease the tasks in building the corpora. In the paper we present a corpus built by using the method. We compared it to BioFrameNet, and examined the gaps between the semantic classification of the target words in the domain-specific corpus and in FrameNet and Prop-Bank/VerbNet.

  • 39. Tan, He
    et al.
    Kaliyaperumal, Rajaram
    Benis, Nirupama
    Ontology-driven Construction of Corpus with Frame Semantics Annotations2011Conference paper (Other academic)
  • 40.
    Tan, He
    et al.
    Linköping University, Department of Computer and Information Science.
    Kaliyaperumal, Rajaram
    Linköping University, Department of Biomedical Engineering.
    Benis, Nirupama
    Linköping University, Department of Biomedical Engineering.
    Ontology-driven Construction of Corpus with Frame Semantics Annotations2012In: Computational Linguistics and Intelligent Text Processing13th International Conference, CICLing 2012, New Delhi, India, March 11-17, 2012, Proceedings, Part I / [ed] A. Gelbukh, Springer, 2012, p. 54-65Conference paper (Refereed)
    Abstract [en]

    Semantic Role Labeling plays a key role in many text mining applications. The development of SRL systems for the biomedical domain is frustrated by the lack of large domain specific corpora that are labeled with semantic roles. In this paper we proposed a method for building corpus that are labeled with semantic roles for the domain of biomedicine. The method is based on the theory of frame semantics, and uses domain knowledge provided by ontologies. By using the method, we have built a corpus for transport events strictly following the domain knowledge provided by GO biological process ontology. We compared one of our frames to a BioFrameNet frame. We also examined the gaps between the semantic classification of the target words in this domain-specific corpus and in FrameNet and PropBank/VerbNet data. The successful corpus construction demonstrates that ontologies, as a formal representation of domain knowledge, can instruct us and ease all the tasks in building this kind of corpus. Furthermore, ontological domain knowledge leads to well-defined semantics exposed on the corpus, which will be very valuable in text mining applications.

  • 41.
    Tan, He
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Lambrix, Patrick
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    A method for recommending ontology alignment strategies2007In: The semantic web: 6th International Semantic Web Conference, 2nd Asian Semantic Web Conference, ISWC 2007 + ASWC 2007, Busan, Korea, November 11-15, 2007, Proceedings / [ed] Karl Aberer, Key-Sun Choi, Natasha Noy Dean Allemang, Kyung-Il Lee, Lyndon Nixon Jennifer Golbeck, Peter Mika, Diana Maynard Riichiro Mizoguchi, Guus Schreiber Philippe Cudré-Mauroux, 2007, p. 494-507Conference paper (Refereed)
    Abstract [en]

    In different areas ontologies have been developed and many of these ontologies contain overlapping information. Often we would therefore want to be able to use multiple ontologies. To obtain good results, we need to find the relationships between terms in the different ontologies, i.e. we need to align them. Currently, there already exist a number of different alignment strategies. However, it is usually difficult for a user that needs to align two ontologies to decide which of the different available strategies are the most suitable. In this paper we propose a method that provides recommendations on alignment strategies for a given alignment problem. The method is based on the evaluation of the different available alignment strategies on several small selected pieces from the ontologies, and uses the evaluation results to provide recommendations. In the paper we give the basic steps of the method, and then illustrate and discuss the method in the setting of an alignment problem with two well-known biomedical ontologies. We also experiment with different implementations of the steps in the method.

  • 42.
    Tan, He
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Lambrix, Patrick
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Aligning and merging biomedical ontologies2006Conference paper (Other academic)
  • 43.
    Tan, He
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Lambrix, Patrick
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    SAMBO results for the Ontology Alignment Evaluation Initiative 20072007In: Ontology Matching (OM-2007): papers from the ISWC + ASWC Workshop, 2007, p. 236-243Conference paper (Refereed)
    Abstract [en]

    This article describes a system for ontology alignment, SAMBO, and presents its results for the benchmark and anatomy tasks in the 2007 Ontology Alignment Evaluation Initiative. For the benchmark task we have used a strategy based on string matching as well as the use of a thesaurus, and obtained good results in many cases. For the anatomy task we have used a combination of string matching and the use of domain knowledge. This combination performed well in former evaluations using other anatomy ontologies.

  • 44.
    Tan, He
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Lambrix, Patrick
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Selecting an ontology for biomedical text mining2009In: Proceedings of the Workshop on BioNLP, 2009, p. 55-62Conference paper (Refereed)
    Abstract [en]

    Text mining for biomedicine requires a significant amount of domain knowledge. Much of this information is contained in biomedical ontologies. Developers of text mining applications often look for appropriate ontologies that can be integrated into their systems, rather than develop new ontologies from scratch. However, there is often a lack of documentation of the qualities of the ontologies. A number of methodologies for evaluating ontologies have been developed, but it is difficult for users by using these methods to select an ontology. In this paper, we propose a framework for selecting the most appropriate ontology for a particular text mining application. The framework comprises three components, each of which considers different aspects of requirements of text mining applicationson ontologies. We also present an experiment based on the framework choosing an ontology for a gene normalization system.

  • 45.
    Tan, He
    et al.
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Lambrix, Patrick
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Selecting an ontology for biomedical text mining2009Conference paper (Refereed)
  • 46.
    Tan, He
    et al.
    Jönköping University, School of Engineering, JTH. Research area Information Engineering. Jönköping University, School of Engineering, JTH, Computer and Electrical Engineering. Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Resmini, Andrea
    Jönköping University, Jönköping International Business School, JIBS, Informatics.
    Tarasov, Vladimir
    Jönköping University, School of Engineering, JTH, Computer and Electrical Engineering. Jönköping University, School of Engineering, JTH. Research area Information Engineering. Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Adlemo, Anders
    Jönköping University, School of Engineering, JTH, Computer and Electrical Engineering. Jönköping University, School of Engineering, JTH. Research area Information Engineering.
    Workplace innovation in Swedish local organizations - technology aspect: BIS 2015 International Workshops, Poznań, Poland, June 24-26, 2015, Revised Papers2015In: Business Information Systems Workshops / [ed] Witold Abramowicz, 2015, Vol. 228, p. 139-147Conference paper (Refereed)
    Abstract [en]

    Workplace innovation (WI) is important to provide betterwork opportunities and increase productivity. WI at the individual tasklevel concerns the structure of individual work tasks. A number of surveyshave been done that measured WI at the individual task level, howeverthey paid little attention to work environment, in particular to supportivetechnology. This paper presents the case study of WI in two Swedishorganisations with focus on the alignment of ICT and the individual worktasks. We carried out seven interviews of workers at dierent levels ofjob and in dierent sectors. The qualitative data analysis identied fourthemes: business processes, working roles, data sources, and technology.The analysis was facilitated by constructing BPMN (Business ProcessModel Notation) diagrams for the identied business processes. We discoveredthat the supportive technology in the organisations is adequatebut downright traditional. We argue that technology is an important factorand enabler for WI. Finally, we present an architectural model thatprovides a direction for future work on WI taking ICT as the basis.

  • 47.
    Tan, He
    et al.
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Tarasov, Vladimir
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Adlemo, Anders
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics.
    Lessons Learned from an Application of Ontologies in Software Testing2019In: CEUR Workshop Proceedings / [ed] Adrien Barton, Selja Seppälä, Daniele Porello, et.al., CEUR-WS , 2019, Vol. 2518Conference paper (Refereed)
    Abstract [en]

    Testing of a software system is a resource-consuming activity that requires high-level expert knowledge. In previous work we proposed an ontologybased approach to alleviate this problem. In this paper we discuss the lessons learned from the implementation and application of the approach in a use case from the avionic industry. The lessons are related to the areas of ontology development, ontology evaluation, the OWL language and rule-based reasoning.

  • 48.
    Tan, He
    et al.
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Tarasov, Vladimir
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Jarfors, Anders E.W.
    Jönköping University, School of Engineering, JTH, Materials and Manufacturing.
    Seifeddine, Salem
    Jönköping University, School of Engineering, JTH, Materials and Manufacturing.
    Fuzzy Logic Based Modelling of Cast Component Properties2019In: IFAC-PapersOnLine, E-ISSN 2405-8963, Vol. 52, no 13, p. 1132-1137Article in journal (Refereed)
    Abstract [en]

    Digitalization of manufacturing requires building models to represent accumulated data and knowledge on the products and processes. The use of formal knowledge models allows for increase of the automation level leading to more sustainable manufacturing. Casting is important for different industries because it offers a great freedom of designing for weight reduction. This paper presents an approach to modelling of cast component properties that is based on fuzzy logic. The approach includes learning of the fuzzy inference rules from the data. The constructed fuzzy logic models can be used to tune the manufacturing process to produces cast components with desired properties. The evaluation of the results demonstrates that the accuracy of the two created models are 3.58% and 3.15% respectively with the learned fuzzy inference rules being identical to the manually created ones. The presented approach can help to automate the management of cast component manufacturing. 

  • 49.
    Tarasov, Vladimir
    et al.
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Tan, He
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Adlemo, Anders
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics.
    Automation of software testing process using ontologies2019In: Proceedings of the 11th International Joint Conference on Knowledge Discovery, Knowledge Engineering and Knowledge Management - Volume 2: KEOD / [ed] J. Dietz, D. Aveiro & J. Filipe, SciTePress, 2019, p. 57-66Conference paper (Refereed)
    Abstract [en]

    Testing of a software system is a resource-consuming activity that requires high-level expert knowledge. Methods based on knowledge representation and reasoning can alleviate this problem. This paper presents an approach to enhance the automation of the testing process using ontologies and inference rules. The approach takes software requirements specifications written in structured text documents as input and produces the output, i.e. test scripts. The approach makes use of ontologies to deal with the knowledge embodied in requirements specifications and to represent the desired structure of test cases, as well as makes use of a set of inference rules to represent strategies for deriving test cases. The implementation of the approach, in the context of an industrial case, proves the validity of the overall approach.

  • 50.
    Tarasov, Vladimir
    et al.
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Tan, He
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics, JTH, Jönköping AI Lab (JAIL).
    Adlemo, Anders
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics.
    Ismail, Muhammad
    Jönköping University, School of Engineering, JTH, Computer Science and Informatics.
    Mats, Johansson
    Saab AB, Avisonics.
    Olsson, Daniel
    AddQ AB.
    Ontology-based Software Test Case Generation (OSTAG)2015In: European Projects in Knowledge Applications and Intelligent Systems - Volume 1: EPS Lisbon 2016 / [ed] R. J. Machado, J. Sequeira,H. Plácido da Silva, & J. Filipe, SciTePress, 2015, p. 135-159Conference paper (Refereed)
    Abstract [en]

    Testing is a paramount quality assurance activity in every software developmentproject, especially for embedded, safety critical systems. During thetest process, a lot of effort is put into the generation of test cases. The presentedOSTAG project aimed at developing methods and techniques to automate thesoftware test case generation for black-box testing. The proposed approach wasbased on the creation of a software requirements ontology and the applicationof inference rules on the ontology to derive test cases. The ontology representsknowledge of the requirements, the software system and the corresponding applicationdomain while the inference rules formalize knowledge from documentsand experienced testers in the domain of test planning and test case generation.A software prototype of the approach was implemented and one of the industrialproject partners evaluated the results. An alternative method for generating testcases, based on genetic algorithms, was also explored.

12 1 - 50 of 53
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