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Publications of Pyysalo, S.
2015
| , , , , , , , and , Overview of the Cancer Genetics and Pathway Curation tasks of BioNLP Shared Task 2013 (2015), in: BMC BioInformatics, 16(Suppl 10):Suppl 10(S2) |
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2014
| and , Anatomical Entity Mention Recognition at Literature Scale (2014), in: Bioinformatics, 30:6(868-875) |
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| , , and , Generalising semantic category disambiguation with large lexical resources for fun and profit (2014), in: Journal of Biomedical Semantics, 5(26) |
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2013
| , , , , , and , A method for integrating and ranking the evidence for biochemical pathways by mining reactions from text (2013), in: Bioinformatics, 29:13(i44-i52) |
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| , , and , BioCause: Annotating and Analysing Causality in the Biomedical Domain (2013), in: BMC Bioinformatics, 14:1(2) |
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| , , , and , Distributional Semantics Resources for Biomedical Text Processing, in: Proceedings of LBM 2013, pages 39-44, 2013 |
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| , , , , , , , , , and , Large-scale event extraction from literature with multi-level gene normalization (2013), in: PLOS ONE, 8:4(e55814) |
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| , , , , , and , Overview of BioNLP Shared Task 2013, in: Proceedings of the BioNLP Shared Task 2013 Workshop, pages 1--7, Association for Computational Linguistics, 2013 |
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| , and , 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 |
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| , , , , , , and , Overview of the Pathway Curation (PC) task of BioNLP Shared Task 2013, in: Proceedings of the BioNLP Shared Task 2013 Workshop, Sofia, Bulgaria, pages 67-75, Association for Computational Linguistics, 2013 |
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| , , and , Wide coverage biomedical event extraction using multiple partially overlapping corpora (2013), in: BMC Bioinformatics, 14:175 |
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2012
| , , , , and , 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 |
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| , , , 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 |
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| , , , , and , Event extraction across multiple levels of biological organization (2012), in: Bioinformatics, 28:18(i575-i581) |
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| , , , and , New Resources and Perspectives for Biomedical Event Extraction, in: Proceedings of BioNLP 2012, pages 100-108, 2012 |
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| , , and , Open-domain Anatomical Entity Mention Detection, in: Proceedings of the ACL Workshop on Detecting Stucture in Scholarly Discourse (DSSD), pages 27-36, 2012 |
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| , , , , , , , and , Overview of the ID, EPI and REL tasks of BioNLP Shared Task 2011 (2012), in: BMC Bioinformatics, 13:Suppl. 11(S2) |
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| , , , , , , and , PubMed-Scale Event Extraction for Post-Translational Modifications, Epigenetics and Protein Structural Relations, in: Proceedings of BioNLP 2012, pages 82-90, 2012 |
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2011
| , , and , 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 , Anatomical Entity Recognition with Open Biomedical Ontologies, in: Proceedings of the Fourth International Symposium on Languages in Biology and Medicine (LBM 2011), 2011 |
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| , , , , and , BioNLP Shared Task 2011: Supporting Resources, in: Proceedings of the BioNLP Shared Task 2011 Workshop, pages 112--120, Association for Computational Linguistics, 2011 |
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| , , , and , Extracting Bio-Molecular Events From Literature—The BioNLP’09 Shared Task (2011), in: Computational Intelligence, 27:4(513-540) |
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| , and , From Pathways to Biomolecular Events: Opportunities and Challenges, in: Proceedings of the BioNLP 2011 Workshop, pages 105--113, Association for Computational Linguistics, 2011 |
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| , , , , , , , , and , Named Entity Recognition for Bacterial Type IV Secretion Systems (2011), in: PLoS ONE, 6:3(e14780) |
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