Literature DB >> 18998883

Methodology for creating UMLS content views appropriate for biomedical natural language processing.

Alan R Aronson1, James G Mork, Aurélie Névéol, Sonya E Shooshan, Dina Demner-Fushman.   

Abstract

Given the growth in UMLS Metathesaurus content and the consequent growth in language complexity, it is not surprising that NLP applications that depend on the UMLS are experiencing increased difficulty in maintaining adequate levels of performance. This phenomenon underscores the need for UMLS content views which can support NLP processing of both the biomedical literature and clinical text. We report on experiments designed to provide guidance as to whether to adopt a conservative vs. an aggressive approach to the construction of UMLS content views. We tested three conservative views and two new aggressive views against two NLP applications and found that the conservative views consistently performed better for the literature application, but the most aggressive view performed best for the clinical application.

Mesh:

Year:  2008        PMID: 18998883      PMCID: PMC2655934     

Source DB:  PubMed          Journal:  AMIA Annu Symp Proc        ISSN: 1559-4076


  4 in total

1.  The NLM Indexing Initiative.

Authors:  A R Aronson; O Bodenreider; H F Chang; S M Humphrey; J G Mork; S J Nelson; T C Rindflesch; W J Wilbur
Journal:  Proc AMIA Symp       Date:  2000

2.  Effective mapping of biomedical text to the UMLS Metathesaurus: the MetaMap program.

Authors:  A R Aronson
Journal:  Proc AMIA Symp       Date:  2001

3.  Aggregating UMLS semantic types for reducing conceptual complexity.

Authors:  A T McCray; A Burgun; O Bodenreider
Journal:  Stud Health Technol Inform       Date:  2001

4.  The NLM Indexing Initiative's Medical Text Indexer.

Authors:  Alan R Aronson; James G Mork; Clifford W Gay; Susanne M Humphrey; Willie J Rogers
Journal:  Stud Health Technol Inform       Date:  2004
  4 in total
  10 in total

1.  A bottom-up approach to MEDLINE indexing recommendations.

Authors:  Antonio Jimeno-Yepes; Bartłomiej Wilkowski; James G Mork; Elizabeth Van Lenten; Dina Demner Fushman; Alan R Aronson
Journal:  AMIA Annu Symp Proc       Date:  2011-10-22

2.  An evaluation of the UMLS in representing corpus derived clinical concepts.

Authors:  Jeff Friedlin; Marc Overhage
Journal:  AMIA Annu Symp Proc       Date:  2011-10-22

3.  Extracting Rx information from clinical narrative.

Authors:  James G Mork; Olivier Bodenreider; Dina Demner-Fushman; Rezarta Islamaj Dogan; François-Michel Lang; Zhiyong Lu; Aurélie Névéol; Lee Peters; Sonya E Shooshan; Alan R Aronson
Journal:  J Am Med Inform Assoc       Date:  2010 Sep-Oct       Impact factor: 4.497

4.  An overview of MetaMap: historical perspective and recent advances.

Authors:  Alan R Aronson; François-Michel Lang
Journal:  J Am Med Inform Assoc       Date:  2010 May-Jun       Impact factor: 4.497

5.  Semantic Role Labeling of Clinical Text: Comparing Syntactic Parsers and Features.

Authors:  Yaoyun Zhang; Min Jiang; Jingqi Wang; Hua Xu
Journal:  AMIA Annu Symp Proc       Date:  2017-02-10

6.  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

7.  The potential for automated question answering in the context of genomic medicine: An assessment of existing resources and properties of answers.

Authors:  Casey Lynnette Overby; Peter Tarczy-Hornoch; Dina Demner-Fushman
Journal:  Summit Transl Bioinform       Date:  2009-03-01

8.  The potential for automated question answering in the context of genomic medicine: an assessment of existing resources and properties of answers.

Authors:  Casey Lynnette Overby; Peter Tarczy-Hornoch; Dina Demner-Fushman
Journal:  BMC Bioinformatics       Date:  2009-09-17       Impact factor: 3.169

Review 9.  Clinical information extraction applications: A literature review.

Authors:  Yanshan Wang; Liwei Wang; Majid Rastegar-Mojarad; Sungrim Moon; Feichen Shen; Naveed Afzal; Sijia Liu; Yuqun Zeng; Saeed Mehrabi; Sunghwan Sohn; Hongfang Liu
Journal:  J Biomed Inform       Date:  2017-11-21       Impact factor: 6.317

10.  Knowledge-based biomedical word sense disambiguation: comparison of approaches.

Authors:  Antonio J Jimeno-Yepes; Alan R Aronson
Journal:  BMC Bioinformatics       Date:  2010-11-22       Impact factor: 3.169

  10 in total

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