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  • 1.
    Adlemo, Anders
    et al.
    Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik. Jönköping University / School of Engineering.
    Tan, He
    Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik, JTH, Jönköping AI Lab (JAIL).
    Tarasov, Vladimir
    Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik, JTH, Jönköping AI Lab (JAIL).
    Test case quality as perceived in Sweden2018Ingår i: Proceedings - International Conference on Software Engineering / [ed] Michael Unterkalmsteiner, ACM Digital Library, 2018, s. 9-12Konferensbidrag (Refereegranskat)
    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 cases2005Rapport (Övrigt vetenskapligt)
    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 prototypes2007Rapport (Övrigt vetenskapligt)
  • 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 sources2005Rapport (Övrigt vetenskapligt)
    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 Alignment2006Ingår i: Proceedings of the 15th IEEE WETICE Workshop on Semantic Technologies in Collaborative Applications, 2006, s. 364-369Konferensbidrag (Refereegranskat)
    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.
    Kebede, Rahel Zeleke
    et al.
    Jönköping University, Tekniska Högskolan, JTH, Byggnadsteknik och belysningsvetenskap.
    Moscati, Annika
    Jönköping University, Tekniska Högskolan, JTH, Byggnadsteknik och belysningsvetenskap.
    Tan, He
    Jönköping University, Tekniska Högskolan, JTH, Avdelningen för datavetenskap, Jönköping AI Lab (JAIL).
    Johansson, Peter
    Jönköping University, Tekniska Högskolan, JTH, Byggnadsteknik och belysningsvetenskap.
    A modular ontology modeling approach to developing digital product passports to promote circular economy in the built environment2024Ingår i: Sustainable Production and Consumption, ISSN 2352-5509, Vol. 48, s. 248-268Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    The significant impact of the built environment on resource consumption and waste production has led to calls for a shift towards a circular economy model that maximizes the efficient use of resources. This study explores the use of digital product passports (DPPs) to improve how we manage products throughout their lifecycle. However, dealing with the complexity and large volume of data in DPPs can be challenging in terms of effective information management and utilization. We address this issue by adopting a modular ontological approach to systematically capture product lifecycle information from its origin to its end-of-life phase. To ensure interoperability and reusability of the ontology, we annotate key concepts and relationships using International Organization for Standardization (ISO) standards that promote circular economy. Our research led to the development of several ontology modules derived from literature reviews and interviews conducted with industry and academia experts who specialize in sustainability. These modules were then integrated to create a digital product passport ontology. The study demonstrates the feasibility of using a modular ontology approach to manage the complex information inherent in DPPs paving the way for more sustainable management practices in the built environment sector. 

  • 7.
    Kebede, Rahel Zeleke
    et al.
    Jönköping University, Tekniska Högskolan, JTH, Byggnadsteknik och belysningsvetenskap.
    Moscati, Annika
    Jönköping University, Tekniska Högskolan, JTH, Byggnadsteknik och belysningsvetenskap.
    Tan, He
    Jönköping University, Tekniska Högskolan, JTH, Avdelningen för datavetenskap, Jönköping AI Lab (JAIL).
    Johansson, Peter
    Jönköping University, Tekniska Högskolan, JTH, Byggnadsteknik och belysningsvetenskap.
    Circular economy in the built environment: a framework for implementing digital product passports with knowledge graphs2023Ingår i: Proceedings of the 2023 European Conference on Computing in Construction and the 40th International CIB W78 Conference, European Council on Computing in Construction , 2023Konferensbidrag (Refereegranskat)
    Abstract [en]

    The built environment is heavily dependent on wasteful linear economic models and needs to transition to the circular economy (CE). One of the key enablers of CE is Digital Product Passports (DPPs). However, determining the necessary information and selecting suitable technologies remains to be challenging in practical implementations. This research aims to present a framework for implementing DPPs using Knowledge Graphs (KGs). A literature review was conducted to identify the key components of the framework. The result shows that the key elements encompass use cases identification, data collection, modelling, integration, governance, access and querying, and maintenance and updating.

  • 8.
    Kebede, Rahel Zeleke
    et al.
    Jönköping University, Tekniska Högskolan, JTH, Byggnadsteknik och belysningsvetenskap.
    Moscati, Annika
    Jönköping University, Tekniska Högskolan, JTH, Byggnadsteknik och belysningsvetenskap.
    Tan, He
    Jönköping University, Tekniska Högskolan, JTH, Avdelningen för datavetenskap, Jönköping AI Lab (JAIL).
    Johansson, Peter
    Jönköping University, Tekniska Högskolan, JTH, Byggnadsteknik och belysningsvetenskap.
    Integration of manufacturers' product data in BIM platforms using semantic web technologies2022Ingår i: Automation in Construction, ISSN 0926-5805, E-ISSN 1872-7891, Vol. 144, artikel-id 104630Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    As building information modeling (BIM) gains popularity in the architecture, engineering, and construction (AEC) industry, manufacturers are required to distribute their product specifications in digital product models. Currently, manufacturers mainly employ proprietary formats, such as BIM objects supplemented by PDF documents to represent their product data descriptions. However, these formats do not support flexible automated product search and data integration. This paperdescribes the use of Semantic Web technologies in combination with BIM-based visual programming language (VPL) to automatically integrate product data from external databases. To facilitate data integration, we introduced a method to semantically represent product data linked with the CEN/TS 17623:2021 standard using ontologies in web ontology language (OWL). The study has focused on the use case of a manufacturer of lighting products. Results show that building designers are able to execute a more efficient product search that satisfies their query requirements and returns suitable products of their choice from the manufacturer's database based on their requests. This approach eliminates the time-consuming and error-prone process of manually entering product data into BIM software.

  • 9.
    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-ontologies2003Ingår i: Proceedings of the 2003 International Workshop on Description Logics (DL2003), Rome, Italy, September 5-7, 2003 / [ed] Diego Calvanese, Giuseppe De Giacomo, Enrico Franconi, 2003Konferensbidrag (Refereegranskat)
    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

  • 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.
    A system for repairing missing is-a structure in ontologies2009Ingår i: 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, 2009Konferensbidrag (Refereegranskat)
    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.

  • 11.
    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 Initiative2009Ingår i: The Swedish AI Society Workshop, May 27-28, 2009, IDA, Linköping University: conference proceedings / [ed] Fredrik Heintz, Jonas Kvarnström, 2009, s. 13-20Konferensbidrag (Refereegranskat)
  • 12.
    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 ontologies2009Ingår i: The semantic web: Fourth Asian Conference, ASWC 2009, Shanghai, China, December 6-9, 2009 : Proceedings / [ed] Asunción Gómez-Pérez, Yong Yu, Ying Ding, 2009, s. 76-90Konferensbidrag (Refereegranskat)
    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.

  • 13.
    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 structure2009Ingår i: The semantic web: fourth Asian Conference, ASWC 2009, Shanghai, China, December 6-9, 2009 : proceedings / [ed] A. Gómez-Pérez, Y. Yu, Y. Ding, 2009, s. 365-366Konferensbidrag (Refereegranskat)
  • 14.
    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 standards2009Ingår i: Semantic Techniques for the Web: The REWERSE perspective, Berlin: Springer, 2009, s. 343-376Kapitel i bok, del av antologi (Övrigt vetenskapligt)
    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.

  • 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 Framework for Aligning Ontologies2005Ingår i: 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, s. 17-31Konferensbidrag (Refereegranskat)
    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.

  • 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 semi-automatic tool for merging bio-ontologies2004Konferensbidrag (Refereegranskat)
  • 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.
    A Semi-Automatic Tool for Merging Bio-Ontologies2004Konferensbidrag (Övrigt vetenskapligt)
  • 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.
    A semi-automatic tool for merging bio-ontologies2003Konferensbidrag (Refereegranskat)
  • 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.
    A Tool for Evaluating Ontology Alignment Strategies2007Ingår i: Journal on Data Semantics, ISSN 1861-2032, Vol. VIII, s. 182-202Artikel i tidskrift (Refereegranskat)
    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.

  • 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.
    Aligning Biomedical Ontologies2007Konferensbidrag (Övrigt vetenskapligt)
  • 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.
    Merging DAML+OIL Ontologies2005Ingår i: Databases and Information Systems (Selected Papers from the Sixth International Baltic Conference DB&IS'2004), Amsterdam: IOS Press, 2005, s. 249-258Kapitel i bok, del av antologi (Övrigt vetenskapligt)
    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.

  • 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.
    Merging DAML+OIL Ontologies2004Ingår i: Proceedings of the Sixth International Baltic Conference on Databases and Information Systems, 2004, s. 425-435Konferensbidrag (Refereegranskat)
  • 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.
    Ontology alignment and merging2008Ingår i: Anatomy Ontologies for Bioinformatics: Principles and Practice, Springer, 2008, s. 133-150Kapitel i bok, del av antologi (Övrigt vetenskapligt)
    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.

  • 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.
    SAMBO - A System for Aligning and Merging Biomedical Ontologies2006Ingår i: Journal of Web Semantics, ISSN 1570-8268, E-ISSN 1873-7749, Vol. 4, nr 3, s. 196-206Artikel i tidskrift (Refereegranskat)
    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.

  • 25.
    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 Ontologies2007Ingår i: Semantic Web: Revolutionizing Knowledge Discovery in the Life Sciences, Berlin: Springer, 2007, s. 85-99Kapitel i bok, del av antologi (Övrigt vetenskapligt)
    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.

  • 26.
    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 20082008Ingår i: Proceedings of the 3rd International Workshop on Ontology Matching (OM-2008), 2008, s. 190-198Konferensbidrag (Refereegranskat)
    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.

  • 27.
    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 ontologies2008Ingår i: Proceedings of the 3rd International Workshop on Ontology Matching (OM-2008), 2008, s. 219-223Konferensbidrag (Refereegranskat)
    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.

  • 28.
    Li, Ziyu
    et al.
    Jönköping University, Tekniska Högskolan, JTH, Material och tillverkning. Comptech i Skillingaryd AB, P.O. Box 28, Skillingaryd, 568 31, Sweden.
    Tan, He
    Jönköping University, Tekniska Högskolan, JTH, Avdelningen för datavetenskap, Jönköping AI Lab (JAIL).
    Jarfors, Anders E.W.
    Jönköping University, Tekniska Högskolan, JTH, Material och tillverkning.
    Jansson, P.
    Comptech i Skillingaryd AB, P.O. Box 28, Skillingaryd, 568 31, Sweden.
    Lattanzi, Lucia
    Jönköping University, Tekniska Högskolan, JTH, Material och tillverkning.
    Smart-Cast: An AI-Based System for Semisolid Casting Process Control2024Ingår i: Procedia Computer Science, E-ISSN 1877-0509, Vol. 232, s. 2440-2447Artikel i tidskrift (Refereegranskat)
    Abstract [en]

    To satisfy the rising demand for higher product quality and giga-casting requirements, the casting process is undergoing significant changes. However, current control methods rely significantly on human expertise and experience, making process availability and stability difficult to ensure. The semisolid casting process is more complicated than conventional liquid casting due to the additional casting parameters incorporated during the slurry preparation, which can have an effect on the quality of the final product. Therefore, an efficient tool is required to simplify the complete process of semisolid casting. The introduction of an AI system to aid in the supervision of the casting manufacturing procedure is one potential solution. This paper introduces a new casting system named”Smart-Cast” developed for this specific purpose. The paper describes the functions of the system and its current development process. Using an AI system as an assistant can help to achieve the goal of enhancing the efficacy of casting process control, and it can also help foundries step into the Industry 4.0 era.

  • 29.
    Li, Ziyu
    et al.
    Jönköping University, Tekniska Högskolan, JTH, Material och tillverkning. COMPtech AB i skillingaryd.
    Tan, He
    Jönköping University, Tekniska Högskolan, JTH, Avdelningen för datavetenskap, Jönköping AI Lab (JAIL).
    Jarfors, Anders E.W.
    Jönköping University, Tekniska Högskolan, JTH, Material och tillverkning.
    Lattanzi, Lucia
    Jönköping University, Tekniska Högskolan, JTH, Material och tillverkning.
    Jansson, Per
    COMPtech AB i skillingaryd.
    Enhancing Rheocasting Process Control with AI-based Systems2023Konferensbidrag (Refereegranskat)
    Abstract [en]

    Semisolid casting has emerged as an attractivealternative to conventional casting methods due to its potentialto yield superior mechanical properties, reduce environmentalpollution, and decrease production costs. However, optimizingprocess parameters and controlling the casting process remainschallenging. Process control largely relies on human expertise,associated with significant time and cost expenditures. Inresponse, this study presents a third-circle research project toinvestigate the correlation between the casting process and thesolidification process. The study proposes leveraging AI technologyto digitize the entire process control, thereby increasing thereliability and stability of cast products’ quality. The researchwill focus on understanding the key factors influencing thecasting process and developing an AI-based decision supportsystem to aid in process parameter selection and optimization.The outcomes of this study are expected to contribute to thedevelopment of more reliable and efficient semisolid castingprocesses.

  • 30.
    Li, Ziyu
    et al.
    Jönköping University, Tekniska Högskolan, JTH, Material och tillverkning.
    Tan, He
    Jönköping University, Tekniska Högskolan, JTH, Avdelningen för datavetenskap, Jönköping AI Lab (JAIL).
    Lattanzi, Lucia
    Jönköping University, Tekniska Högskolan, JTH, Material och tillverkning.
    Jarfors, Anders E.W.
    Jönköping University, Tekniska Högskolan, JTH, Material och tillverkning.
    Jansson, P.
    Comptech i Skillingaryd AB, P.O. Box 28, Skillingaryd, 568 31, Sweden.
    On the Possibility of Replacing Scheil-Gulliver Modeling with Machine Learning and Neural Network Models2023Ingår i: Solid State Phenomena / [ed] A. Pola, M. Tocci and A. Rassili, Trans Tech Publications, 2023, Vol. 347, s. 157-163Kapitel i bok, del av antologi (Refereegranskat)
    Abstract [en]

    Resource-efficient manufacturing is a foundation for sustainable and circular manufacturing. Semi-solid processing typically reduces material loss and improves productivity but generally requires a better understanding and control of the solidification of the cast material. Thermal analysis is commonly used in high-pressure die casting (HPDC) processes to determine casting process parameters, such as liquidus and solidus temperatures. However, this method is inadequate for semi-solid casting processes because the eutectic temperature is also a crucial parameter for successful semi-solid casting. This study explores the feasibility of using machine learning and artificial neural networks to predict fundamental values in Al-Si alloy casting. The Thermo-Calc 2022 software Scheil-Gulliver calculation function was used to generate the training and the test datasets, which included features such as melting temperature, alpha aluminium solidification temperature, eutectic temperature, and the solid fraction amounts at eutectic temperature. The results show that both models have a symmetric mean absolute percentage error (SMAPE) of less than 2 % with temperature prediction, with the machine learning model achieving a better accuracy of less than 1 %. A case study comparing practical measurements with prediction results is also discussed, demonstrating the potential of AI methods for predicting semi-solid casting processes.

  • 31.
    Li, Ziyu
    et al.
    Jönköping University, Tekniska Högskolan, JTH, Material och tillverkning.
    Tan, He
    Jönköping University, Tekniska Högskolan, JTH, Avdelningen för datavetenskap, Jönköping AI Lab (JAIL).
    Lattanzi, Lucia
    Jönköping University, Tekniska Högskolan, JTH, Material och tillverkning.
    Jarfors, Anders E.W.
    Jönköping University, Tekniska Högskolan, JTH, Material och tillverkning.
    Jansson, P.
    On the possibility of replacing Scheil-Gulliver modelling with machine learning and neural network models2023Konferensbidrag (Refereegranskat)
  • 32.
    Resmini, Andrea
    et al.
    Högskolan i Jönköping, Internationella Handelshögskolan, IHH, Informatik.
    Tan, He
    Högskolan i Jönköping, Tekniska Högskolan, JTH. Forskningsmiljö Datavetenskap och informatik. Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik, JTH, Jönköping AI Lab (JAIL).
    Tarasov, Vladimir
    Högskolan i Jönköping, Tekniska Högskolan, JTH. Forskningsmiljö Datavetenskap och informatik. Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik, JTH, Jönköping AI Lab (JAIL).
    Adlemo, Anders
    Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik. Högskolan i Jönköping, Tekniska Högskolan, JTH. Forskningsmiljö Datavetenskap och informatik.
    #ViewFromTheOffice - Reconceptualizing the Workplace as an Information-based Ecosystem2016Ingår i: Proceedings of the 6th STS Conference on Socio-technical Ecosystems, 2016Konferensbidrag (Refereegranskat)
  • 33.
    Sales, Tiago Prince
    et al.
    University of Twente, Faculty of Electrical Engineering, Mathematics and Computer Science, Enschede, The Netherlands.
    Hedblom, Maria M.Jönköping University, Tekniska Högskolan, JTH, Avdelningen för datavetenskap, Jönköping AI Lab (JAIL).Tan, HeJönköping University, Tekniska Högskolan, JTH, Avdelningen för datavetenskap, Jönköping AI Lab (JAIL).
    Proceedings of the Joint Ontology Workshops 2022, Episode VIII: The Svear Sommar of Ontology2022Proceedings (redaktörskap) (Refereegranskat)
  • 34.
    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 tools2006Ingår i: Briefings in Bioinformatics, ISSN 1467-5463, E-ISSN 1477-4054, Vol. 7, nr 4, s. 331-338Artikel i tidskrift (Refereegranskat)
    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.

  • 35.
    Tan, He
    Högskolan i Jönköping, Tekniska Högskolan, JTH. Forskningsmiljö Informationsteknik. Högskolan i Jönköping, Tekniska Högskolan, JTH, Data- och elektroteknik. Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik, JTH, Jönköping AI Lab (JAIL).
    A Method for Building FrameNet-like Corpus for the Biomedical Domain2014Ingår i: Proceedings of the 5th International Workshop on Health Text Mining and Information Analysis (Louhi) / [ed] Martin Duneld, Association for Computational Linguistics, 2014, s. 46-53Konferensbidrag (Refereegranskat)
    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.

  • 36.
    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 semantics2010Ingår i: Proceedings of the 3rd International Workshop on Semantic Web Applications and Tools for the Life Sciences, 2010Konferensbidrag (Refereegranskat)
  • 37.
    Tan, He
    Linköpings universitet, Institutionen för datavetenskap, IISLAB - Laboratoriet för intelligenta informationssystem.
    Aligning and Merging Biomedical Ontologies2006Licentiatavhandling, sammanläggning (Övrigt vetenskapligt)
    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.

  • 38.
    Tan, He
    Linköpings universitet, Institutionen för datavetenskap, IISLAB - Laboratoriet för intelligenta informationssystem.
    Aligning Biomedical Ontologies2007Doktorsavhandling, sammanläggning (Övrigt vetenskapligt)
    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.

  • 39.
    Tan, He
    Linköping University, Department of Computer and Information Science, IISLAB - Laboratory for Intelligent Information Systems.
    Knowledge-based gene symbol disambiguation2008Ingår i: Proceedings of the 2nd international workshop on Data and text mining in bioinformatics, 2008, s. 73-76Konferensbidrag (Refereegranskat)
    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.

  • 40.
    Tan, He
    Högskolan i Jönköping, Tekniska Högskolan, JTH, Data- och elektroteknik.
    Semantic Role Labeling for Biological Event2012Ingår i: 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, s. 165-174Kapitel i bok, del av antologi (Övrigt vetenskapligt)
    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

  • 41.
    Tan, He
    et al.
    Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik, JTH, Jönköping AI Lab (JAIL).
    Adlemo, Anders
    Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik.
    Tarasov, Vladimir
    Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik, JTH, Jönköping AI Lab (JAIL).
    Johansson, Mats E.
    Saab AB, Jönköping, Sweden.
    Evaluation of an Application Ontology2017Ingår i: 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. 2050Konferensbidrag (Refereegranskat)
    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.

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  • 42.
    Tan, He
    et al.
    Högskolan i Jönköping, Tekniska Högskolan, JTH. Forskningsmiljö Informationsteknik. Högskolan i Jönköping, Tekniska Högskolan, JTH, Data- och elektroteknik. Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik, JTH, Jönköping AI Lab (JAIL).
    Barakat, George
    Högskolan i Jönköping, Tekniska Högskolan, JTH, Data- och elektroteknik.
    Tarasov, Vladimir
    Högskolan i Jönköping, Tekniska Högskolan, JTH, Data- och elektroteknik. Högskolan i Jönköping, Tekniska Högskolan, JTH. Forskningsmiljö Informationsteknik. Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik, JTH, Jönköping AI Lab (JAIL).
    Translating XML Models into OWL Ontologies for Interoperability of Simulation Systems2015Ingår i: 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, s. 116-123Konferensbidrag (Refereegranskat)
    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.

  • 43.
    Tan, He
    et al.
    Högskolan i Jönköping, Tekniska Högskolan, JTH. Forskningsmiljö Informationsteknik. Högskolan i Jönköping, Tekniska Högskolan, JTH, Data- och elektroteknik.
    Chowdari, Srikanth
    Linköping University, Department of Biomedical Engineering.
    Semantic Role Labeling for Biological Transport2012Konferensbidrag (Refereegranskat)
  • 44.
    Tan, He
    et al.
    Högskolan i Jönköping, Tekniska Högskolan, JTH. Forskningsmiljö Datavetenskap och informatik. Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik, JTH, Jönköping AI Lab (JAIL).
    Ismail, Muhammad
    Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik. Högskolan i Jönköping, Tekniska Högskolan, JTH. Forskningsmiljö Datavetenskap och informatik.
    Tarasov, Vladimir
    Högskolan i Jönköping, Tekniska Högskolan, JTH. Forskningsmiljö Datavetenskap och informatik. Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik, JTH, Jönköping AI Lab (JAIL).
    Adlemo, Anders
    Högskolan i Jönköping, Tekniska Högskolan, JTH, Datateknik och informatik. Högskolan i Jönköping, Tekniska Högskolan, JTH. Forskningsmiljö Datavetenskap och informatik.
    Johansson, Mats
    Saab Avionics Systems, Jönköping.
    Development and evaluation of a software requirements ontology2016Ingår i: SKY 2016 - 7th International Workshop on Software Knowledge, Proceedings - In conjuction with IC3K 2016 / [ed] Iaakov Exman, Juan Llorens and Anabel Fraga, SciTePress, 2016, s. 11-18Konferensbidrag (Refereegranskat)
    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.

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  • 45.
    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 Literature2006Ingår i: Knowledge Discovery in Life Science Literature: PAKDD 2006 International Workshop, KDLL 2006, Singapore, April 9, 2006, Proceedings, 2006, s. 1-17Konferensbidrag (Refereegranskat)
    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.

  • 46.
    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 knowledge2011Ingår i: BioNLP 2011: Proceedings of the Workshop, 2011, s. 74-82Konferensbidrag (Refereegranskat)
    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.

  • 47. Tan, He
    et al.
    Kaliyaperumal, Rajaram
    Benis, Nirupama
    Ontology-driven Construction of Corpus with Frame Semantics Annotations2011Konferensbidrag (Övrigt vetenskapligt)
  • 48.
    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 Annotations2012Ingår i: 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, s. 54-65Konferensbidrag (Refereegranskat)
    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.

  • 49.
    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 strategies2007Ingår i: 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, s. 494-507Konferensbidrag (Refereegranskat)
    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.

  • 50.
    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 ontologies2006Konferensbidrag (Övrigt vetenskapligt)
12 1 - 50 av 63
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