Literature DB >> 31048072

Alternative classification of identical concepts in different terminologies: Different ways to view the world.

Vipina K Keloth1, Zhe He2, Gai Elhanan3, James Geller4.   

Abstract

In previous research, we have studied concepts that occur in pairs of medical terminologies and are known to be identical, because they have the same ID number in the Unified Medical Language System (UMLS). We observed that such concepts rarely have exactly the same sets of children (=subconcepts) in the two terminologies. The number of common children was found to vary widely. A special situation was identified where the children in one terminology relate to the common parent in a very different way than the children in the other terminology. For example, children in one terminology might subdivide a parent concept by anatomical location in one terminology and by disease kind in the other terminology. We coined the term "alternative classification" (of the same parent concept) for such situations. In previous work, only human experts could recognize alternative classifications. In this paper, we present a mathematically expressed criterion for likely cases of alternative classifications. We compare the recommendations of this criterion, expressed by a mathematical quantity called "EFI" becoming zero, with the decisions of a human expert. It is found that the human expert agreed with the criterion in 72% of all cases, which is a big improvement over having no computable criterion at all. Besides alternative classifications, common parent concepts in a pair of terminologies might also indicate a possible import of a child concept missing in one terminology, different granularities, or errors in either one of the two terminologies. In this paper, we further investigate different kinds of alternative classifications.
Copyright © 2019 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  Alternative classification; Concept import; MEDCIN; NCIt; Ontologies and terminologies; UMLS

Year:  2019        PMID: 31048072      PMCID: PMC7050413          DOI: 10.1016/j.jbi.2019.103193

Source DB:  PubMed          Journal:  J Biomed Inform        ISSN: 1532-0464            Impact factor:   6.317


  17 in total

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Journal:  Nat Genet       Date:  2000-05       Impact factor: 38.330

2.  Granularity, scale and collectivity: when size does and does not matter.

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Journal:  J Biomed Inform       Date:  2005-11-28       Impact factor: 6.317

3.  Formal ontologies in biomedical knowledge representation.

Authors:  S Schulz; L Jansen
Journal:  Yearb Med Inform       Date:  2013

4.  Identifying Granularity Differences between Large Biomedical Ontologies through Rules.

Authors:  Pengfei Sun; Songmao Zhang
Journal:  AMIA Annu Symp Proc       Date:  2010-11-13

5.  Topological-Pattern-Based Recommendation of UMLS Concepts for National Cancer Institute Thesaurus.

Authors:  Zhe He; Yan Chen; Sherri de Coronado; Katrina Piskorski; James Geller
Journal:  AMIA Annu Symp Proc       Date:  2017-02-10

6.  Evaluating the granularity balance of hierarchical relationships within large biomedical terminologies towards quality improvement.

Authors:  Lingyun Luo; Ling Tong; Xiaoxi Zhou; Jose L V Mejino; Chunping Ouyang; Yongbin Liu
Journal:  J Biomed Inform       Date:  2017-10-04       Impact factor: 6.317

7.  The Unified Medical Language System.

Authors:  D A Lindberg; B L Humphreys; A T McCray
Journal:  Methods Inf Med       Date:  1993-08       Impact factor: 2.176

8.  Extended Analysis of Topological-Pattern-Based Ontology Enrichment.

Authors:  Zhe He; Vipina Kuttichi Keloth; Yan Chen; James Geller
Journal:  Proceedings (IEEE Int Conf Bioinformatics Biomed)       Date:  2019-01-24

9.  Perceiving the Usefulness of the National Cancer Institute Metathesaurus for Enriching NCIt with Topological Patterns.

Authors:  Zhe He; Yan Chen; James Geller
Journal:  Stud Health Technol Inform       Date:  2017

10.  Improving the interoperability of biomedical ontologies with compound alignments.

Authors:  Daniela Oliveira; Catia Pesquita
Journal:  J Biomed Semantics       Date:  2018-01-09
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  2 in total

1.  Extending import detection algorithms for concept import from two to three biomedical terminologies.

Authors:  Vipina K Keloth; James Geller; Yan Chen; Julia Xu
Journal:  BMC Med Inform Decis Mak       Date:  2020-12-15       Impact factor: 2.796

Review 2.  A review of auditing techniques for the Unified Medical Language System.

Authors:  Ling Zheng; Zhe He; Duo Wei; Vipina Keloth; Jung-Wei Fan; Luke Lindemann; Xinxin Zhu; James J Cimino; Yehoshua Perl
Journal:  J Am Med Inform Assoc       Date:  2020-10-01       Impact factor: 4.497

  2 in total

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