Related Experiment Video
Updated: Apr 5, 2026
10:41
Leveraging CyVerse Resources for De Novo Comparative Transcriptomics of Underserved Non-model Organisms
Published on: May 9, 2017
9.7K
Harmonizing SNOMED CT with BioTopLite: An Exercise in Principled Ontology Alignment
Stefan Schulz1, Catalina Martínez-Costa1
1Institute for Medical Informatics, Statistics and Documentation, Medical University of Graz, Austria.
Studies in Health Technology and Informatics
|August 12, 2015
Summary
Aligning SNOMED CT with BioTopLite improves interoperability but faces challenges. This effort enables more connected biomedical ontologies for future clinical terminology versions.
Area of Science:
- Biomedical Informatics
- Ontology Engineering
Background:
- Heterogeneous ontology integration is challenging due to differing upper-level structures.
- SNOMED CT and BioTopLite are key biomedical terminologies/ontologies.
Purpose of the Study:
- To align the clinical terminology SNOMED CT with the formal upper-level ontology BioTopLite.
- To explore the feasibility and implications of using a constrained upper-level ontology for SNOMED CT.
Main Methods:
- Manual mapping of SNOMED CT to BioTopLite by analyzing definitions.
- Interactive checking of mapping steps using descriptive logic classifiers and modular approaches.
- Development of an effective workflow for ontology alignment using modules of varying scales.
Main Results:
- The alignment introduced several constraints at the OWL-DL level.
- A significant portion of classes and relations were successfully mapped.
- Challenges remain in mapping all elements due to structural differences.
Conclusions:
- Aligning SNOMED CT with BioTopLite is generally feasible and beneficial.
- Using a constrained upper-level ontology can enhance future SNOMED CT versions for better interoperability.
- This work has implications for the evolution of SNOMED CT and its integration with other biomedical ontologies.
Related Concept Videos
01:29Modern Molecular Taxonomy
839
Advancements in molecular biology have revolutionized the identification and characterization of bacteria, with multiple methods leveraging DNA sequencing for enhanced precision. As sequencing technologies improve and costs decline, these approaches are increasingly used in clinical, environmental, and evolutionary studies.Multilocus Sequence Typing (MLST) examines several housekeeping genes, essential chromosomal genes encoding cellular functions, to distinguish strains. Approximately...
839
02:16Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes
17.5K
The present-day mitochondrial and chloroplast genomes have retained some of the characteristics of their ancestral prokaryotes and also have acquired new attributes during their evolution within eukaryotic cells. Like prokaryotic genomes, mitochondrial and chloroplast genomes neither bind with histone-like proteins nor show complex packaging into chromosome-like structures, as observed in eukaryotes. Unlike mitotic cell divisions observed in eukaryotic cells, mitochondria and chloroplasts...
17.5K
02:31Synteny and Evolution
4.0K
John H. Renwick first coined the term “synteny” in 1971, which refers to the genes present on the same chromosomes, even if they are not genetically linked. The species with common ancestry tend to show conserved syntenic regions. Therefore, the concept of synteny is nowadays used to describe the evolutionary relationship between species.
Around 80 million years ago, the human and mice lineages diverged from the common ancestor. During the course of evolution, the ancestral...
Around 80 million years ago, the human and mice lineages diverged from the common ancestor. During the course of evolution, the ancestral...
4.0K
02:55Synthetic Biology
5.8K
Synthetic biology is an interdisciplinary science that involves using principles from disciplines such as engineering, molecular biology, cell biology, and systems biology. It involves remodeling existing organisms from nature or constructing completely new synthetic organisms for applications such as protein or enzyme production, bioremediation, value-added macromolecule production, and the addition of desirable traits to crops, to name a few.
Golden rice
Golden rice is a genetically modified...
Golden rice
Golden rice is a genetically modified...
5.8K
01:20Applications of Molecular Taxonomy
660
Molecular taxonomy has revolutionized the understanding and classification of bacteria, providing precise insights into their diversity, evolutionary relationships, and ecological roles. By utilizing molecular techniques such as DNA sequencing and fingerprinting, researchers have made significant strides in various fields related to bacterial studies.Resolving Taxonomic AmbiguitiesMolecular taxonomy has been instrumental in distinguishing closely related bacterial species initially thought to...
660
03:36Genome Annotation and Assembly
22.2K
The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
22.2K