Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Videos

How granularity issues concern biomedical ontology integration.

Stefan Schulz1, Martin Boeker, Holger Stenzhorn

  • 1Institute of Medical Biometry and Medical Informatics, University Medical Center Freiburg, Germany. stschulz@uni-freiburg.de

Studies in Health Technology and Informatics
|May 20, 2008
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Effectiveness of Guideline-Based Clinical Decision Support Systems: Protocol for a Systematic Review.

JMIR research protocols·2026
Same author

An Event-Condition-Action (ECA)-Based Formalization of Clinical Guidelines.

Studies in health technology and informatics·2026
Same author

Language Models for Automatic Clinical Coding in Veterinary Texts: Experimental Results.

Studies in health technology and informatics·2026
Same author

Standardized Information Model for Clinical Texts: The MII Core Data Set Module Document.

Studies in health technology and informatics·2026
Same author

Data Quality in the ProVal-MS Study: Challenges and Lessons Learned.

Studies in health technology and informatics·2026
Same author

Developing recommendations on ethical aspects affecting studies in health professions education research.

GMS journal for medical education·2026
Same journal

The Essential Components and Critical Conditions for Success in a Learning Health System in Oncology.

Studies in health technology and informatics·2026
Same journal

Use of Artificial Intelligence in Screening for Adolescent Idiopathic Scoliosis: A Scoping Review.

Studies in health technology and informatics·2026
Same journal

Movement Related Biomechanics in Adolescent Idiopathic Scoliosis: A Review of Reviews.

Studies in health technology and informatics·2026
Same journal

The Impact of Surgical Correction of Adolescent Idiopathic Scoliosis Using Posterior Spinal Fusion on Selected Radiological Parameters and Respiratory Function.

Studies in health technology and informatics·2026
Same journal

Acute Effect of Physio-logic® Exercises on Muscle Tone and Stiffness in Adolescent Idiopathic Scoliosis Patients: A Preliminary Study.

Studies in health technology and informatics·2026
Same journal

Effects of Integrated Music and Occupational Therapy on Motor and Autonomic Function in Children with Neurogenic Scoliosis.

Studies in health technology and informatics·2026
See all related articles

Upper ontologies like BioTop enhance data sharing. Integrating BioTop with the Basic Formal Ontology (BFO) requires ignoring BFO

Area of Science:

  • Biomedical Informatics
  • Ontology Engineering
  • Bioinformatics

Background:

  • Upper ontologies are crucial for interoperability and data sharing across scientific domains.
  • BioTop has been developed as a top-domain ontology for the biomolecular and biomedical fields.
  • Integrating specialized ontologies with upper-level ontologies presents significant challenges.

Purpose of the Study:

  • To address concrete integration problems encountered when aligning the BioTop ontology with the Basic Formal Ontology (BFO).
  • To investigate issues related to fiat and aggregated objects across different granularity levels during ontology integration.
  • To propose a solution for seamless cross-granularity integration between BioTop and BFO.

Main Methods:

  • Development of BioTop as a top-domain ontology for biomolecular and biomedical data.

Related Experiment Videos

  • Analysis of integration challenges between BioTop and the domain-independent Basic Formal Ontology (BFO).
  • Examination of object types (fiat and aggregated) and granularity levels in the context of ontology integration.

    • Main Results:

    • Identified specific integration problems between BioTop and BFO concerning fiat and aggregated objects.
    • Demonstrated that different granularity levels pose challenges for cross-domain ontology integration.
    • Found that the third level of BFO complicates cross-granularity integration with BioTop.

    Conclusions:

    • Ignoring the third level of the Basic Formal Ontology (BFO) is necessary to avoid hindering cross-granularity integration.
    • This approach facilitates more effective interoperability between BioTop and BFO for biomolecular and biomedical data.
    • The findings provide practical guidance for ontology developers working with BFO and domain-specific ontologies.