Enhancing HMM-based biomedical named entity recognition by studying special phenomena
Journal of Biomedical Informatics - Special issue: Named entity recognition in biomedicine
MedPost: a part-of-speech tagger for bioMedical text
Bioinformatics
Robust, applied morphological generation
INLG '00 Proceedings of the first international conference on Natural language generation - Volume 14
Effective adaptation of a Hidden Markov Model-based named entity recognizer for biomedical domain
BioMed '03 Proceedings of the ACL 2003 workshop on Natural language processing in biomedicine - Volume 13
Introduction to the CoNLL-2003 shared task: language-independent named entity recognition
CONLL '03 Proceedings of the seventh conference on Natural language learning at HLT-NAACL 2003 - Volume 4
Language independent NER using a maximum entropy tagger
CONLL '03 Proceedings of the seventh conference on Natural language learning at HLT-NAACL 2003 - Volume 4
Flexible text segmentation with structured multilabel classification
HLT '05 Proceedings of the conference on Human Language Technology and Empirical Methods in Natural Language Processing
The GENIA corpus: an annotated research abstract corpus in molecular biology domain
HLT '02 Proceedings of the second international conference on Human Language Technology Research
Introduction to the bio-entity recognition task at JNLPBA
JNLPBA '04 Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications
Recognizing nested named entities in GENIA corpus
BioNLP '06 Proceedings of the Workshop on Linking Natural Language Processing and Biology: Towards Deeper Biological Literature Analysis
Tools to address the interdependence between tokenisation and standoff annotation
NLPXML '06 Proceedings of the 5th Workshop on NLP and XML: Multi-Dimensional Markup in Natural Language Processing
Corpus design for biomedical natural language processing
ISMB '05 Proceedings of the ACL-ISMB Workshop on Linking Biological Literature, Ontologies and Databases: Mining Biological Semantics
Unsupervised Discovery of Compound Entities for Relationship Extraction
EKAW '08 Proceedings of the 16th international conference on Knowledge Engineering: Practice and Patterns
Spanish Nested Named Entity Recognition Using a Syntax-Dependent Tree Traversal-Based Strategy
MICAI '08 Proceedings of the 7th Mexican International Conference on Artificial Intelligence: Advances in Artificial Intelligence
Joint Extraction of Compound Entities and Relationships from Biomedical Literature
WI-IAT '08 Proceedings of the 2008 IEEE/WIC/ACM International Conference on Web Intelligence and Intelligent Agent Technology - Volume 01
Species disambiguation for biomedical term identification
BioNLP '08 Proceedings of the Workshop on Current Trends in Biomedical Natural Language Processing
Nested named entity recognition
EMNLP '09 Proceedings of the 2009 Conference on Empirical Methods in Natural Language Processing: Volume 1 - Volume 1
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Although recent named entity (NE) annotation efforts involve the markup of nested entities, there has been limited focus on recognising such nested structures. This paper introduces and compares three techniques for modelling and recognising nested entities by means of a conventional sequence tagger. The methods are tested and evaluated on two biomedical data sets that contain entity nesting. All methods yield an improvement over the baseline tagger that is only trained on flat annotation.