Cited by 236Biomedical Text Mining and OntologiesNatural Language Processing TechniquesAdvanced Text Analysis Techniques

MedScan, a natural language processing engine for MEDLINE abstracts

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Novichkova, Svetlana, Egorov, Sergei, Daraselia, Nikolai·2003·Bioinformatics

Abstract

MOTIVATION: The importance of extracting biomedical information from scientific publications is well recognized. A number of information extraction systems for the biomedical domain have been reported, but none of them have become widely used in practical applications. Most proposals to date make rather simplistic assumptions about the syntactic aspect of natural language. There is an urgent need for a system that has broad coverage and performs well in real-text applications. RESULTS: We present a general biomedical domain-oriented NLP engine called MedScan that efficiently processes sentences from MEDLINE abstracts and produces a set of regularized logical structures representing the meaning of each sentence. The engine utilizes a specially developed context-free grammar and lexicon. Preliminary evaluation of the system's performance, accuracy, and coverage exhibited encouraging results. Further approaches for increasing the coverage and reducing parsing ambiguity of the engine, as well as its application for information extraction are discussed.

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Crossref · 10.1093/bioinformatics/btg207

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  1. Humprhreys,K., Gaizauskas,R., Azzam,S., Huyck,C., Mitchell,B., Cuningham,H. and Wilks,Y. (1998) Description of the LaSIE-II System as used for MUC-7. Proceedings of the Seventh Message Understanding Conference.

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Authors
Novichkova, S., Egorov, S., & Daraselia, N.
Affiliations
Ariadne Diagnostics (United States) (US)
Corresponding author
Novichkova, Svetlana
Venue
Bioinformatics
Published
2003-09-01
Volume
19
Issue
13
Pages
1699-1706
ISSN
  • 1367-4803 (ISSN-L)
  • 1367-4811
OpenAlex
W2140601463
Cited by
236
References
18
Citations by year
2026: 3 · 2025: 2 · 2024: 5 · 2023: 4 · 2022: 13 · 2021: 6 · 2020: 7 · 2019: 10 · 2018: 6 · 2017: 5 · 2016: 11 · 2015: 7 · 2014: 14 · 2013: 12 · 2012: 12
FWCI
5.30
Type
journal article
Language
en
Open access
Locations
  • Bioinformatics (publishedVersion)
  • PubMed (publishedVersion)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Biomedical Text Mining and Ontologies
  • Physical Sciences › Computer Science › Artificial Intelligence › Natural Language Processing Techniques
  • Physical Sciences › Computer Science › Artificial Intelligence › Advanced Text Analysis Techniques
Keywords
MEDLINE abstracts, biomedical information extraction, natural language processing, context-free grammars, vocabulary, logical structure
MeSH terms
Abstracting and Indexing, Artificial Intelligence, Database Management Systems, Natural Language Processing, Pattern Recognition, Automated, Periodicals as Topic, Subject Headings, MEDLINE, Information Storage and Retrieval, Vocabulary, Controlled

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