Sampo Pyysalo

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Filip GinterUniversity of TurkuVerified email at utu.fi
Junichi TsujiiArtificial Intelligence Research Center, AISTVerified email at aist.go.jp
Tomoko OHTAtextimiVerified email at textimi.com
Tapio SalakoskiProfessor of Computer Science, University of TurkuVerified email at utu.fi
Sophia AnaniadouProfessor, Computer Science, Manchester University, National Centre for Text MiningVerified email at manchester.ac.uk
Jin-Dong KimAssociate Professor of Database Center for Life ScienceVerified email at dbcls.rois.ac.jp
Jari BjörnePost-doctoral researcher, University of Turku, FinlandVerified email at utu.fi
Tapio PahikkalaAssociate Professor, University of turku, FinlandVerified email at utu.fi
Anna KorhonenProfessor, Computer Science and Linguistics, University of CambridgeVerified email at cam.ac.uk
Jouni JärvinenAdjunct professor, Department of Mathematics and Statistics, University of Turku, FinlandVerified email at utu.fi
Makoto MiwaAssociate Professor, Toyota Technological InstituteVerified email at toyota-ti.ac.jp
Jenna KanervaDepartment of Computing, University of TurkuVerified email at utu.fi
Billy ChiuPhD student at University of CambridgeVerified email at cam.ac.uk
Jan HajicProfessor of Computational Linguistics, Charles University, Prague, Czech RepublicVerified email at ufal.mff.cuni.cz
Joakim NivreProfessor of Computational Linguistics, Uppsala UniversityVerified email at lingfil.uu.se
Daniel ZemanInstitute of Formal and Applied Linguistics, Faculty of Mathematics and Physics, Charles UniversityVerified email at ufal.mff.cuni.cz
Gamal CrichtonUniversity of CambridgeVerified email at cam.ac.uk
Yoshinobu KanoFaculty of Informatics, Shizuoka UniversityVerified email at inf.shizuoka.ac.jp
Antti AirolaAssistant Professor, University of TurkuVerified email at utu.fi
Slav PetrovDistinguished Scientist / Senior Research Director at GoogleVerified email at petrovi.de

Sampo Pyysalo

University of Turku

Verified email at utu.fi


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Universal dependencies v1: A multilingual treebank collection J Nivre, MC De Marneffe, F Ginter, Y Goldberg, J Hajic, CD Manning, ... Proceedings of the Tenth International Conference on Language Resources and …, 2016	1108	2016
BRAT: a web-based tool for NLP-assisted text annotation P Stenetorp, S Pyysalo, G Topić, T Ohta, S Ananiadou, J Tsujii Proceedings of the Demonstrations at the 13th Conference of the European …, 2012	1064	2012
Overview of BioNLP’09 shared task on event extraction JD Kim, T Ohta, S Pyysalo, Y Kano, J Tsujii Proceedings of the BioNLP 2009 workshop companion volume for shared task, 1-9, 2009	732	2009
BioInfer: a corpus for information extraction in the biomedical domain S Pyysalo, F Ginter, J Heimonen, J Björne, J Boberg, J Järvinen, ... BMC bioinformatics 8 (1), 1-24, 2007	494	2007
Distributional semantics resources for biomedical text processing S Pyysalo, F Ginter, H Moen, T Salakoski, S Ananiadou Languages in Biology and Medicine, 2013	452*	2013
CoNLL 2018 shared task: Multilingual parsing from raw text to universal dependencies D Zeman, J Hajic, M Popel, M Potthast, M Straka, F Ginter, J Nivre, ... Proceedings of the CoNLL 2018 Shared Task: Multilingual parsing from raw …, 2018	411	2018
All-paths graph kernel for protein-protein interaction extraction with evaluation of cross-corpus learning A Airola, S Pyysalo, J Björne, T Pahikkala, F Ginter, T Salakoski BMC bioinformatics 9 (11), 1-12, 2008	340	2008
How to train good word embeddings for biomedical NLP B Chiu, G Crichton, A Korhonen, S Pyysalo Proceedings of the 15th workshop on biomedical natural language processing …, 2016	297	2016
Comparative analysis of five protein-protein interaction corpora S Pyysalo, A Airola, J Heimonen, J Björne, F Ginter, T Salakoski BMC bioinformatics 9 (3), 1-11, 2008	267	2008
Event extraction for systems biology by text mining the literature S Ananiadou, S Pyysalo, J Tsujii, DB Kell Trends in biotechnology 28 (7), 381-390, 2010	246	2010
Overview of BioNLP shared task 2013 C Nédellec, R Bossy, JD Kim, JJ Kim, T Ohta, S Pyysalo, P Zweigenbaum Proceedings of the BioNLP shared task 2013 workshop, 1-7, 2013	215	2013
Universal Dependencies 1.2 J Nivre, Ž Agić, MJ Aranzabe, M Asahara, A Atutxa, M Ballesteros, J Bauer, ... Universal Dependencies Consortium, 2015	199	2015
Attending to characters in neural sequence labeling models M Rei, GKO Crichton, S Pyysalo arXiv preprint arXiv:1611.04361, 2016	162	2016
Complex event extraction at PubMed scale J Björne, F Ginter, S Pyysalo, J Tsujii, T Salakoski Bioinformatics 26 (12), i382-i390, 2010	142	2010
A neural network multi-task learning approach to biomedical named entity recognition G Crichton, S Pyysalo, B Chiu, A Korhonen BMC bioinformatics 18 (1), 1-14, 2017	132	2017
The STRING database in 2021: customizable protein–protein networks, and functional characterization of user-uploaded gene/measurement sets D Szklarczyk, AL Gable, KC Nastou, D Lyon, R Kirsch, S Pyysalo, ... Nucleic acids research 49 (D1), D605-D612, 2021	125	2021
Large-scale event extraction from literature with multi-level gene normalization S Van Landeghem, J Björne, CH Wei, K Hakala, S Pyysalo, S Ananiadou, ... PloS one 8 (4), e55814, 2013	119	2013
Universal Dependencies v2: An evergrowing multilingual treebank collection J Nivre, MC de Marneffe, F Ginter, J Hajič, CD Manning, S Pyysalo, ... arXiv preprint arXiv:2004.10643, 2020	118	2020
A graph kernel for protein-protein interaction extraction A Airola, S Pyysalo, J Björne, T Pahikkala, F Ginter, T Salakoski Proceedings of the workshop on current trends in biomedical natural language …, 2008	114	2008
Event extraction across multiple levels of biological organization S Pyysalo, T Ohta, M Miwa, HC Cho, J Tsujii, S Ananiadou Bioinformatics 28 (18), i575-i581, 2012	113	2012

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