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jbjorne edited this page Jul 19, 2012
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- Jari Björne, Sofie Van Landeghem, Sampo Pyysalo, Tomok Ohta, Filip Ginter, Yves Van de Peer, Sofia Ananiadou and Tapio Salakoski, PubMed-Scale Event Extraction for Post-Translational Modifications, Epigenetics and Protein Structural Relations. Proceedings of BioNLP 2012, pages 82-90, 2012. PDF
- Jari Björne, Juho Heimonen, Filip Ginter, Antti Airola, Tapio Pahikkala, Tapio Salakoski, Extracting Contextualized Complex Biological Events with Rich Graph-Based Feature Sets. Computational Intelligence 27, 541--557, 2011.
- Jari Björne, Antti Airola, Tapio Pahikkala, Tapio Salakoski, Drug-Drug Interaction Extraction with RLS and SVM Classifiers. In: Isabel Segura-Bedmar, Paloma Martinez, Daniel Sanchez-Cisneros (Eds.), Proceedings of the First Challenge task on Drug- Drug Interaction Extraction (DDIExtraction 2011), 35-42, CEUR Workshop Proceedings, 2011.
- Jari Björne, Tapio Salakoski, Generalizing Biomedical Event Extraction. In: Proceedings of the BioNLP Shared Task 2011 Workshop, 183--191, Association for Computational Linguistics, 2011.
- Jari Björne, Finter Ginter, Sampo Pyysalo, Jun'ichi Tsujii, Tapio Salakoski, Complex Event Extraction at PubMed Scale . Bioinformatics (ISMB'2010 proceedings volume) 26, 382-390, 2010.
- Jari Björne, Filip Ginter, Sampo Pyysalo, Jun'ichi Tsujii, Tapio Salakoski, Scaling up Biomedical Event Extraction to the Entire PubMed. In: Proceedings of the 2010 Workshop on Biomedical Natural Language Processing, pp. 28-36, 2010.
- Juho Heimonen, Jari Björne, Tapio Salakoski, Reconstruction of Semantic Relationships from Their Projections in Biomolecular Domain. In: Proceedings of the 2010 Workshop on Biomedical Natural Language Processing, 108--116, Association for Computational Linguistics, 2010.
- Jari Björne, Filip Ginter, Juho Heimonen, Sampo Pyysalo, Tapio Salakoski, Learning to Extract Biological Event and Relation Graphs. In: Proceedings of the 17th Nordic Conference of Computational Linguistics NODALIDA 2009, NEALT Proceedings Series Vol. 4 (2009), 18-25, Northern European Association for Language Technology (NEALT), 2009.
- Jari Björne, Juho Heimonen, Filip Ginter, Antti Airola, Tapio Pahikkala, Tapio Salakoski, Extracting Complex Biological Events with Rich Graph-Based Feature Sets. In: Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, 10-18, Association for Computational Linguistics (ACL), 2009.
- Jari Björne, Sampo Pyysalo, Filip Ginter, Tapio Salakoski, How Complex are Complex Protein-protein Interactions?. In: Proceedings of SMBM 2008, 2008.