2009
Schulz, Stefan, Beisswanger, Elena, van den Hoek, Laszlo, Bodenreider, Olivier and van Mulligen, Erik M., Alignment of the UMLS semantic network with BioTop: methodology and assessment, in: Bioinformatics, volume 25, number 12, pages i69-76, 2009.
DeLuca, David S., Beisswanger, Elena, Wermter, Joachim, Horn, Peter A., Hahn, Udo and Blasczyk, Rainer, MaHCO: An Ontology of the Major Histocompatibility Complex for Immunoinformatic Applications and Text Mining, in: Bioinformatics, ISSN 1460-2059, 2009.
2008
Beisswanger, Elena, Poprat, Michael and Hahn, Udo, Lexical Properties of OBO Ontology Class Names and Synonyms , in: Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland, pages 13-20, Turku Centre for Computer Science (TUCS), 2008.
Buyko, Ekaterina, Beisswanger, Elena and Hahn, Udo, Testing Different ACE-Style Feature Sets for the Extraction of Gene Regulation Relations from MEDLINE Abstracts , in: Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland, pages 21-28, Turku Centre for Computer Science (TUCS), 2008
Poprat, Michael, Beisswanger, Elena and Hahn, Udo, Building a BioWordNet Using WordNet Data Structures and WordNet's Software Infrastructure - A Failure Story , in: Proceedings of the ACL 2008 workshop "Software Engineering, Testing, and Quality Assurance for Natural Language Processing"', pages 31-39, Columbus, OH, USA, June 20, 2008, 2008.
Hahn, Udo, Beisswanger, Elena, Buyko, Ekaterina, Poprat, Michael, Tomanek, Katrin and Wermter, Joachim, Semantic Annotations for Biology -- A Corpus Development Initiative at the Jena University Language & Information Engineering (JULIE) Lab , in: LREC'08 -- Proceedings of the Sixth International Language Resources and Evaluation Conference, Marrakech, Morocco, May 28 - 30, 2008, 2008.
Beisswanger, Elena, Lee, Vivian, Kim, Jung Jae, Rebholz-Schuhmann, Dietrich, Splendiani, Andrea, Dameron, Olivier, Schulz, Stefan and Hahn, Udo, Gene Regulation Ontology (GRO): Design Principles and Use Cases , in: MIE 2008 -- Proceedings of the 21st International Congress of the European Federation for Medical Informatics, pages 9-14, Göteborg, Sweden, May 25-28, 2008, 2008.
Beisswanger, Elena, Schulz, Stefan, Stenzhorn, Holger and Hahn, Udo, BioTop: An upper domain ontology for the life sciences. A description of its current structure, contents and interfaces to OBO ontologies, in: Applied Ontology, volume 3, number 4, pages 205-212, 2008.
2007
Stenzhorn, Holger, Beisswanger, Elena and Schulz, Stefan, Towards a top-domain ontology for linking biomedical ontologies , in: MEDINFO'07 -- Proceedings of the 12th Conference on Medical Informatics, pages 1225-1229, Brisbane, Australia, August 20-24, 2007. IOS Press, 2007.
Beisswanger, Elena, DeLuca, David S., Blasczyk, Rainer and Hahn, Udo, An Ontology for Major Histocompatibility Complex (MHC) Alleles and Molecules , in: AMIA'07 -- Proceedings of the Annual Symposium of the American Medical Informatics Association, Chicago, IL, USA, November 10-14, 2007, 2007.
2006
Schulz, Stefan, Beisswanger, Elena, Hahn, Udo, Wermter, Joachim, Kumar, Amand and Stenzhorn, Holger, From Genia to BioTop: towards a top-level ontology for biology , in: FOIS 2006 -- Proceedings of the 4th International Conference on Formal Ontology in Information Systems, pages 103-114, Baltimore, Maryland, USA, November 9-11, 2006. Amsterdam: IOS Press, 2006.
Schulz, Stefan, Beisswanger, Elena, Wermter, Joachim and Hahn, Udo, Towards an Upper-Level Ontology for Molecular Biology , in: AMIA 2006 -- Proceedings of the Annual Symposium of the American Medical Informatics Association, pages 694-698, Washington, D.C., USA, November 11-15, 2006, 2006.
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