Literature DB >> 12463920

Finding UMLS Metathesaurus concepts in MEDLINE.

Suresh Srinivasan1, Thomas C Rindflesch, William T Hole, Alan R Aronson, James G Mork.   

Abstract

The entire collection of 11.5 million MEDLINE abstracts was processed to extract 549 million noun phrases using a shallow syntactic parser. English language strings in the 2002 and 2001 releases of the UMLS Metathesaurus were then matched against these phrases using flexible matching techniques. 34% of the Metathesaurus names (occurring in 30% of the concepts) were found in the titles and abstracts of articles in the literature. The matching concepts are fairly evenly chemical and non-chemical in nature and span a wide spectrum of semantic types. This paper details the approach taken and the results of the analysis.

Mesh:

Year:  2002        PMID: 12463920      PMCID: PMC2244184     

Source DB:  PubMed          Journal:  Proc AMIA Symp        ISSN: 1531-605X


  5 in total

1.  Extracting noun phrases for all of MEDLINE.

Authors:  N A Bennett; Q He; K Powell; B R Schatz
Journal:  Proc AMIA Symp       Date:  1999

2.  Aggregating UMLS semantic types for reducing conceptual complexity.

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

3.  Corpus-based statistical screening for phrase identification.

Authors:  W Kim; W J Wilbur
Journal:  J Am Med Inform Assoc       Date:  2000 Sep-Oct       Impact factor: 4.497

4.  Query expansion using the UMLS Metathesaurus.

Authors:  A R Aronson; T C Rindflesch
Journal:  Proc AMIA Annu Fall Symp       Date:  1997

5.  UMLS-based access to CPR data.

Authors:  E M van Mulligen
Journal:  Stud Health Technol Inform       Date:  1998
  5 in total
  15 in total

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Authors:  Qinghua Zou; Wesley W Chu; Craig Morioka; Gregory H Leazer; Hooshang Kangarloo
Journal:  AMIA Annu Symp Proc       Date:  2003

2.  Automated encoding of clinical documents based on natural language processing.

Authors:  Carol Friedman; Lyudmila Shagina; Yves Lussier; George Hripcsak
Journal:  J Am Med Inform Assoc       Date:  2004-06-07       Impact factor: 4.497

3.  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

4.  Improved identification of noun phrases in clinical radiology reports using a high-performance statistical natural language parser augmented with the UMLS specialist lexicon.

Authors:  Yang Huang; Henry J Lowe; Dan Klein; Russell J Cucina
Journal:  J Am Med Inform Assoc       Date:  2005-01-31       Impact factor: 4.497

5.  Inductive creation of an annotation schema for manually indexing clinical conditions from emergency department reports.

Authors:  Wendy W Chapman; John N Dowling
Journal:  J Biomed Inform       Date:  2005-08-22       Impact factor: 6.317

6.  Finding disease-related genomic experiments within an international repository: first steps in translational bioinformatics.

Authors:  Atul J Butte; Rong Chen
Journal:  AMIA Annu Symp Proc       Date:  2006

7.  A knowledge-anchored integrative image search and retrieval system.

Authors:  Selnur Erdal; Umit V Catalyurek; Philip R O Payne; Joel Saltz; Jyoti Kamal; Metin N Gurcan
Journal:  J Digit Imaging       Date:  2007-11-27       Impact factor: 4.056

8.  A Comprehensive Analysis of Five Million UMLS Metathesaurus Terms Using Eighteen Million MEDLINE Citations.

Authors:  Rong Xu; Mark A Musen; Nigam H Shah
Journal:  AMIA Annu Symp Proc       Date:  2010-11-13

9.  NLP-based identification of pneumonia cases from free-text radiological reports.

Authors:  Peter L Elkin; David Froehling; Dietlind Wahner-Roedler; Brett Trusko; Gail Welsh; Haobo Ma; Armen X Asatryan; Jerome I Tokars; S Trent Rosenbloom; Steven H Brown
Journal:  AMIA Annu Symp Proc       Date:  2008-11-06

10.  Rewriting and suppressing UMLS terms for improved biomedical term identification.

Authors:  Kristina M Hettne; Erik M van Mulligen; Martijn J Schuemie; Bob Ja Schijvenaars; Jan A Kors
Journal:  J Biomed Semantics       Date:  2010-03-31
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