Publications

• J. Wermter, K. Tomanek, U. Hahn
  High-Performance Gene Name Normalization with GENO In: Bioinformatics 2009
  doi: 10.1093/bioinformatics/btp071
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• J. Wermter, U. Hahn, R. Landefeld, M. Poprat, D.S. DeLuca, R. Blasczyk, P.A. Horn
  StemNet: Knowledge Finder for Stem Cell Researchers. In: Proceedings of the 2nd International Congress on Stem Cells and Tissue Formation. Dresden, Germany; July 6-9, 2008.
• U. Hahn, E. Beisswanger, E. Buyko, M. Poprat, K. Tomanek & J. Wermter
  Semantic annotations for biology - a corpus development initiative at Jena University Language & Information Engineering (JULIE) Lab.
  In: Proceedings of the 6th International Conference on Language Resources and Evaluation (LREC 2008), Marrakech, Morocco, May 2008.
• U. Hahn, E. Buyko, R. Landefeld, M. Mühlhausen, M. Poprat, K. Tomanek & J. Wermter
  The JULIE Lab UIMA Component Repository - An Overview and Experience Report.
  In: Proceedings of the 1th International UIMA for NLP Workshop in Association with the 6th International Conference on Language Resources and Evaluation (LREC 2008), Marrakech, Morocco, May 2008.
• E. Buyko & U. Hahn
  Fully Embedded Type Systems for the Semantic Annotation Layer.
  In: ICGL 2008 -- Proceedings of the 1st International Conference on Global Interoperability for Language Resources. Hong Kong, SAR, January 9-11, 2008. City University of Hong Kong, 2008, pp.26-33.
• U. Hahn, J. Wermter, R. Blasczyk & P.A. Horn
  Text mining: powering the database revolution.
  In: Nature, 448(7150), 2007, p.130
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• E. Beisswanger, D.S. DeLuca, R. Blasczyk & U. Hahn
  An Ontology for Major Histocompatibility Complex (MHC) Alleles and Molecules.
  Proceedings of the AMIA 2007 Annual Symposium, Chicago, IL, USA, Nov. 10-14, 2007.
• P.A. Horn, U. Hahn, J. Wermter, D.S. DeLuca, A. Bajwa & Blasczyk, R.
  StemNet: An evolving service for knowledge networking for stem cell research. Experimental Hematology, 2007, 35, p.93.
• A. Schneider, M. Poprat & U. Hahn
  Erst fragen, dann konzipieren - Eine Studie über das Suchverhalten medizinischer Experten im Bereich der hämatopoietischen Stammzelltransplantation und deren Einfluss auf die Planung eines neuen, spezialisierten Information-Retrieval-Systems.
  In: GMDS 2007 - Tagungsband der 52. Jahrestagung der Deutschen Gesellschaft für Medizinische Informatik, Biometrie und Epidemiologie, 2007
• U. Hahn, J. Wermter, D.S. DeLuca, R. Blasczyk, M. Poprat, A. Bajwa & P.A. Horn
  Stemnet - An Evolving Service for Knowledge Networking in the Life Sciences.
  In: GES 2007 - Proceedings of the German e-Science Conference. Baden-Baden, Germany, May 2-4, 2007
  Click here to view article
• K. Tomanek, J. Wermter & U. Hahn
  Sentence and Token Splitting Based on Conditional Random Fields.
  In: PACLING 2007 - Proceedings of the 8th Conference of the Pacific Association for Computational Linguistics. Melbourne, Australia, September 19-21, 2007
• M. Poprat & U. Hahn
  Data on Referring Expressions in Biomedical Abstracts
  In: BioNLP @ ACL 2007 - Proceedings of the Workshop on Biological, Translational, and Clinical Language Processing. Prague, Czech Republic, June 29, 2007. Stroudsburg/PA: Association for Computational Liguistics, 2007, pp.193-194.
• K. Tomanek, J. Wermter & U. Hahn
  An Approach to Text Corpus Construction which Cuts Annotation Costs and Maintains Reusability of Annotated Data.
  In: EMNLP-CoNLL 2007 - Proceedings of the Conference on Empirical Methods in Natural Language Processing and Conference on Computational Natural Language Learning, Joint Meeting Following ACL 2007. Prague, Czech Republic, June 28-30, 2007.
• K. Tomanek, J. Wermter & U. Hahn
  Efficient Annotation with the Jena Annotation Environment (JANE).
  In: The LAW @ ACL 2007 -- Proceedings of the Linguistic Annotation Workshop. Prague, Czech Republic, June 28-29, 2007. Stroudsburg/PA: Association for Computational Liguistics, 2007, pp.9-16.
• U. Hahn, E. Buyko, K. Tomanek, S. Piao, J. McNaught, Y. Tsuruoka & S. Ananiadou
  An Annotation Type System for a Data-Driven NLP Pipeline.
  In: LAW 2007 - Proceedings of the Linguistic Annotation Workshop - a Merger of NLPXML (Natural Language Processing and XML) 2007 and FLAC 2007 (Frontiers in Linguistically Annotated Corpora), in Association with ACL 2007. Prague, Czech Republic, June 28-29, 2007
• S. Schulz, E. Beisswanger, J. Wermter & U. Hahn
  Towards an Upper-Level Ontology for Molecular Biology.
  In: AMIA 2006 - Proceedings of the 2006 Annual Symposium of the American Medical Informatics Association. Biomedical and Health Informatics: From Foundations to Applications to Policy. Washington, D.C., USA, November 11-15, 2006. Ed. By D. W. Bates, J. H. Holmes & G. Kuperman. Philadelphia/PA: Hanley & Belfus, 2006, pp.694-698.
• E. Buyko, J. Wermter, M. Poprat & U. Hahn
  Automatically Adapting an NLP Core Engine to the Biology Domain.
  In: Proceedings of the Joint BioLINK-Bio-Ontologies Meeting. A Joint Meeting of the ISMB Special Interest Group on Bio-Ontologies and the BioLINK Special Interest Group on Text Data Mining in Association with ISMB. Fortaleza, Brasil, August 5, 2006, pp.65-68.