Publications of Pyysalo, S. sorted by first author
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Anatomical Entity Mention Recognition at Literature Scale (2014), in: Bioinformatics, 30:6(868-875) | and ,
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Distributional Semantics Resources for Biomedical Text Processing, in: Proceedings of LBM 2013, pages 39-44, 2013 | , , , and ,
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Overview of the Cancer Genetics (CG) task of BioNLP Shared Task 2013, in: Proceedings of the BioNLP Shared Task 2013 Workshop, Sofia, Bulgaria, pages 58-66, Association for Computational Linguistics, 2013 | , and ,
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Anatomical Entity Recognition with Open Biomedical Ontologies, in: Proceedings of the Fourth International Symposium on Languages in Biology and Medicine (LBM 2011), 2011 | , and ,
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Towards Event Extraction from Full Texts on Infectious Diseases, in: Proceedings of BioNLP 2010, ACL., pages 132--140, 2010 | , , , , , , and ,
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Static Relations: a Piece in the Biomedical Information Extraction Puzzle, in: Proceedings of BioNLP 2009 Workshop, pages 1--9, 2009 | , , and ,
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Event extraction across multiple levels of biological organization (2012), in: Bioinformatics, 28:18(i575-i581) | , , , , and ,
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Towards Exhaustive Event Extraction for Protein Modifications, in: Proceedings of the BioNLP 2011 Workshop, pages 114--123, Association for Computational Linguistics, 2011 | , , and ,
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Overview of the Cancer Genetics and Pathway Curation tasks of BioNLP Shared Task 2013 (2015), in: BMC BioInformatics, 16(Suppl 10):Suppl 10(S2) | , , , , , , , and ,
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Overview of the ID, EPI and REL tasks of BioNLP Shared Task 2011 (2012), in: BMC Bioinformatics, 13:Suppl. 11(S2) | , , , , , , , and ,
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Overview of the Infectious Diseases (ID) task of BioNLP Shared Task 2011, in: Proceedings of the BioNLP Shared Task 2011 Workshop, pages 26--35, Association for Computational Linguistics, 2011 | , , , , , , , and ,
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Overview of the Entity Relations (REL) supporting task of BioNLP Shared Task 2011, in: Proceedings of theBioNLP Shared Task 2011 Workshop, pages 83--88, Association for Computational Linguistics, 2011 | , and ,
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An Analysis of Gene/Protein Associations at PubMed Scale, in: Proceedings of the fourth International Symposium for Semantic Mining in Biomedicine (SMBM 2010), 2010 | , and ,
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Why Biomedical Relation Extraction Results are Incomparable and What to do about it, in: Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), pages 149--152, 2008 | , , and ,
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New Resources and Perspectives for Biomedical Event Extraction, in: Proceedings of BioNLP 2012, pages 100-108, 2012 | , , , and ,
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BioLexicon: A Lexical Resource for the Biology Domain, in: Proceedings of the Third International Symposium on Semantic Mining in Biomedicine (SMBM 2008), Turku, Finland, pages 109--116, Turku Centre for Computer Science (TUCS), 2008 | , , , , and ,
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Generalising semantic category disambiguation with large lexical resources for fun and profit (2014), in: Journal of Biomedical Semantics, 5(26) | , , and ,
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Almost Total Recall: Semantic Category Disambiguation Using Large Lexical Resources and Approximate String Matching (2011), in: Proceedings of the Fourth International Symposium on Languages in Biology and Medicine (LBM 2011) | , , and ,
Bridging the Gap Between Scope-based and Event-based Negation/Speculation Annotations: A Bridge Not Too Far, in: Proceedings of ExProM 2012, pages 47-56, 2012 | , , , and ,
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brat: a Web-based Tool for NLP-Assisted Text Annotation, in: Proceedings of the Demonstrations at the 13th Conference of the European Chapter of the Association for Computational Linguistics, Avignon, France, pages 102-107, Association for Computational Linguistics, 2012 | , , , , and ,
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SimSem: Fast Approximate String Matching in Relation to Semantic Category Disambiguation, in: Proceedings of the BioNLP 2011 Workshop, pages 136-145, Association for Computational Linguistics, 2011 | , and ,
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BioNLP Shared Task 2011: Supporting Resources, in: Proceedings of the BioNLP Shared Task 2011 Workshop, pages 112--120, Association for Computational Linguistics, 2011 | , , , , and ,
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Large-scale event extraction from literature with multi-level gene normalization (2013), in: PLOS ONE, 8:4(e55814) | , , , , , , , , , and ,
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Improving the Inter-corpora Compatibility for Protein Annotations (2010), in: Journal of Bioinformatics and Computational Biology (JBCB), 8:5(901-916) | , , , , and ,
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Demystifying protein annotations: toward increasing the compatibility of different corpora, in: Proceedings of the 3rd International Symposium on Languages in Biology and Medicine (LBM 2009), pages 103--108, 2009 | , , , , and ,
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