Wermter, J. ; K. Tomanek, U. Hahn (2009). High-Performance Gene Name Normalization with GENO . In: Bioinformatics 2009. doi: 10.1093/bioinformatics/btp071
Wermter, J ; Hahn, U; Landefeld, R; Poprat, M; DeLuca, DS; Blasczyk, R; Horn, PA (2008). StemNet: Knowledge Finder for Stem Cell Researchers . Proceedings of the 2nd International Congress on Stem Cells and Tissue Formation. Dresden, Germany; July 6-9, 2008.
Hahn, U.; Buyko, E.; Landefeld, R.; Mühlhausen, M.; Poprat, M.; Tomanek , K. and Wermter, J . An overview of JCoRe, the JULIE Lab UIMA component repository. In Proceedings of the LREC'08 Workshop `Towards Enhanced Interoperability for Large HLT Systems: UIMA for NLP`, pages 1-7, Marrakech, Morocco, May 2008.
Hahn, U.; Beisswanger, E.; Buyko, E.; Poprat, M.; Tomanek, K. and Wermter, J. . Semantic annotations for biology - a corpus development initiative at the jena university language & information engineering (JULIE) Lab. In Proceedings of the Sixth International Language Resources and Evaluation (LREC'08), May 2008.
Hahn, U.; Wermter, J .; Blasczyk, R.; Horn, P.A. Text Mining: Powering the database revolution . In Nature, 448(7150), 2007, p.130
Hahn, U.; Wermter, J. ; DeLuca, D.S.; Blasczyk, R.; Poprat, M.; Bajwa, A. & Horn, P.A.
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
Horn, P.A.; Hahn, U.; Wermter, J. ; DeLuca, D.S.; Bajwa, A. and Blasczyk, R. (2007) StemNet: An evolving service for knowledge networking for stem cell research, Experimental Hematology , 35, 93-93.
Tomanek, K., Wermter, J. & Hahn, U.
An Approach to Text Corpus Construction which Cuts Annotation Costs and Maintains Reusability of Annotated Data. In EMNLP-CoNLL 2007 - Proceedings of the 2007 Joint Conference on Empirical Methods in Natural Language Processing and Computational Natural Language LearningNatural Language Processing and Computational Natural Language Learning (EMNLP-CoNLL), pages 486-495. Prague, Czech Republic, June 28-30, 2007. Stroudsburg, PA: Association for Computational Linguistics, 2007.
Tomanek, K., Wermter, J . & Hahn, U.
Efficient Annotation with the Jena ANnotation Environment (JANE). In The LAW at ACL 2007 - Proceedings of the Linguistic Annotation Workshop, pages 33-40. Prague, Czech Republic, June 28-29, 2007. Stroudsburg, PA: Association for Computational Linguistics, 2007
Tomanek, K., Wermter, J. & Hahn, U.
A reappraisal of sentence and token splitting for life science documents.
MEDINFO 2007 - Proceedings of the 12th World Congress on Medical Informatics. (to appear)
Hahn, U., Wermter, J. "Levels of Natural Language Processing for Text Mining". In: Ananiadou, S., McNaught, J. (eds.) Text Mining for Biology and Biomedicine. Norwood, MA: Artech House, pp. 13-41, 2006.
Wermter, J. , Hahn, U.
You Can't Beat Frequency Unless You Use Linguistic Knowledge -- A Qualitative Evaluation of Association Measures for Term and Collocation Measures . COLING-ACL 2006. Proceedings of the 21st International Conderence on Computational Linguistics and the 44th Annual of the Association for Computational Linguistics, pp.785-792, 2006.
Schulz, S., Beisswanger, E., Wermter, J. , Hahn, U.
Towards an Upper Ontology for Molecular Biology.
AMIA 2006 - Proceedings of the Annual Symposium of the American Medical Informatics Association, 2006.
Schulz, S., Beisswanger, E., Hahn, U. Wermter, J. , Kumar, A, Stenzhorn, H.
From Genia to BioTop: Towards a Top-Level Ontology for Molecular Biology.
FOIS 2006 - Proceedings of the 4th International Conference on Formal Ontology in Information Systems, 2006, pp.103-114.
Buyko, E.; Wermter, J. ; Poprat M. & Hahn, U.
Automatically Adapting an NLP Core Engine to the Biology Domain
Proceedings of the ISMB 2006 "The Joint Linking Literature, Information and Knowledge for Biology and the 9th Bio-Ontologies Meeting", 2006.
Wermter, J. ; Tomanek, K. & Balzer, F.
Automatische Erkennung und effiziente Annotation von anonymisierungsrelevanten Begriffen in klinischen Freitexten
GMDS 2006 - Tagungsband der 51. Jahrestagung der Deutschen Gesellschaft für Medizinische Informatik, Biometrie und Epidemiologie, 2006, pp.151-152.
Wermter, J. , Hahn, U.
Paradigmatic Modifiability Statistics for the Extraction of Complex Multi-Word Terms.
HLT-EMNLP 2005 - Proceedings of the 5th Human Language Technology Conference and the 2005 Conference on Empirical Methods in Natural Language Processing, 2005, pp.843-850.
Wermter, J. , Hahn, U.
Finding New Terminology in Very Large Corpora.
KCAP 2005 - Proceedings of the 3rd International Conference on Knowledge Capture, 2005.
Wermter, J. , Hahn, U.
Effecrtive Grading of Termhood in Biomedical Literature.
AMIA 2005 - Proceedings of the Annual Symposium of the American Medical Informatics Association, 2005.
Wermter, J. , Hahn, U.
Massive Biomedical Term Discovery.
DS 2005 - Proceedings of the 8th International Conference on Discovery Science, 2005.
Wermter, J. , Hahn, U., Fluck, J.
Noun Phrases and Named Entities in Biomedical Texts -- Does Domain Change Without Retraining Matter?
RANLP 2005 - Proceedings of the International Conference on Recent Advances in Natural Language Processing, 2005.
Wermter, J. , Fluck, J., Stroetgen, J., Geißler, S., Hahn, U.
Recognizing Noun Phrases in Biomedical Text: An Evaluation of Lab Prototypes and Commercial Chunkers.
SMBM 2005 - Proceedings of the 1st International Symposium on Semantic Mining in Biomedicine, 2005, pp.25--33.
Wermter, J. ; Hahn, U.
Ex tracting Multi-Word Terminology from Biomedical Text.
GMDS 2005 - Tagungsband der 50. Jahrestagung der Deutschen Gesellschaft für Medizinische Informatik, Biometrie und Epidemiologie, 2005.
Wermter, J. , Hahn, U.
Collocation Extraction Based on Modifiability Statistics.
COLING 2004 - Proceedings of the 20th International Conderence on Computational Linguistics, 2004, pp.980--986.
Hahn, U; Wermter, J.
High-Performance Tagging on Medical Texts.
COLING 2004 - Proceedings of the 20th International Conderence on Computational Linguistics, 2004, pp.973-979.
Hahn, U.; Markó, K.; Poprat, M.; Schulz, S.; Wermter, J. & Nohama, P.
Crossing languages in text retrieval via an interlingua
RIAO 2004 - Conference Proceedings: Coupling Approaches, Coupling Media and Coupling Languages for Information Retrieval, 2004, pp. 100-115.
Poprat, M.; Hahn, U.; Wermter, J. ; Schulz, S.; Markó, K.
An Experimental Assessment of Direct vs. Interlingual Translation for Cross-Language Information Retrieval . FLAIRS 2004 - Proceedings of the 17th International Florida Artificial Intelligence Research Society Conference, 2004
Hahn, U; Wermter, J.
Tagging Medical Documents with High Accuracy.
PRICAI 2004 - Trends in Artificial Intelligence. Proceedings of the 8th Pacific Rim International Conference on Artificial Intelligence, 2004, pp.852-861.
Wermter, J. ; Hahn, U.
Really, Is Medical Sublanguage That Different? Experimental Counter-Evidence from Tagging Medical and Newspaper Corpora.
MEDINFO 2004 - Proceedings of the 11th World Congress on Medical Informatics.
Markó, K.; Schulz, S.; Wermter, J. ; Poprat, M.; Hahn, U.
Cross-Language Document Retrieval with Morphosaurus
GMDS 2004 - Tagungsband der 49.Jahrestagung der Deutschen Gesellschaft für Medizinische Informatik, Biometrie und Epidemiologie, pp. 184-186, 2004.
Wermter, J. ; Schulz, S.; Hahn, U; Markó, K.; Daumke, P.
Ein sprachanalytisches Verfahren zur Unterstützung von Laien als Anfragesteller beim medizinischen Dokumenten-Retrieval.
GMDS 2003 - Tagungsband der 48.Jahrestagung der Deutschen Gesellschaft für Medizinische Informatik, Biometrie und Epidemiologie, pp. 315-317, 2003.
Daumke, P.; Markó, K.; Schulz, S.; Wermter. J.
Automatische MeSH-Indexierung auf der Basis morphosemantischer Normalisierung.
GMDS 2003 - Tagungsband der 48.Jahrestagung der Deutschen Gesellschaft für Medizinische Informatik, Biometrie und Epidemiologie, pp. 225-228, 2003.
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