Literature DB >> 18629302

Towards a semantic lexicon for biological language processing.

Karin Verspoor1.   

Abstract

This paper explores the use of the resources in the National Library of Medicine's Unified Medical Language System (UMLS) for the construction of a lexicon useful for processing texts in the field of molecular biology. A lexicon is constructed from overlapping terms in the UMLS SPECIALIST lexicon and the UMLS Metathesaurus to obtain both morphosyntactic and semantic information for terms, and the coverage of a domain corpus is assessed. Over 77% of tokens in the domain corpus are found in the constructed lexicon, validating the lexicon's coverage of the most frequent terms in the domain and indicating that the constructed lexicon is potentially an important resource for biological text processing.

Year:  2005        PMID： 18629302      PMCID： PMC2448606          DOI： 10.1002/cfg.451

Source DB:  PubMed          Journal:  Comp Funct Genomics        ISSN： 1531-6912


  5 in total

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Authors:  M Ashburner; C A Ball; J A Blake; D Botstein; H Butler; J M Cherry; A P Davis; K Dolinski; S S Dwight; J T Eppig; M A Harris; D P Hill; L Issel-Tarver; A Kasarskis; S Lewis; J C Matese; J E Richardson; M Ringwald; G M Rubin; G Sherlock
Journal:  Nat Genet       Date:  2000-05       Impact factor: 38.330

2.  Evaluating UMLS strings for natural language processing.

Authors:  A T McCray; O Bodenreider; J D Malley; A C Browne
Journal:  Proc AMIA Symp       Date:  2001

3.  Evaluating the UMLS as a source of lexical knowledge for medical language processing.

Authors:  C Friedman; H Liu; L Shagina; S Johnson; G Hripcsak
Journal:  Proc AMIA Symp       Date:  2001

4.  A semantic lexicon for medical language processing.

Authors:  S B Johnson
Journal:  J Am Med Inform Assoc       Date:  1999 May-Jun       Impact factor: 4.497

Review 5.  How knowledge drives understanding--matching medical ontologies with the needs of medical language processing.

Authors:  U Hahn; M Romacker; S Schulz
Journal:  Artif Intell Med       Date:  1999-01       Impact factor: 5.326
  5 in total
  7 in total

1.  Deriving a probabilistic syntacto-semantic grammar for biomedicine based on domain-specific terminologies.

Authors:  Jung-Wei Fan; Carol Friedman
Journal:  J Biomed Inform       Date:  2011-04-28       Impact factor: 6.317

2.  Extracting semantic lexicons from discharge summaries using machine learning and the C-Value method.

Authors:  Min Jiang; Josh C Denny; Buzhou Tang; Hongxin Cao; Hua Xu
Journal:  AMIA Annu Symp Proc       Date:  2012-11-03

3.  UMLS content views appropriate for NLP processing of the biomedical literature vs. clinical text.

Authors:  Dina Demner-Fushman; James G Mork; Sonya E Shooshan; Alan R Aronson
Journal:  J Biomed Inform       Date:  2010-02-10       Impact factor: 6.317

4.  Corpus-based Approach to Creating a Semantic Lexicon for Clinical Research Eligibility Criteria from UMLS.

Authors:  Zhihui Luo; Robert Duffy; Stephen Johnson; Chunhua Weng
Journal:  Summit Transl Bioinform       Date:  2010-03-01

5.  The BioLexicon: a large-scale terminological resource for biomedical text mining.

Authors:  Paul Thompson; John McNaught; Simonetta Montemagni; Nicoletta Calzolari; Riccardo del Gratta; Vivian Lee; Simone Marchi; Monica Monachini; Piotr Pezik; Valeria Quochi; C J Rupp; Yutaka Sasaki; Giulia Venturi; Dietrich Rebholz-Schuhmann; Sophia Ananiadou
Journal:  BMC Bioinformatics       Date:  2011-10-12       Impact factor: 3.169

6.  Identifying named entities from PubMed for enriching semantic categories.

Authors:  Sun Kim; Zhiyong Lu; W John Wilbur
Journal:  BMC Bioinformatics       Date:  2015-02-21       Impact factor: 3.169

7.  Ontology quality assurance through analysis of term transformations.

Authors:  Karin Verspoor; Daniel Dvorkin; K Bretonnel Cohen; Lawrence Hunter
Journal:  Bioinformatics       Date:  2009-06-15       Impact factor: 6.937
  7 in total

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