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Updated: Jun 9, 2026

A Knowledge Graph Approach to Elucidate the Role of Organellar Pathways in Disease via Biomedical Reports
Published on: October 13, 2023
Ontology- and graph-based similarity assessment in biological networks
Haiying Wang1, Huiru Zheng, Francisco Azuaje
1Computer Science Research Institute, School of Computing and Mathematics, University of Ulster.
Summary:
A standard systems-based approach to biomarker and drug target discovery consists of placing putative biomarkers in the context of a network of biological interactions, followed by different 'guilt-by-association' analyses. The latter is typically done based on network structural features. Here, an alternative analysis approach in which the networks are analyzed on a 'semantic similarity' space is reported. Such information is extracted from ontology-based functional annotations. We present SimTrek, a Cytoscape plugin for ontology-based similarity assessment in biological networks.
Availability:
http://rosalind.infj.ulst.ac.uk/SimTrek.html
Contact:
francisco.azuaje@crp-sante.lu
Supplementary Information:
Supplementary data are available at Bioinformatics online.
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