Automatic Extraction of Biological Information from Scientific Text: Protein-Protein Interactions
Proceedings of the Seventh International Conference on Intelligent Systems for Molecular Biology
A non-projective dependency parser
ANLC '97 Proceedings of the fifth conference on Applied natural language processing
EACL '99 Proceedings of the ninth conference on European chapter of the Association for Computational Linguistics
Extracting the names of genes and gene products with a hidden Markov model
COLING '00 Proceedings of the 18th conference on Computational linguistics - Volume 1
A Probabilistic Model for Identifying Protein Names and their Name Boundaries
CSB '03 Proceedings of the IEEE Computer Society Conference on Bioinformatics
Introduction: named entity recognition in biomedicine
Journal of Biomedical Informatics - Special issue: Named entity recognition in biomedicine
Biomedical named entity recognition using two-phase model based on SVMs
Journal of Biomedical Informatics - Special issue: Named entity recognition in biomedicine
Enhancing performance of protein and gene name recognizers with filtering and integration strategies
Journal of Biomedical Informatics - Special issue: Named entity recognition in biomedicine
A hybrid approach to protein name identification in biomedical texts
Information Processing and Management: an International Journal
Enhancing performance of protein name recognizers using collocation
BioMed '03 Proceedings of the ACL 2003 workshop on Natural language processing in biomedicine - Volume 13
Journal of Biomedical Informatics
Using heuristics, syntax and a local dynamic dictionary for protein name tagging
HLT '02 Proceedings of the second international conference on Human Language Technology Research
Exploiting the contextual cues for bio-entity name recognition in biomedical literature
Journal of Biomedical Informatics
@Note: A workbench for Biomedical Text Mining
Journal of Biomedical Informatics
JNLPBA '04 Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications
Annotating multiple types of biomedical entities: a single word classification approach
JNLPBA '04 Proceedings of the International Joint Workshop on Natural Language Processing in Biomedicine and its Applications
Empirical textual mining to protein entities recognition from pubmed corpus
NLDB'05 Proceedings of the 10th international conference on Natural Language Processing and Information Systems
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This paper introduces four different notions of correctness to be used when measuring the performance of protein name taggers, each of which reflects certain characteristics of the tagger under evaluation. The discussion regarding the different notions is centered around the evaluation of two protein name taggers; Yapex, developed by the authors, and KeX developed by Fukuda et al. (1998). For the purpose of illustrating the difference between the ways of evaluation, both taggers are applied to a test corpus of 101 MEDLINE abstracts in which all occurrences of protein names have been marked up by domain experts.