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  • 1.
    Bannert, Robert
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Botinis, Antonis
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Hollenstein, Gerd
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Anforderungen an eine Lernumgebung für computergestütztes Fremdsprachenlernen2004Inngår i: Norden und Süden: Festschrift für Kjell-Åke Forsgren zum 65. Geburtstag / [ed] Mareike Jendis, Anita Malmqvist & Ingela Valfridsson, Umeå Universitet , 2004Kapittel i bok, del av antologi (Annet (populærvitenskap, debatt, mm))
  • 2.
    Botinis, Antonis
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Charabalakis, Christoforos
    Department of Linguistics, University of Athens, Greece.
    Fourakis, Marios
    Department of Speech and Hearing Science, The Ohio State University, Columbus, USA.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Athens 2006 ISCA Workshop on Experimental Linguistics2005Inngår i: Proceedings Fonetik 2005: The XVIIIth Swedish Phonetics Conference May 25–27 2005 / [ed] Anders Eriksson and Jonas Lindh, 2005, s. 131-134Konferansepaper (Annet vitenskapelig)
    Abstract [en]

    This paper refers to the forthcoming ISCA (In-ternational Speech Communication Associa-tion) Workshop “Experimental Linguistics” in Athens, Greece, in 2006. The major objectives of the Workshop are (1) the development of ex-perimental methodologies in linguistic research with new perspectives for the study of lan-guage, (2) the unification of linguistic knowledge in relation to linguistic theory based on ex-perimental evidence, (3) the design of multifac-tor linguistic models and (4) the integration of interdisciplinary expertise in linguistic applica-tions. Key knowledge areas ranging from cog-nition and neurophysiology to perception and psychology are organised in invited lectures as well as in oral and poster presentations along with interdisciplinary panel discussions.

  • 3.
    Dura, Elzbieta
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information. Högskolan i Skövde, Forskningscentrum för Informationsteknologi.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information. Högskolan i Skövde, Forskningscentrum för Informationsteknologi.
    Natural Language Processing in Information Fusion Terminology Management2008Inngår i: Proceedings of the 11th International Conference on Information Fusion, IEEE , 2008, s. 1388-1395Konferansepaper (Fagfellevurdert)
    Abstract [en]

     

    The dynamic development of information fusion research implies introduction of new terms and concepts, which in turn requires tools and methods for terminology organization and standardization, as well as tools for creating domain-specific ontology. In this paper, we show how natural language processing and corpus technology tools applied for term extraction from texts in biomedicine can successfully be used for the field of information fusion. We demonstrate term and information extraction from a corpus of research articles in information fusion, showing how a vision of a combined text retrieval and information extraction service can be made real.

     

  • 4.
    Dura, Elzbieta
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Towards Automatic Translation of Support Verbs Constructions: the Case of Polish 'robić/zrobić' and Swedish 'göra'2005Inngår i: Human language technologies as a challenge for computer science and linguistics: 2nd Language & Technology Conference, April, 21-23, 2005, Poznań, Poland: proceedings / [ed] Zygmunt Vetulani, Poznań: Wydawnictwo Naukowe Uniwersytetu im. Adama Mickiewicza, 2005, s. 450-454Kapittel i bok, del av antologi (Fagfellevurdert)
    Abstract [en]

    Support verb constructions range from idiosyncratic to predictable. Lexical functions provide a solution to translation of idiosyncratic constructions only. Our corpus research aims to contribute to automatic translation of support verb constructions where the verb selects certain semantic groups of collocates, and where novel collocations can be expected. We investigate samples of support verb constructions with Polish robić/zrobić and Swedish göra. Nouns attested on the Internet as objects of these verbs are subdivided into semantic groups. Translation rules are then proposed for each group, and the similarities and differences in the behaviour of the verbs in both languages are discussed.

  • 5. Dura, Elzbieta
    et al.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Olsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Erlendsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Towards Information Fusion in Pathway Evaluation: Encoding Relations in Biomedical Texts2006Inngår i: The 9th International Conference on Information Fusion: Florence, Italy, 10-13 July 2006, IEEE Press, 2006, s. 240-247Konferansepaper (Annet vitenskapelig)
    Abstract [en]

    The long-term goal of the research presented in this paper is to incorporate linguistic text analysis into a system for evaluation of biological pathways. In this system, relations extracted from biomedical texts will be compared with pathways encoded in existing specialized databases. In this way, the biologist's conclusions regarding the plausibility and/or novelty of a certain relation between genes, proteins, etc., can be supported by fused information from biological databases and biological literature. We aim at overcoming the shortcomings of existing systems for information retrieval by proposing a method based on thorough linguistic analysis of a large text corpus. In this paper, we present a comparative analysis of two corpora: one consisting of biomedical texts from PubMed, the other one of general English prose. The results stress the importance of taking multiword entries into account when constructing a system for extracting biological relations from texts

  • 6.
    Dura, Elżbieta
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information. Högskolan i Skövde, Forskningscentrum för Informationsteknologi.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information. Högskolan i Skövde, Forskningscentrum för Informationsteknologi.
    Novelty extraction from special and parallel corpora2009Inngår i: Human Language Technology. Challenges of the Information Society: Third Language and Technology Conference, LTC 2007, Poznan, Poland, October 5-7, 2007, Revised Selected Papers / [ed] Zygmunt Vetulani, Hans Uszkoreit, Springer Berlin/Heidelberg, 2009, s. 291-302Kapittel i bok, del av antologi (Fagfellevurdert)
    Abstract [en]

    How can corpora assist translators in ways in which resources like translation memories or term databases cannot? Our tests on English, Polish and Swedish parts of the JRC-Acquis Multilingual Parallel show that corpora can provide support for term standardization and variation, and, most importantly, for tracing novel expressions. A corpus tool with an explicit dictionary representation is particularly suitable for the last task. Culler is a tool which allows one to select expressions with words absent from its dictionary. Even if the extracted material may be stained with some noise, it has an undeniable value for translators and lexicographers. The quality of extraction depends in a rather obvious way on the dictionary and text processing but also on the query.

  • 7.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Arv och miljö grunden för språkutvecklingen2005Inngår i: Perspektiv på Högskolan i Skövde, ISSN 1653-8242, Vol. 2, nr 2, s. 8-9Artikkel i tidsskrift (Annet (populærvitenskap, debatt, mm))
  • 8.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Information Extraction from Texts: Adapting a System for Summarization of News Reports to the Domain of Bioinformatics2005Inngår i: Transactions on Advanced Research, ISSN 1820-4511, Vol. 1, nr 1, s. 20-28Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    Natural language serves as important information source in all areas of human activity. The presence of a huge amount of texts on the Internet actualizes the problem of efficient information search; visual scanning of all the textual information is difficult and time-consuming. There is a need for efficient, high-quality systems that extract the relevant information from texts. The paper presents the architecture of an experimental system for automatic text understanding and information extraction, which has originally been developed for the domain of news reports. The possibility of adapting the methodology for the purpose of bioinformatics is discussed, and the similarities and differences between texts in the two different domains are discussed and exemplified.

  • 9.
    Gawronska, Barbara
    Högskolan i Skövde.
    Språk och teknologi: en motsägelse eller en möjlighet2005Inngår i: Perspektiv på Högskolan i Skövde, ISSN 1653-8242, Vol. 2, nr 2, s. 10-12Artikkel i tidsskrift (Annet (populærvitenskap, debatt, mm))
  • 10.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Towards In-Depth Understanding of Biomedical Texts2004Inngår i: the International IPSI-2004 Conference: IPSI, 2004Konferansepaper (Annet vitenskapelig)
    Abstract [en]

    An essential part of bioinformatic research concerns the iterative process of validitating hypotheses by analysing facts stored in databases and in published literature. This process can be enhanced by language technology methods, in particular by automatic in-depth text understanding.

    A high-quality system for extracting relevant information from biological texts must include an algorithm for distinguishing between the background and the foreground information in a text, in order not to confuse the previous research referred to and the current research reported in a particular paper.

    Furthermore, text understanding requires a strategy for anaphora recognition. The paper focuses on these two issues in automatic processing of abstracts in the domain of genetics

  • 11.
    Gawronska, Barbara
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Erlendsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Syntactic, Semantic and Referential Patterns in Biomedical Texts: towards in-depth text comprehension for the purpose of bioinformatics2005Inngår i: Natural Language Understanding and Cognitive Science, Proceedings of the 2nd International Workshop on Natural Language Understanding and Cognitive Science, NLUCS 2005, In conjunction with ICEIS 2005, Miami, FL, USA, May 2005 / [ed] Bernadette Sharp, INSTICC Press, 2005, s. 68-77Konferansepaper (Fagfellevurdert)
    Abstract [en]

    An essential part of bioinformatic research concerns the iterative process of validating hypotheses by analyzing facts stored in databases and in published literature. This process can be enhanced by automatic in-depth text understanding. A prerequisite for this is an adequate syntactic and semantic analysis. The paper presents the results of syntactic, semantic, and textual analysis of a corpus of biomedical abstracts. It focuses on the ways in which relevant molecular interactions are referred to in the abstracts, and proposes a strategy for linking natural language expressions to the standard notation used in Kyoto Encyclopedia of Genes and Genomes. The syntactic and semantic regularities observed in the language of biomedicine are also discussed from the cognitive point of view.

  • 12.
    Gawronska, Barbara
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Erlendsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Olsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Tracking biological relations in texts: a Referent Grammar based approach2005Inngår i: Proceedings of the workshop Biomedical Ontologies and Text Processing, in connection to ECCB/05: 4th European Conference on Computational Biology, 2005, s. 15-22Konferansepaper (Fagfellevurdert)
    Abstract [en]

    In this paper, we describe a method for extracting biological relations (in the first place, relations used in the KEGG ontology of biological pathways) from scientific texts. The main assumption is that correct syntactic analysis combined with domain-specific heuristics provides a good basis for relation extraction. We propose an algorithm that searches through the syntactic trees produced by a parser based on a formalism called Referent Grammar (inspired by Categorial Grammar), identifies relations mentioned in the sentence, and classifies them with respect to their semantic class and epistemic status (facts, counterfactuals, hypotheses).

  • 13.
    Gawronska, Barbara
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Nikolayenkova, O
    Erlendsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    A corpus based analysis of English, Swedish, Polish, and Russian prepositions2006Inngår i: ISCA Tutorial and Research Workshop on Experimental Linguistics, 2006, s. 137-140Konferansepaper (Annet vitenskapelig)
    Abstract [en]

    In this study, the use of most frequent spatial prepositions in English, Polish, Swedish, and Russian is analyzed. The prepositions and their contexts are extracted from corpora by means of concordance tools. The collostructional strength between the prepositions and the most frequent nouns in the PPs (Gries et al. 2005) is then computed in order to get a more detailed picture of the contexts in which a given preposition is most likely to appear. The results of the investigation are then analysed within the framework of cognitive semantics, especially Croft and Cruse's (2004) taxonomy of construal operations, and Talmy’s (2005) classification of spatial images

  • 14.
    Gawronska, Barbara
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Olsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    De Vin, Leo
    Högskolan i Skövde, Institutionen för teknik och samhälle.
    Natural Language Technology In Multi-Source Information Fusion2004Inngår i: Proceedings of the International IPSI-2004k Conference, 2004Konferansepaper (Fagfellevurdert)
    Abstract [en]

    Information Fusion encompasses "the theory, techniques and tools conceived for exploiting the synergy in the information acquired from multiple sources" [http://www.inforfusion.org/mission.htm]. The main issue is to improve the quality of decisions utilizing several information sources (databases, sensors, simulations). Research on information fusion has focused on applications like robotics and command and control systems, but the need of information synergy concerns more and more fields. Natural language serves as important information source in all areas of human activity, but the integration of language into fusion systems is far from satisfactory. The paper discusses employing language technology in bioinformatics, and in industrial processes.

  • 15.
    Gawronska, Barbara
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Olsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Erlendsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Towards an Automated Analysis of Biomedical Abstracts2006Inngår i: Data Integration in the Life Sciences: Third International Workshop, DILS 2006, Springer, 2006, s. 50-65Konferansepaper (Annet vitenskapelig)
    Abstract [en]

    An essential part of bioinformatic research concerns the iterative process of validating hypotheses by analyzing facts stored in databases and in published literature. This process can be enhanced by language technology methods, in particular by automatic text understanding. Since it is becoming increasingly difficult to keep up with the vast number of scientific articles being published, there is a need for more easily accessible representations of the current knowledge. The goal of the research described in this paper is to develop a system aimed to support the large-scale research on metabolic and regulatory pathways by extracting relations between biological objects from descriptions found in literature. We present and evaluate the procedures for semantico-syntactic tagging, dividing the text into parts concerning previous research and current research, syntactic parsing, and transformation of syntactic trees into logical representations similar to the pathway graphs utilized in the Kyoto Encyclopaedia of Genes and Genomes.

  • 16.
    Gawronska, Barbara
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Torstensson, Niklas
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Erlendsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Defining and Classifying Space Builders for Information Extraction2004Inngår i: Natural Language Understanding and Cognitive Science: Proceedings of the 1st International Workshop on Natural Language Understanding and Cognitive Science, NLUCS 2004. In conjunction with ICEIS 2004, Porto, Portugal, April 2004, 2004, s. 15-27Konferansepaper (Annet vitenskapelig)
  • 17.
    Gawrońska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information. Högskolan i Skövde, Forskningscentrum för Informationsteknologi.
    Computational Linguistics in Sweden2007Inngår i: Acta Sueco-Polonica, ISSN 1104-3431, Vol. 14, s. 29-40Artikkel i tidsskrift (Fagfellevurdert)
  • 18.
    Hemeren, Paul
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information. Högskolan i Skövde, Forskningscentrum för Informationsteknologi.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information. Högskolan i Skövde, Forskningscentrum för Informationsteknologi.
    Lexicalization of natural actions and cross-linguistic stability2007Inngår i: Communication - Action - Meaning: A Festschrift to Jens Allwood / [ed] Elisabeth Ahlsén, Peter Juel Henrichsen, Richard Hirsch, Joakim Nivre, Åsa Abelin, Sven Strömqvist, Shirley Nicholson, Göteborg: Department of Linguistics, Göteborg University , 2007, s. 57-74Kapittel i bok, del av antologi (Annet vitenskapelig)
  • 19.
    Hemeren, Paul
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information. Högskolan i Skövde, Forskningscentrum för Informationsteknologi.
    Kasviki, Sofia
    Högskolan i Skövde.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Lexicalization of natural actions and cross-linguistic stability2008Inngår i: Proceedings of the 2nd ISCA Workshop on Experimental Linguistics, ExLing 2008, 2008, s. 105-108Konferansepaper (Fagfellevurdert)
    Abstract [en]

    To what extent do Modern Greek, Polish, Swedish and American English similarly lexicalize action concepts, and how similar are the semantic associations between verbs denoting natural actions? Previous results indicate cross-linguistic stability between American English, Swedish, and Polish in verbs denoting basic human body movement, mouth movements, and sound production. The research reported here extends the cross-linguistic comparison to include Greek, which, unlike Polish, American English and Swedish, is a path-language. We used action imagery criteria to obtain lists of verbs from native Greek speakers. The data were analyzed by using multidimensional scaling, and the results were compared to those previously obtained.

  • 20.
    Olsson, Björn
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Erlendsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Deriving pathway maps from automated text analysis: a grammar-based approach2006Inngår i: International Moscow Conference on Computational Molecular Biology 2005 / [ed] Mikhail S. Gelfand, Vsevolod J. Makeev, Mireille Regnier, Imperial College Press, 2006, s. 268-270Konferansepaper (Fagfellevurdert)
  • 21.
    Olsson, Björn
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Erlendsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Deriving pathway maps from automated text analysis using a grammar-based approach2006Inngår i: Journal of Bioinformatics and Computational Biology, ISSN 0219-7200, E-ISSN 1757-6334, Vol. 4, nr 2, s. 483-501Artikkel i tidsskrift (Fagfellevurdert)
    Abstract [en]

    We demonstrate how automated text analysis can be used to support the large-scale analysis of metabolic and regulatory pathways by deriving pathway maps from textual descriptions found in the scientific literature. The main assumption is that correct syntactic analysis combined with domain-specific heuristics provides a good basis for relation extraction. Our method uses an algorithm that searches through the syntactic trees produced by a parser based on a Referent Grammar formalism, identifies relations mentioned in the sentence, and classifies them with respect to their semantic class and epistemic status (facts, counterfactuals, hypotheses). The semantic categories used in the classification are based on the relation set used in KEGG (Kyoto Encyclopedia of Genes and Genomes), so that pathway maps using KEGG notation can be automatically generated. We present the current version of the relation extraction algorithm and an evaluation based on a corpus of abstracts obtained from PubMed. The results indicate that the method is able to combine a reasonable coverage with high accuracy. We found that 61% of all sentences were parsed, and 97% of the parse trees were judged to be correct. The extraction algorithm was tested on a sample of 300 parse trees and was found to produce correct extractions in 90.5% of the cases.

  • 22.
    Olsson, Björn
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Erlendsson, Björn
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Lindlöf, Angelica
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Dura, Elzbieta
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Automated text analysis of biomedical abstracts applied to the extraction of signaling pathways involved in plant cold-adaptation2006Inngår i: Proceedings of the Fifth International Conference on Bioinformatics of Genome Regulation and Structure: Volume 3 / [ed] N. Kolchanov, R. Hofestadt, Russian Academy of Sciences, 2006, s. 296-299Konferansepaper (Annet vitenskapelig)
    Abstract [en]

    Motivation: Automated text analysis is an important tool for facilitating the extraction of knowledge from biomedical abstracts, thereby enabling researchers to build pathway models that integrate and summarize information from a large number of sources. Advanced methods of in-depth analysis of texts using grammar-based approaches developed within the field of computational linguistics must be adapted to the special requirements and challenges posed by biomedical texts, so that these methods can be made available to the bioinformatics and computational biology communities. Results: Our system for automated text analysis and extraction of pathway information is here applied to a set of PubMed abstracts concerning the CBF signaling pathway, which is a key pathway involved in the cold-adaptation response of plants subjected to cold non-freezing temperatures. The system successfully and accurately re-discovers the main features of this pathway, while also pointing to interesting and plausible new hypotheses. The evaluation also reveals a number of issues which will be important targets in the continued development of the system, e.g. the need for an extended lexicon of taxonomic terms and an improved procedure for recognition of sentence boundaries.

  • 23.
    Olsson, Björn
    et al.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Nilsson, Patric
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Gawronska, Barbara
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Persson, Anne
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Ziemke, Tom
    Högskolan i Skövde, Institutionen för kommunikation och information.
    Andler, Sten F.
    Högskolan i Skövde, Institutionen för kommunikation och information.
    An Information Fusion Approach to Controlling Complexity in Bioinformatics Research2005Inngår i: 2005 IEEE Computational Systems Bioinformatics Conference: Workshops & Poster Abstracts: CSB 2005, IEEE Computer Society, 2005, s. 299-304Konferansepaper (Fagfellevurdert)
    Abstract [en]

    Information Fusion (IF) is about combining, or fusing, information from different sources in order to facilitate our understanding of a complex system and thereby provide insights that could not be gained from any of the individual data sources in isolation. We argue in this paper that there is a need for applying an IF approach in bioinformatics research, since the aim of bioinformatics is to understand complex biological systems using many different data sources providing complementary views of the system. We illustrate this argument with two application examples, where IF-based bioinformatics is applied to the study of stem cell differentiation and lipid digestion, respectively. We also discuss the use of automated information extraction from text sources, which is an essential component of a bioinformatics IF approach, given the abundant literature.

  • 24. Way, Andy
    et al.
    Gawronska, BarbaraHögskolan i Skövde, Institutionen för kommunikation och information. Högskolan i Skövde, Forskningscentrum för Informationsteknologi.
    the 11th International Conference on Theoretical and Mathematical Issues in Machine Translation2007Konferanseproceedings (Annet (populærvitenskap, debatt, mm))
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