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All fields Title Creator / Publisher Keyword Year AND OR AND NOT All fields Title Creator / Publisher Keyword Year AND OR AND NOT All fields Title Creator / Publisher Keyword Year AND OR AND NOT All fields Title Creator / Publisher Keyword Year AND OR AND NOT All fields Title Creator / Publisher Keyword Year Sort by creator [A → Z]' creator [Z → A]' publishing year ↑ (asc)' publishing year ↓ (desc)' title [A → Z]' title [Z → A]' Simple Search Hits 1 – 13 of 13 1 Ontogene Term and Relation Recognition for CDR Ellendorff, Tilia Renate; Clematide, Simon; van der Lek, Adrian... In: Ellendorff, Tilia Renate; Clematide, Simon; van der Lek, Adrian; Furrer, Lenz; Rinaldi, Fabio (2015). Ontogene Term and Relation Recognition for CDR. In: BioCreative V, Sevilla, 9 September 2015 - 11 September 2015, 305-310. (2015) BASE Show details 2 Track 4 Overview: Extraction of Causal Network Information in Biological Expression Language (BEL) Fluck, Juliane; Madan, Sumit; Ellendorff, Tilia Renate... In: Fluck, Juliane; Madan, Sumit; Ellendorff, Tilia Renate; Mevissen, Theo; Clematide, Simon; van der Lek, Adrian; Rinaldi, Fabio (2015). Track 4 Overview: Extraction of Causal Network Information in Biological Expression Language (BEL). In: BioCreative V, Sevilla, 9 September 2015 - 11 September 2015, 333-346. (2015) BASE Show details 3 Exploiting BabelNet for multilingual biomedical synonym expansion ... Clematide, Simon; Martin, Davtyan; Rinaldi, Fabio. - : s.n., 2013 BASE Show details 4 UZH in BioNLP 2013 ... Schneider, Gerold; Clematide, Simon; Ellendorff, Tilia. - : Association for Computational Linguistics, 2013 BASE Show details 5 How preferred are preferred terms? Grigonyte, Gintare; Clematide, Simon; Rinaldi, Fabio In: Grigonyte, Gintare; Clematide, Simon; Rinaldi, Fabio (2013). How preferred are preferred terms? In: Kosem, I; Kallas, J; Gantar, P; Krek, S; Langemets, M; Tuulik, M. Electronic lexicography in the 21st century: thinking outside the paper. Proceedings of the eLex 2013 conference, 17-19 October 2013, Tallinn, Estonia. Ljubljana/Tallinn: eLex, 452-459. (2013) BASE Show details 6 UZH in BioNLP 2013 Schneider, Gerold; Clematide, Simon; Ellendorff, Tilia... In: Schneider, Gerold; Clematide, Simon; Ellendorff, Tilia; Tuggener, Don; Rinaldi, Fabio; Grigonyte, Gintare (2013). UZH in BioNLP 2013. In: Proceedings of the BioNLP Shared Task 2013 Workshop, Sophia, Bulgaria, 9 August 2013 - 9 August 2013, 116-120. (2013) BASE Show details 7 ODIN: a customizable literature curation tool Rinaldi, Fabio; Davis, Allan Peter; Southan, Christopher... In: Rinaldi, Fabio; Davis, Allan Peter; Southan, Christopher; Clematide, Simon; Ellendorff, Tilia Renate; Schneider, Gerold (2013). ODIN: a customizable literature curation tool. In: Fourth BioCreative Challenge Evaluation Workshop, Bethesda, MD, US, 7 October 2013 - 9 October 2013, 219-223. (2013) BASE Show details 8 OntoGene: CTD entity and action term recognition Rinaldi, Fabio; Clematide, Simon; Ellendorff, Tilia Renate... In: Rinaldi, Fabio; Clematide, Simon; Ellendorff, Tilia Renate; Marques, Hernani (2013). OntoGene: CTD entity and action term recognition. In: Fourth BioCreative Challenge Evaluation Workshop, Bethesda, MD, US, 7 October 2013 - 9 October 2013, 90-94. (2013) BASE Show details 9 Ranking of CTD articles and interactions using the OntoGene pipeline Rinaldi, Fabio; Clematide, Simon; Hafner, Simon In: Rinaldi, Fabio; Clematide, Simon; Hafner, Simon (2012). Ranking of CTD articles and interactions using the OntoGene pipeline. In: 2012 {BioCreative} workshop, Washington D.C., 4 April 2012 - 5 April 2012. (2012) BASE Show details 10 Using ODIN for a PharmGKB re-validation experiment Rinaldi, Fabio; Clematide, Simon; Garten, Yael... In: Rinaldi, Fabio; Clematide, Simon; Garten, Yael; Whirl-Carrillo, Michelle; Gong, Li; Hebert, Joan M; Sangkuhl, Katrin; Thorn, Caroline F; Klein, Teri E; Altman, Russ B (2012). Using ODIN for a PharmGKB re-validation experiment. Database: The Journal Of Biological Databases And Curation, 2012:bas021. (2012) BASE Show details 11 Relation Mining Experiments in the Pharmacogenomics Domain Rinaldi, Fabio; Schneider, Gerold; Clematide, Simon In: Rinaldi, Fabio; Schneider, Gerold; Clematide, Simon (2012). Relation Mining Experiments in the Pharmacogenomics Domain. Journal of Biomedical Informatics, 45(5):851-861. (2012) BASE Show details 12 Detection of interaction articles and experimental methods in biomedical literature Schneider, Gerold; Clematide, Simon; Rinaldi, Fabio In: Schneider, Gerold; Clematide, Simon; Rinaldi, Fabio (2011). Detection of interaction articles and experimental methods in biomedical literature. BMC Bioinformatics, 12(Suppl 8):S13. (2011) Abstract: Background: This article describes the approaches taken by the OntoGene group at the University of Zurich in dealing with two tasks of the BioCreative III competition: classification of articles which contain curatable protein- protein interactions (PPI-ACT) and extraction of experimental methods (PPI-IMT). Results: Two main achievements are described in this paper: (a) a system for document classification which crucially relies on the results of an advanced pipeline of natural language processing tools; (b) a system which is capable of detecting all experimental methods mentioned in scientific literature, and listing them with a competitive ranking (AUC iP/R > 0.5). Conclusions: The results of the BioCreative III shared evaluation clearly demonstrate that significant progress has been achieved in the domain of biomedical text mining in the past few years. Our own contribution, together with the results of other participants, provides evidence that natural language processing techniques have become by now an integral part of advanced text mining approaches. Keyword: 000 Computer science; 410 Linguistics; 820 English & Old English literatures; BioCreative III; Detection of experimental methods; Document classification; English Department; Information Extraction; Institute of Computational Linguistics; knowledge & systems; Text Mining URL: https://doi.org/10.1186/1471-2105-12-S8-S13 https://www.zora.uzh.ch/id/eprint/52959/ https://www.zora.uzh.ch/id/eprint/52959/3/1471-2105-12-S8-S13.pdf https://doi.org/10.5167/uzh-52959 BASE Hide details 13 OntoGene (Team 65): preliminary analysis of participation in BioCreative III Rinaldi, Fabio; Schneider, Gerold; Clematide, Simon... In: Rinaldi, Fabio; Schneider, Gerold; Clematide, Simon; Jegen, Silvan; et al (2010). OntoGene (Team 65): preliminary analysis of participation in BioCreative III. In: BioCreative III workshop, Bethesda, Maryland, 13 September 2010 - 15 September 2010. (2010) BASE Show details

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