Literature DB >> 28215561

Analyzing structural changes in SNOMED CT's Bacterial infectious diseases using a visual semantic delta.

Christopher Ochs1, James T Case2, Yehoshua Perl3.   

Abstract

Thousands of changes are applied to SNOMED CT's concepts during each release cycle. These changes are the result of efforts to improve or expand the coverage of health domains in the terminology. Understanding which concepts changed, how they changed, and the overall impact of a set of changes is important for editors and end users. Each SNOMED CT release comes with delta files, which identify all of the individual additions and removals of concepts and relationships. These files typically contain tens of thousands of individual entries, overwhelming users. They also do not identify the editorial processes that were applied to individual concepts and they do not capture the overall impact of a set of changes on a subhierarchy of concepts. In this paper we introduce a methodology and accompanying software tool called a SNOMED CT Visual Semantic Delta ("semantic delta" for short) to enable a comprehensive review of changes in SNOMED CT. The semantic delta displays a graphical list of editing operations that provides semantics and context to the additions and removals in the delta files. However, there may still be thousands of editing operations applied to a set of concepts. To address this issue, a semantic delta includes a visual summary of changes that affected sets of structurally and semantically similar concepts. The software tool for creating semantic deltas offers views of various granularities, allowing a user to control how much change information they view. In this tool a user can select a set of structurally and semantically similar concepts and review the editing operations that affected their modeling. The semantic delta methodology is demonstrated on SNOMED CT's Bacterial infectious disease subhierarchy, which has undergone a significant remodeling effort over the last two years.
Copyright © 2017 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  SNOMED CT; Semantic delta; Terminology change analysis; Terminology change summary; Terminology diff; Terminology evolution

Mesh:

Year:  2017        PMID: 28215561      PMCID: PMC5407457          DOI: 10.1016/j.jbi.2017.02.006

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


  37 in total

1.  Testing Three Problem List Terminologies in a simulated data entry environment.

Authors:  Kin Wah Fung; Junchuan Xu; S Trent Rosenbloom; David Mohr; Naveen Maram; Thomas Suther
Journal:  AMIA Annu Symp Proc       Date:  2011-10-22

2.  Analysis of error concentrations in SNOMED.

Authors:  Michael Halper; Yue Wang; Hua Min; Yan Chen; George Hripcsak; Yehoshua Perl; Kent A Spackman
Journal:  AMIA Annu Symp Proc       Date:  2007-10-11

Review 3.  Literature review of SNOMED CT use.

Authors:  Dennis Lee; Nicolette de Keizer; Francis Lau; Ronald Cornet
Journal:  J Am Med Inform Assoc       Date:  2013-07-04       Impact factor: 4.497

4.  Summarizing and visualizing structural changes during the evolution of biomedical ontologies using a Diff Abstraction Network.

Authors:  Christopher Ochs; Yehoshua Perl; James Geller; Melissa Haendel; Matthew Brush; Sivaram Arabandi; Samson Tu
Journal:  J Biomed Inform       Date:  2015-06-03       Impact factor: 6.317

5.  Tracking the Remodeling of SNOMED CT's Bacterial Infectious Diseases.

Authors:  Christopher Ochs; James T Case; Yehoshua Perl
Journal:  AMIA Annu Symp Proc       Date:  2017-02-10

6.  Scalability of abstraction-network-based quality assurance to large SNOMED hierarchies.

Authors:  Christopher Ochs; Yehoshua Perl; James Geller; Michael Halper; Huanying Gu; Yan Chen; Gai Elhanan
Journal:  AMIA Annu Symp Proc       Date:  2013-11-16

Review 7.  Auditing complex concepts of SNOMED using a refined hierarchical abstraction network.

Authors:  Yue Wang; Michael Halper; Duo Wei; Huanying Gu; Yehoshua Perl; Junchuan Xu; Gai Elhanan; Yan Chen; Kent A Spackman; James T Case; George Hripcsak
Journal:  J Biomed Inform       Date:  2011-09-01       Impact factor: 6.317

8.  A unified software framework for deriving, visualizing, and exploring abstraction networks for ontologies.

Authors:  Christopher Ochs; James Geller; Yehoshua Perl; Mark A Musen
Journal:  J Biomed Inform       Date:  2016-06-23       Impact factor: 6.317

Review 9.  Forty years of SNOMED: a literature review.

Authors:  Ronald Cornet; Nicolette de Keizer
Journal:  BMC Med Inform Decis Mak       Date:  2008-10-27       Impact factor: 2.796

10.  Overview and utilization of the NCI thesaurus.

Authors:  Gilberto Fragoso; Sherri de Coronado; Margaret Haber; Frank Hartel; Larry Wright
Journal:  Comp Funct Genomics       Date:  2004
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  3 in total

1.  Overlapping Complex Concepts Have More Commission Errors, Especially in Intensive Terminology Auditing.

Authors:  Ling Zheng; Hao Liu; Yehoshua Perl; James Geller; Christopher Ochs; James T Case
Journal:  AMIA Annu Symp Proc       Date:  2018-12-05

2.  Complex overlapping concepts: An effective auditing methodology for families of similarly structured BioPortal ontologies.

Authors:  Ling Zheng; Yan Chen; Gai Elhanan; Yehoshua Perl; James Geller; Christopher Ochs
Journal:  J Biomed Inform       Date:  2018-05-28       Impact factor: 6.317

3.  SNOMED CT standard ontology based on the ontology for general medical science.

Authors:  Shaker El-Sappagh; Francesco Franda; Farman Ali; Kyung-Sup Kwak
Journal:  BMC Med Inform Decis Mak       Date:  2018-08-31       Impact factor: 2.796

  3 in total

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