Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor 2013-08 Association for Computational Linguistics Sofia, Bulgaria text conference publication ws-2013-bionlp https://aclanthology.org/W13-2000/ Overview of BioNLP Shared Task 2013 Claire Nédellec author Robert Bossy author Jin-Dong Kim author Jung-jae Kim author Tomoko Ohta author Sampo Pyysalo author Pierre Zweigenbaum author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication nedellec-etal-2013-overview https://aclanthology.org/W13-2001/ 2013-08 1 7 The Genia Event Extraction Shared Task, 2013 Edition - Overview Jin-Dong Kim author Yue Wang author Yamamoto Yasunori author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication kim-etal-2013-genia https://aclanthology.org/W13-2002/ 2013-08 8 15 TEES 2.1: Automated Annotation Scheme Learning in the BioNLP 2013 Shared Task Jari Björne author Tapio Salakoski author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication bjorne-salakoski-2013-tees https://aclanthology.org/W13-2003/ 2013-08 16 25 EVEX in ST’13: Application of a large-scale text mining resource to event extraction and network construction Kai Hakala author Sofie Van Landeghem author Tapio Salakoski author Yves Van de Peer author Filip Ginter author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication hakala-etal-2013-evex https://aclanthology.org/W13-2004/ 2013-08 26 34 Extracting Biomedical Events and Modifications Using Subgraph Matching with Noisy Training Data Andrew MacKinlay author David Martinez author Antonio Jimeno Yepes author Haibin Liu author W John Wilbur author Karin Verspoor author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication mackinlay-etal-2013-extracting https://aclanthology.org/W13-2005/ 2013-08 35 44 Biomedical Event Extraction by Multi-class Classification of Pairs of Text Entities Xiao Liu author Antoine Bordes author Yves Grandvalet author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication liu-etal-2013-biomedical https://aclanthology.org/W13-2006/ 2013-08 45 49 GRO Task: Populating the Gene Regulation Ontology with events and relations Jung-jae Kim author Xu Han author Vivian Lee author Dietrich Rebholz-Schuhmann author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication kim-etal-2013-gro https://aclanthology.org/W13-2007/ 2013-08 50 57 Overview of the Cancer Genetics (CG) task of BioNLP Shared Task 2013 Sampo Pyysalo author Tomoko Ohta author Sophia Ananiadou author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication pyysalo-etal-2013-overview https://aclanthology.org/W13-2008/ 2013-08 58 66 Overview of the Pathway Curation (PC) task of BioNLP Shared Task 2013 Tomoko Ohta author Sampo Pyysalo author Rafal Rak author Andrew Rowley author Hong-Woo Chun author Sung-Jae Jung author Sung-Pil Choi author Sophia Ananiadou author Jun’ichi Tsujii author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication ohta-etal-2013-overview https://aclanthology.org/W13-2009/ 2013-08 67 75 Generalizing an Approximate Subgraph Matching-based System to Extract Events in Molecular Biology and Cancer Genetics Haibin Liu author Karin Verspoor author Donald C Comeau author Andrew MacKinlay author W John Wilbur author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication liu-etal-2013-generalizing https://aclanthology.org/W13-2010/ 2013-08 76 85 Performance and limitations of the linguistically motivated Cocoa/Peaberry system in a broad biological domain. S V Ramanan author P Senthil Nathan author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication ramanan-nathan-2013-performance https://aclanthology.org/W13-2011/ 2013-08 86 93 NaCTeM EventMine for BioNLP 2013 CG and PC tasks Makoto Miwa author Sophia Ananiadou author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication miwa-ananiadou-2013-nactem https://aclanthology.org/W13-2012/ 2013-08 94 98 BioNLP Shared Task 2013: Supporting Resources Pontus Stenetorp author Wiktoria Golik author Thierry Hamon author Donald C Comeau author Rezarta Islamaj Doğan author Haibin Liu author W John Wilbur author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication stenetorp-etal-2013-bionlp https://aclanthology.org/W13-2013/ 2013-08 99 103 A fast rule-based approach for biomedical event extraction Quoc-Chinh Bui author David Campos author Erik van Mulligen author Jan Kors author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication bui-etal-2013-fast https://aclanthology.org/W13-2014/ 2013-08 104 108 Improving Feature-Based Biomedical Event Extraction System by Integrating Argument Information Lishuang Li author Yiwen Wang author Degen Huang author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication li-etal-2013-improving https://aclanthology.org/W13-2015/ 2013-08 109 115 UZH in BioNLP 2013 Gerold Schneider author Simon Clematide author Tilia Ellendorff author Don Tuggener author Fabio Rinaldi author Gintarė Grigonytė author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication schneider-etal-2013-uzh https://aclanthology.org/W13-2016/ 2013-08 116 120 A Hybrid approach for biomedical event extraction Xuan Quang Pham author Minh Quang Le author Bao Quoc Ho author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication pham-etal-2013-hybrid https://aclanthology.org/W13-2017/ 2013-08 121 124 Identification of Genia Events using Multiple Classifiers Roland Roller author Mark Stevenson author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication roller-stevenson-2013-identification https://aclanthology.org/W13-2018/ 2013-08 125 129 Exploring a Probabilistic Earley Parser for Event Composition in Biomedical Texts Mai-Vu Tran author Nigel Collier author Hoang-Quynh Le author Van-Thuy Phi author Thanh-Binh Pham author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication tran-etal-2013-exploring https://aclanthology.org/W13-2019/ 2013-08 130 134 Detecting Relations in the Gene Regulation Network Thomas Provoost author Marie-Francine Moens author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication provoost-moens-2013-detecting https://aclanthology.org/W13-2020/ 2013-08 135 138 Ontology-based semantic annotation: an automatic hybrid rule-based method Sondes Bannour author Laurent Audibert author Henry Soldano author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication bannour-etal-2013-ontology https://aclanthology.org/W13-2021/ 2013-08 139 143 Building A Contrasting Taxa Extractor for Relation Identification from Assertions: BIOlogical Taxonomy & Ontology Phrase Extraction System Cyril Grouin author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication grouin-2013-building https://aclanthology.org/W13-2022/ 2013-08 144 152 BioNLP Shared Task 2013 – An overview of the Genic Regulation Network Task Robert Bossy author Philippe Bessières author Claire Nédellec author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication bossy-etal-2013-bionlp https://aclanthology.org/W13-2023/ 2013-08 153 160 BioNLP shared Task 2013 – An Overview of the Bacteria Biotope Task Robert Bossy author Wiktoria Golik author Zorana Ratkovic author Philippe Bessières author Claire Nédellec author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication bossy-etal-2013-bionlp-shared https://aclanthology.org/W13-2024/ 2013-08 161 169 Bacteria Biotope Detection, Ontology-based Normalization, and Relation Extraction using Syntactic Rules İlknur Karadeniz author Arzucan Özgür author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication karadeniz-ozgur-2013-bacteria https://aclanthology.org/W13-2025/ 2013-08 170 177 Extracting Gene Regulation Networks Using Linear-Chain Conditional Random Fields and Rules Slavko Žitnik author Marinka Žitnik author Blaž Zupan author Marko Bajec author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication zitnik-etal-2013-extracting https://aclanthology.org/W13-2026/ 2013-08 178 187 IRISA participation to BioNLP-ST13: lazy-learning and information retrieval for information extraction tasks Vincent Claveau author 2013-08 text Proceedings of the BioNLP Shared Task 2013 Workshop Claire Nédellec editor Robert Bossy editor Jin-Dong Kim editor Jung-jae Kim editor Tomoko Ohta editor Sampo Pyysalo editor Pierre Zweigenbaum editor Association for Computational Linguistics Sofia, Bulgaria conference publication claveau-2013-irisa https://aclanthology.org/W13-2027/ 2013-08 188 196