Literature DB >> 16049233

Relationship structures and semantic type assignments of the UMLS Enriched Semantic Network.

Li Zhang1, Michael Halper, Yehoshua Perl, James Geller, James J Cimino.   

Abstract

OBJECTIVE: The Enriched Semantic Network (ESN) was introduced as an extension of the Unified Medical Language System (UMLS) Semantic Network (SN). Its multiple subsumption configuration and concomitant multiple inheritance make the ESN's relationship structures and semantic type assignments different from those of the SN. A technique for deriving the relationship structures of the ESN's semantic types and an automated technique for deriving the ESN's semantic type assignments from those of the SN are presented.
DESIGN: The technique to derive the ESN's relationship structures finds all newly inherited relationships in the ESN. All such relationships are audited for semantic validity, and the blocking mechanism is used to block invalid relationships. The mapping technique to derive the ESN's semantic type assignments uses current SN semantic type assignments and preserves nonredundant categorizations, while preventing new redundant categorizations.
RESULTS: Among the 426 newly inherited relationships, 326 are deemed valid. Seven blockings are applied to avoid inheritance of the 100 invalid relationships. Sixteen semantic types have different relationship structures in the ESN as compared to those in the SN. The mapping of semantic type assignments from the SN to the ESN avoids the generation of 26,950 redundant categorizations. The resulting ESN contains 138 semantic types, 149 IS-A links, 7,303 relationships, and 1,013,876 semantic type assignments.
CONCLUSION: The ESN's multiple inheritance provides more complete relationship structures than in the SN. The ESN's semantic type assignments avoid the existing redundant categorizations appearing in the SN and prevent new ones that might arise due to multiple parents. Compared to the SN, the ESN provides a more accurate unifying semantic abstraction of the UMLS Metathesaurus.

Mesh:

Year:  2005        PMID: 16049233      PMCID: PMC1294037          DOI: 10.1197/jamia.M1605

Source DB:  PubMed          Journal:  J Am Med Inform Assoc        ISSN: 1067-5027            Impact factor:   4.497


  14 in total

1.  Representing genomic knowledge in the UMLS semantic network.

Authors:  H Yu; C Friedman; A Rhzetsky; P Kra
Journal:  Proc AMIA Symp       Date:  1999

2.  Representing the UMLS as an object-oriented database: modeling issues and advantages.

Authors:  H Gu; Y Perl; J Geller; M Halper; L M Liu; J J Cimino
Journal:  J Am Med Inform Assoc       Date:  2000 Jan-Feb       Impact factor: 4.497

3.  The role of definitions in biomedical concept representation.

Authors:  J Michael; J L Mejino; C Rosse
Journal:  Proc AMIA Symp       Date:  2001

4.  Mapping the UMLS Semantic Network into general ontologies.

Authors:  A Burgun; O Bodenreider
Journal:  Proc AMIA Symp       Date:  2001

5.  Auditing the UMLS for redundant classifications.

Authors:  Yi Peng; Michael H Halper; Yehoshua Perl; James Geller
Journal:  Proc AMIA Symp       Date:  2002

6.  Research on structural issues of the UMLS--past, present, and future.

Authors:  Yehoshua Perl; James Geller
Journal:  J Biomed Inform       Date:  2003-12       Impact factor: 6.317

7.  A reference ontology for biomedical informatics: the Foundational Model of Anatomy.

Authors:  Cornelius Rosse; José L V Mejino
Journal:  J Biomed Inform       Date:  2003-12       Impact factor: 6.317

8.  Making the conceptual connections: the Unified Medical Language System (UMLS) after a decade of research and development.

Authors:  A T McCray; R A Miller
Journal:  J Am Med Inform Assoc       Date:  1998 Jan-Feb       Impact factor: 4.497

9.  The UMLS Metathesaurus: representing different views of biomedical concepts.

Authors:  P L Schuyler; W T Hole; M S Tuttle; D D Sherertz
Journal:  Bull Med Libr Assoc       Date:  1993-04

10.  An enriched unified medical language system semantic network with a multiple subsumption hierarchy.

Authors:  Li Zhang; Yehoshua Perl; Michael Halper; James Geller; James J Cimino
Journal:  J Am Med Inform Assoc       Date:  2004-02-05       Impact factor: 4.497

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Authors:  C Paul Morrey; James Geller; Michael Halper; Yehoshua Perl
Journal:  J Biomed Inform       Date:  2009-06       Impact factor: 6.317

6.  Mapping anatomical related entities to human body parts based on wikipedia in discharge summaries.

Authors:  Yipei Wang; Xingyu Fan; Luoxin Chen; Eric I-Chao Chang; Sophia Ananiadou; Junichi Tsujii; Yan Xu
Journal:  BMC Bioinformatics       Date:  2019-08-17       Impact factor: 3.169

7.  Robust parameter extraction for decision support using multimodal intensive care data.

Authors:  G D Clifford; W J Long; G B Moody; P Szolovits
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2009-01-28       Impact factor: 4.226

8.  A chemical specialty semantic network for the Unified Medical Language System.

Authors:  C Paul Morrey; Yehoshua Perl; Michael Halper; Ling Chen; Huanying Helen Gu
Journal:  J Cheminform       Date:  2012-05-11       Impact factor: 5.514

  8 in total

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