| A large-scale evaluation of computational protein function prediction P Radivojac, WT Clark, TR Oron, AM Schnoes, T Wittkop, A Sokolov, ... Nature methods 10 (3), 221-227, 2013 | 1111 | 2013 |
| 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, 1-24, 2007 | 591 | 2007 |
| The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens N Zhou, Y Jiang, TR Bergquist, AJ Lee, BZ Kacsoh, AW Crocker, ... Genome biology 20, 1-23, 2019 | 403 | 2019 |
| 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, 1-12, 2008 | 388 | 2008 |
| Comparative analysis of five protein-protein interaction corpora S Pyysalo, A Airola, J Heimonen, J Björne, F Ginter, T Salakoski BMC bioinformatics 9, 1-11, 2008 | 309 | 2008 |
| Extracting complex biological events with rich graph-based feature sets J Björne, J Heimonen, F Ginter, A Airola, T Pahikkala, T Salakoski Proceedings of the BioNLP 2009 Workshop Companion Volume for Shared Task, 10-18, 2009 | 270 | 2009 |
| Generalizing biomedical event extraction J Björne, T Salakoski Proceedings of BioNLP Shared Task 2011 Workshop, 183-191, 2011 | 167 | 2011 |
| Complex event extraction at PubMed scale J Björne, F Ginter, S Pyysalo, J Tsujii, T Salakoski Bioinformatics 26 (12), i382-i390, 2010 | 160 | 2010 |
| TEES 2.1: Automated annotation scheme learning in the BioNLP 2013 Shared Task J Björne, T Salakoski Proceedings of the BioNLP Shared Task 2013 Workshop, 16-25, 2013 | 135 | 2013 |
| 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 | 132 | 2013 |
| UTurku: Drug Named Entity Recognition and Drug-Drug Interaction Extraction Using SVM Classification and Domain Knowledge J Björne, S Kaewphan, T Salakoski Second Joint Conference on Lexical and Computational Semantics (*SEM …, 2013 | 125 | 2013 |
| 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 | 121 | 2008 |
| Biomedical event extraction using convolutional neural networks and dependency parsing J Björne, T Salakoski Proceedings of the BioNLP 2018 workshop, 98-108, 2018 | 115 | 2018 |
| University of Turku in the BioNLP'11 shared task J Björne, F Ginter, T Salakoski BMC bioinformatics 13, 1-13, 2012 | 79 | 2012 |
| Extracting contextualized complex biological events with rich graph-based feature sets J Björne, J Heimonen, F Ginter, A Airola, T Pahikkala, T Salakoski Computational Intelligence 27 (4), 541-557, 2011 | 61 | 2011 |
| TEES 2.2: biomedical event extraction for diverse corpora J Björne, T Salakoski BMC bioinformatics 16, 1-20, 2015 | 53 | 2015 |
| Deep learning with minimal training data: TurkuNLP entry in the BioNLP shared task 2016 F Mehryary, J Björne, S Pyysalo, T Salakoski, F Ginter Proceedings of the 4th BioNLP shared task workshop, 73-81, 2016 | 47 | 2016 |
| AI-assisted learning with ChatGPT and large language models: Implications for higher education S Laato, B Morschheuser, J Hamari, J Björne 2023 IEEE International Conference on Advanced Learning Technologies (ICALT …, 2023 | 40 | 2023 |
| Drug-Drug Interaction Extraction from Biomedical Texts with SVM and RLS Classifiers J Björne, A Airola, T Pahikkala, T Salakoski Proceedings of the 1st Challenge Task on Drug-Drug Interaction Extraction …, 2011 | 40 | 2011 |
| Scaling up biomedical event extraction to the entire PubMed J Björne, F Ginter, S Pyysalo, J Tsujii, T Salakoski Proceedings of the 2010 workshop on biomedical natural language processing …, 2010 | 40 | 2010 |
Tapio SalakoskiProfessor of Computer Science, University of TurkuVerified email at utu.fi
