Jari Björne
Jari Björne
Post-doctoral researcher, University of Turku, Finland
Verified email at utu.fi
TitleCited byYear
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, 2013
6052013
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), 50, 2007
4192007
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), S2, 2008
2852008
Comparative analysis of five protein-protein interaction corpora
S Pyysalo, A Airola, J Heimonen, J Björne, F Ginter, T Salakoski
BMC bioinformatics 9 (3), S6, 2008
2282008
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 Workshop on Current Trends in Biomedical Natural Language …, 2009
2242009
Complex event extraction at PubMed scale
J Björne, F Ginter, S Pyysalo, J Tsujii, T Salakoski
Bioinformatics 26 (12), i382-i390, 2010
1202010
Generalizing biomedical event extraction
J Björne, T Salakoski
Proceedings of the BioNLP Shared Task 2011 Workshop, 183-191, 2011
1142011
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
1012008
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
962013
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
952013
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
662013
University of Turku in the BioNLP'11 shared task
J Björne, F Ginter, T Salakoski
BMC bioinformatics 13 (11), S4, 2012
582012
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
362011
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
352010
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
322011
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
212016
Semantically linking molecular entities in literature through entity relationships
S Van Landeghem, J Björne, T Abeel, B De Baets, T Salakoski, ...
BMC bioinformatics 13 (11), S6, 2012
202012
U-Compare bio-event meta-service: compatible BioNLP event extraction services
Y Kano, J Björne, F Ginter, T Salakoski, E Buyko, U Hahn, KB Cohen, ...
BMC bioinformatics 12 (1), 481, 2011
182011
Biomedical Event Extraction with Machine Learning
J Björne
TUCS Dissertations, 2014
172014
TEES 2.2: biomedical event extraction for diverse corpora
J Björne, T Salakoski
BMC bioinformatics 16 (16), S4, 2015
152015
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