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@Onto-Med

Onto-Med Research Group

The Onto-Med Research Group conducts basic research in formal ontology, designs formal tools and develops top level, domain and core ontologies.

🙋‍ What is the Onto-Med Research Group?

The Onto-Med Research Group conducts basic research in formal ontology, designs formal tools for constructing and managing ontologies and develops top level ontologies as well as domain and core ontologies for medicine, bio-medicine and biology, but also for other fields. The Onto-Med group uses an interdisciplinary approach, combining methods from logic, computer science, philosophy and cognitive linguistics.

The Onto-Med group considers Formal Ontology as an evolving science which is concerned with systematically developing axiomatic theories that describe forms, structures, and modes of being at different levels of abstraction and granularity. The roots of formal ontology can be traced back to the philosophical investigations of Aristotle and Plato. Their work was creatively enriched during the early Middle Ages by Islamic philosophers, including Avicenna, renowned as one of the history's greatest thinkers and medical scholars.

The Onto-Med Research Group was founded in 2002 and is a result of a collaboration between the Institute for Medical Informatics, Statistics, and Epidemiology (IMISE), Leipzig University, and the Department of Formal Concepts at the Institute for Informatics (IfI), Leipzig University.

🧙 Research

The research is divided in three stages: Foundational Research, Methodological Research, and Applications. The foundational research is devoted to formal ontology and applied logic, the methodological research includes the development of conceptual tools for building and representing of ontologies. The applications are aimed at the development of domain and core ontologies and of software systems.

The main concern of formal ontology is the development and the analysis foundational ontologies and their integration into a unified system. This research draws on philosophy, cognitive science and linguistics. Applied logic is aimed at the formalization of ontologically basic categories and relations and at meta-logical investigations of axiomatic theories.

Methodological research is directed at principles of conceptual modelling, meta-ontological principles, and ontology architectures. Further methodological topics pertain to the structure, definition and specification of categories and to ontology languages.

Applications include the development of domain and core ontologies in the areas of medicine, bio-medicine and life sciences, but also in other areas. Computer-based applications are aimed at the development of software in support of clinical trials, of building and managing of ontologies, and of health care. See our repositories for more information about currently available computer-based applications.

👩‍💻 Some Ontologies that use the General Formal Ontology

Ontology Source IRI
Anthropological Notation Ontology (ANNO) Git https://annosaxfdm.de/ontology/
Biological Core Ontology (GFO-Bio) CVS http://onto.eva.mpg.de/ontologies/gfo-bio.owl
BIOPASS Situation Ontology (BISON) Git http://www.onto-med.de/ontologies/biopass-core.owl
Core Ontology of Phenotyping (COP) Git https://w3id.org/cop/
Risk Identification Ontology (RIO) Git https://w3id.org/rio/
Search Ontology (SON) J Biomed Semantics

🌈 Contribution Guidelines

Feel free to create issues or pull requests in our repositories.

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  1. GFO GFO Public

    The General Formal Ontology is a top-level ontology for conceptual modeling. It includes elaborations of categories like objects, processes, time and space, properties, relations, roles, functions,…

    7 3

  2. COP COP Public

    Core Ontology of Phenotyping

  3. SMOG SMOG Public

    Spreadsheet Model Generator (SMOG): A Lightweight Tool for Object-Spreadsheet Mapping

    Java 3 1

  4. top-deployment top-deployment Public

    Deployment instructions and resources for the TOP Framework

    Smarty 3

Repositories

Showing 10 of 26 repositories
  • top-backend Public

    Spring Boot based backend of the TOP Framework

    Onto-Med/top-backend’s past year of commit activity
    Java 0 MIT 1 12 1 Updated Nov 27, 2024
  • top-data-import Public

    A component of the TOP Framework to convert and import LIFE study data.

    Onto-Med/top-data-import’s past year of commit activity
    Java 0 MIT 0 1 0 Updated Nov 26, 2024
  • GFO Public

    The General Formal Ontology is a top-level ontology for conceptual modeling. It includes elaborations of categories like objects, processes, time and space, properties, relations, roles, functions, facts, and situations.

    Onto-Med/GFO’s past year of commit activity
    7 CC-BY-4.0 3 5 2 Updated Nov 26, 2024
  • top-frontend Public

    JavaScript based frontend of the TOP Framework

    Onto-Med/top-frontend’s past year of commit activity
    Vue 0 MIT 1 4 1 Updated Nov 25, 2024
  • Onto-Med/concept-graphs’s past year of commit activity
    Python 0 GPL-3.0 0 3 0 Updated Nov 22, 2024
  • SMOG Public

    Spreadsheet Model Generator (SMOG): A Lightweight Tool for Object-Spreadsheet Mapping

    Onto-Med/SMOG’s past year of commit activity
    Java 3 MIT 1 1 0 Updated Nov 4, 2024
  • top.de Public

    early draft of the web page for the TOP research group

    Onto-Med/top.de’s past year of commit activity
    CSS 0 MIT 0 2 0 Updated Oct 9, 2024
  • top-deployment Public

    Deployment instructions and resources for the TOP Framework

    Onto-Med/top-deployment’s past year of commit activity
    Smarty 0 MIT 3 6 0 Updated Sep 27, 2024
  • top-api Public

    REST API of the TOP Framework

    Onto-Med/top-api’s past year of commit activity
    Dockerfile 0 MIT 1 4 0 Updated Sep 17, 2024
  • RIO Public

    Risk Identification Ontology (RIO) provides a framework for risk specification and reasoning.

    Onto-Med/RIO’s past year of commit activity
    0 1 2 2 Updated Sep 12, 2024

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