Literature DB >> 24551393

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

Christopher Ochs1, Yehoshua Perl1, James Geller1, Michael Halper1, Huanying Gu2, Yan Chen3, Gai Elhanan1.   

Abstract

Abstraction networks are compact summarizations of terminologies used to support orientation and terminology quality assurance (TQA). Area taxonomies and partial-area taxonomies are abstraction networks that have been successfully employed in support of TQA of small SNOMED CT hierarchies. However, nearly half of SNOMED CT's concepts are in the large Procedure and Clinical Finding hierarchies. Abstraction network derivation methodologies applied to those hierarchies resulted in taxonomies that were too large to effectively support TQA. A methodology for deriving sub-taxonomies from large taxonomies is presented, and the resultant smaller abstraction networks are shown to facilitate TQA, allowing for the scaling of our taxonomy-based TQA regimen to large hierarchies. Specifically, sub-taxonomies are derived for the Procedure hierarchy and a review for errors and inconsistencies is performed. Concepts are divided into groups within the sub-taxonomy framework, and it is shown that small groups are statistically more likely to harbor erroneous and inconsistent concepts than large groups.

Mesh:

Year:  2013        PMID: 24551393      PMCID: PMC3900129     

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


  14 in total

1.  Semantic Clarification of the Representation of Procedures and Diseases in SNOMED((R))CT.

Authors:  Stefan Schulz; Udo Hahn; Jeremy Rogers
Journal:  Stud Health Technol Inform       Date:  2005

2.  Structural methodologies for auditing SNOMED.

Authors:  Yue Wang; Michael Halper; Hua Min; Yehoshua Perl; Yan Chen; Kent A Spackman
Journal:  J Biomed Inform       Date:  2006-12-24       Impact factor: 6.317

3.  The semantics of procedures and diseases in SNOMED CT.

Authors:  S Schulz; S Hanser; U Hahn; J Rogers
Journal:  Methods Inf Med       Date:  2006       Impact factor: 2.176

4.  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 5.  A review of auditing methods applied to the content of controlled biomedical terminologies.

Authors:  Xinxin Zhu; Jung-Wei Fan; David M Baorto; Chunhua Weng; James J Cimino
Journal:  J Biomed Inform       Date:  2009-03-12       Impact factor: 6.317

6.  SNOMED reaching its adolescence: ontologists' and logicians' health check.

Authors:  Stefan Schulz; Boontawee Suntisrivaraporn; Franz Baader; Martin Boeker
Journal:  Int J Med Inform       Date:  2008-09-12       Impact factor: 4.046

7.  A survey of SNOMED CT direct users, 2010: impressions and preferences regarding content and quality.

Authors:  Gai Elhanan; Yehoshua Perl; James Geller
Journal:  J Am Med Inform Assoc       Date:  2011-08-11       Impact factor: 4.497

8.  New abstraction networks and a new visualization tool in support of auditing the SNOMED CT content.

Authors:  James Geller; Christopher Ochs; Yehoshua Perl; Junchuan Xu
Journal:  AMIA Annu Symp Proc       Date:  2012-11-03

Review 9.  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

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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  16 in total

1.  An empirically derived taxonomy of errors in SNOMED CT.

Authors:  Jonathan M Mortensen; Mark A Musen; Natalya F Noy
Journal:  AMIA Annu Symp Proc       Date:  2014-11-14

2.  Using the wisdom of the crowds to find critical errors in biomedical ontologies: a study of SNOMED CT.

Authors:  Jonathan M Mortensen; Evan P Minty; Michael Januszyk; Timothy E Sweeney; Alan L Rector; Natalya F Noy; Mark A Musen
Journal:  J Am Med Inform Assoc       Date:  2014-10-23       Impact factor: 4.497

3.  A tribal abstraction network for SNOMED CT target hierarchies without attribute relationships.

Authors:  Christopher Ochs; James Geller; Yehoshua Perl; Yan Chen; Ankur Agrawal; James T Case; George Hripcsak
Journal:  J Am Med Inform Assoc       Date:  2014-10-20       Impact factor: 4.497

4.  Scalable quality assurance for large SNOMED CT hierarchies using subject-based subtaxonomies.

Authors:  Christopher Ochs; James Geller; Yehoshua Perl; Yan Chen; Junchuan Xu; Hua Min; James T Case; Zhi Wei
Journal:  J Am Med Inform Assoc       Date:  2014-10-21       Impact factor: 4.497

5.  Is the Application of SNOMED CT Concept Model sufficiently Quality Assured?

Authors:  J M Rodrigues; S Schulz; B Mizen; A Rector; S Serir
Journal:  AMIA Annu Symp Proc       Date:  2018-04-16

6.  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

7.  Utilizing a structural meta-ontology for family-based quality assurance of the BioPortal ontologies.

Authors:  Christopher Ochs; Zhe He; Ling Zheng; James Geller; Yehoshua Perl; George Hripcsak; Mark A Musen
Journal:  J Biomed Inform       Date:  2016-03-14       Impact factor: 6.317

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

Authors:  Christopher Ochs; James T Case; Yehoshua Perl
Journal:  J Biomed Inform       Date:  2017-02-12       Impact factor: 6.317

Review 9.  Introducing the Big Knowledge to Use (BK2U) challenge.

Authors:  Yehoshua Perl; James Geller; Michael Halper; Christopher Ochs; Ling Zheng; Joan Kapusnik-Uner
Journal:  Ann N Y Acad Sci       Date:  2016-10-17       Impact factor: 5.691

10.  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

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