Ultraconservative online algorithms for multiclass problems
The Journal of Machine Learning Research
Fast decoding and optimal decoding for machine translation
ACL '01 Proceedings of the 39th Annual Meeting on Association for Computational Linguistics
Coarse-to-fine n-best parsing and MaxEnt discriminative reranking
ACL '05 Proceedings of the 43rd Annual Meeting on Association for Computational Linguistics
Joint learning improves semantic role labeling
ACL '05 Proceedings of the 43rd Annual Meeting on Association for Computational Linguistics
Semantic role labeling via integer linear programming inference
COLING '04 Proceedings of the 20th international conference on Computational Linguistics
Self-training for biomedical parsing
HLT-Short '08 Proceedings of the 46th Annual Meeting of the Association for Computational Linguistics on Human Language Technologies: Short Papers
Overview of BioNLP'09 shared task on event extraction
BioNLP '09 Proceedings of the Workshop on Current Trends in Biomedical Natural Language Processing: Shared Task
Extracting complex biological events with rich graph-based feature sets
BioNLP '09 Proceedings of the Workshop on Current Trends in Biomedical Natural Language Processing: Shared Task
A Markov logic approach to bio-molecular event extraction
BioNLP '09 Proceedings of the Workshop on Current Trends in Biomedical Natural Language Processing: Shared Task
Incremental integer linear programming for non-projective dependency parsing
EMNLP '06 Proceedings of the 2006 Conference on Empirical Methods in Natural Language Processing
Jointly identifying predicates, arguments and senses using Markov logic
NAACL '09 Proceedings of Human Language Technologies: The 2009 Annual Conference of the North American Chapter of the Association for Computational Linguistics
Joint inference for knowledge extraction from biomedical literature
HLT '10 Human Language Technologies: The 2010 Annual Conference of the North American Chapter of the Association for Computational Linguistics
A comparative study of syntactic parsers for event extraction
BioNLP '10 Proceedings of the 2010 Workshop on Biomedical Natural Language Processing
On dual decomposition and linear programming relaxations for natural language processing
EMNLP '10 Proceedings of the 2010 Conference on Empirical Methods in Natural Language Processing
Dual decomposition for parsing with non-projective head automata
EMNLP '10 Proceedings of the 2010 Conference on Empirical Methods in Natural Language Processing
Evaluating dependency representation for event extraction
COLING '10 Proceedings of the 23rd International Conference on Computational Linguistics
Event extraction as dependency parsing
HLT '11 Proceedings of the 49th Annual Meeting of the Association for Computational Linguistics: Human Language Technologies - Volume 1
Overview of BioNLP Shared Task 2011
BioNLP Shared Task '11 Proceedings of the BioNLP Shared Task 2011 Workshop
Event extraction as dependency parsing for BioNLP 2011
BioNLP Shared Task '11 Proceedings of the BioNLP Shared Task 2011 Workshop
Robust biomedical event extraction with dual decomposition and minimal domain adaptation
BioNLP Shared Task '11 Proceedings of the BioNLP Shared Task 2011 Workshop
Model combination for event extraction in BioNLP 2011
BioNLP Shared Task '11 Proceedings of the BioNLP Shared Task 2011 Workshop
Multi event extraction guided by global constraints
NAACL HLT '12 Proceedings of the 2012 Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies
Learning constraints for consistent timeline extraction
EMNLP-CoNLL '12 Proceedings of the 2012 Joint Conference on Empirical Methods in Natural Language Processing and Computational Natural Language Learning
New resources and perspectives for biomedical event extraction
BioNLP '12 Proceedings of the 2012 Workshop on Biomedical Natural Language Processing
Journal of Artificial Intelligence Research
Joint inference of entities, relations, and coreference
Proceedings of the 2013 workshop on Automated knowledge base construction
IJCAI'13 Proceedings of the Twenty-Third international joint conference on Artificial Intelligence
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Extracting biomedical events from literature has attracted much recent attention. The best-performing systems so far have been pipelines of simple subtask-specific local classifiers. A natural drawback of such approaches are cascading errors introduced in early stages of the pipeline. We present three joint models of increasing complexity designed to overcome this problem. The first model performs joint trigger and argument extraction, and lends itself to a simple, efficient and exact inference algorithm. The second model captures correlations between events, while the third model ensures consistency between arguments of the same event. Inference in these models is kept tractable through dual decomposition. The first two models outperform the previous best joint approaches and are very competitive with respect to the current state-of-the-art. The third model yields the best results reported so far on the BioNLP 2009 shared task, the BioNLP 2011 Genia task and the BioNLP 2011 Infectious Diseases task.