Literature DB >> 30815106

Leveraging Horizontal Density Differences between Ontologies to Identify Missing Child Concepts: A Proof of Concept.

Vipina K Keloth1, Zhe He2, Yan Chen3, James Geller1.   

Abstract

Previously, we investigated pairs of ontologies with local similarities where corresponding "is-a" paths are of different lengths. This indicated the possibility of importing concepts from one ontology into the other. We referred to such structures as diamonds of concepts. In this paper, we address the question whether pairs of identical concepts in pairs of ontologies have the same children in both. Separate reviews of SNOMED CT and NCIt relative to eight other ontologies uncovered differences in child sets. We provide quantitative data concerning these differences. In cases where there are many identical children in two ontologies, the questions arise why one has more children and whether these children are "missing" in the other ontology. We performed randomized controlled trials in which a human expert evaluated the "fit for import" of such potentially missing child concepts. In two out of four studies, statistical significance was achieved in support of algorithmic import.

Entities:  

Mesh:

Year:  2018        PMID: 30815106      PMCID: PMC6371323     

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


  14 in total

1.  Circular hierarchical relationships in the UMLS: etiology, diagnosis, treatment, complications and prevention.

Authors:  O Bodenreider
Journal:  Proc AMIA Symp       Date:  2001

2.  The Unified Medical Language System (UMLS): integrating biomedical terminology.

Authors:  Olivier Bodenreider
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

3.  Auditing hierarchical cycles to locate other inconsistencies in the UMLS.

Authors:  Michael Halper; C Paul Morrey; Yan Chen; Gai Elhanan; George Hripcsak; Yehoshua Perl
Journal:  AMIA Annu Symp Proc       Date:  2011-10-22

Review 4.  Desiderata for controlled medical vocabularies in the twenty-first century.

Authors:  J J Cimino
Journal:  Methods Inf Med       Date:  1998-11       Impact factor: 2.176

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

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

6.  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

7.  Rule-based support system for multiple UMLS semantic type assignments.

Authors:  James Geller; Zhe He; Yehoshua Perl; C Paul Morrey; Julia Xu
Journal:  J Biomed Inform       Date:  2012-10-03       Impact factor: 6.317

8.  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

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.  Preliminary Analysis of Difficulty of Importing Pattern-Based Concepts into the National Cancer Institute Thesaurus.

Authors:  Zhe He; James Geller
Journal:  Stud Health Technol Inform       Date:  2016
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  5 in total

1.  A lexical-based approach for exhaustive detection of missing hierarchical IS-A relations in SNOMED CT.

Authors:  Fengbo Zheng; Jay Shi; Licong Cui
Journal:  AMIA Annu Symp Proc       Date:  2021-01-25

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

Authors:  Vipina K Keloth; Zhe He; Gai Elhanan; James Geller
Journal:  J Biomed Inform       Date:  2019-05-07       Impact factor: 6.317

3.  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

4.  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 5.  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

  5 in total

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