Literature DB >> 28269858

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

Zhe He1, Yan Chen2, Sherri de Coronado3, Katrina Piskorski4, James Geller5.   

Abstract

The National Cancer Institute Thesaurus (NCIt) is a reference terminology used to support clinical, translational and basic research as well as administrative activities. As medical knowledge evolves, concepts that might be missing from a particular needed subdomain are regularly added to the NCIt. However, terminology development is known to be labor-intensive and error-prone. Therefore, cost-effective semi-automated methods for identifying potentially missing concepts would be useful to terminology curators. Previously, we have developed a structural method leveraging the native term mappings of the Unified Medical Language System to identify potential concepts in several of its source vocabularies to enrich the SNOMED CT. In this paper, we tested an analogous method for NCIt. Concepts from eight UMLS source terminologies were identified as possibilities to enrich NCIt's conceptual content.

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Mesh：

Year:  2017        PMID： 28269858      PMCID： PMC5333219     

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


  16 in total

1.  ICD-9-CM coding for physician billing.

Authors:  R Finnegan
Journal:  J Am Med Rec Assoc       Date:  1989-02

2.  Understanding interobserver agreement: the kappa statistic.

Authors:  Anthony J Viera; Joanne M Garrett
Journal:  Fam Med       Date:  2005-05       Impact factor: 1.756

3.  The NCI Thesaurus quality assurance life cycle.

Authors:  Sherri de Coronado; Lawrence W Wright; Gilberto Fragoso; Margaret W Haber; Elizabeth A Hahn-Dantona; Francis W Hartel; Sharon L Quan; Tracy Safran; Nicole Thomas; Lori Whiteman
Journal:  J Biomed Inform       Date:  2009-06       Impact factor: 6.317

4.  Using WordNet synonym substitution to enhance UMLS source integration.

Authors:  Kuo-Chuan Huang; James Geller; Michael Halper; Yehoshua Perl; Junchuan Xu
Journal:  Artif Intell Med       Date:  2008-12-30       Impact factor: 5.326

5.  Auditing the NCI thesaurus with semantic web technologies.

Authors:  Fleur Mougin; Olivier Bodenreider
Journal:  AMIA Annu Symp Proc       Date:  2008-11-06

6.  A comparative analysis of the density of the SNOMED CT conceptual content for semantic harmonization.

Authors:  Zhe He; James Geller; Yan Chen
Journal:  Artif Intell Med       Date:  2015-04-02       Impact factor: 5.326

7.  High-quality, standard, controlled healthcare terminologies come of age.

Authors:  J J Cimino
Journal:  Methods Inf Med       Date:  2011-03-17       Impact factor: 2.176

8.  A method exploiting syntactic patterns and the UMLS semantics for aligning biomedical ontologies: the case of OBO disease ontologies.

Authors:  Gwenaëlle Marquet; Jean Mosser; Anita Burgun
Journal:  Int J Med Inform       Date:  2007-05-22       Impact factor: 4.046

9.  Categorizing the Relationships between Structurally Congruent Concepts from Pairs of Terminologies for Semantic Harmonization.

Authors:  Zhe He; James Geller; Gai Elhanan
Journal:  AMIA Jt Summits Transl Sci Proc       Date:  2014-04-07

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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  11 in total

1.  Quality Assurance of NCI Thesaurus by Mining Structural-Lexical Patterns.

Authors:  Rashmie Abeysinghe; Michael A Brooks; Jeffery Talbert; Cui Licong
Journal:  AMIA Annu Symp Proc       Date:  2018-04-16

Review 2.  Assessing the practice of biomedical ontology evaluation: Gaps and opportunities.

Authors:  Muhammad Amith; Zhe He; Jiang Bian; Juan Antonio Lossio-Ventura; Cui Tao
Journal:  J Biomed Inform       Date:  2018-02-17       Impact factor: 6.317

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

Authors:  Vipina K Keloth; Zhe He; Yan Chen; James Geller
Journal:  AMIA Annu Symp Proc       Date:  2018-12-05

4.  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

5.  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

6.  Leveraging non-lattice subgraphs for suggestion of new concepts for SNOMED CT.

Authors:  Xubing Hao; Rashmie Abeysinghe; Fengbo Zheng; Licong Cui
Journal:  Proceedings (IEEE Int Conf Bioinformatics Biomed)       Date:  2021-12

7.  Leveraging Non-lattice Subgraphs to Audit Hierarchical Relations in NCI Thesaurus.

Authors:  Rashmie Abeysinghe; Michael A Brooks; Licong Cui
Journal:  AMIA Annu Symp Proc       Date:  2020-03-04

8.  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

9.  A transformation-based method for auditing the IS-A hierarchy of biomedical terminologies in the Unified Medical Language System.

Authors:  Fengbo Zheng; Jay Shi; Yuntao Yang; W Jim Zheng; Licong Cui
Journal:  J Am Med Inform Assoc       Date:  2020-10-01       Impact factor: 4.497

Review 10.  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
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