ArticleJournal of biomedical semantics2016
The Proteasix Ontology.
Article in Journal of biomedical semantics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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4 citing papers in PubMed.
- Reduced collagen degradation in pelvic urine precedes kidney fibrosis induced by unilateral ureteral obstruction.Scientific reports · 2025Article
- Investigation of the Urinary Peptidome to Unravel Collagen Degradation in Health and Kidney Disease.Proteomics · 2025Article
- A novel urinary biomarker predicts 1-year mortality after discharge from intensive care.Critical care (London, England) · 2020Article
- Deep learning meets ontologies: experiments to anchor the cardiovascular disease ontology in the biomedical literature.Journal of biomedical semantics · 2018Article
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3 authors.
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Abstract
backgroundThe Proteasix Ontology (PxO) is an ontology that supports the Proteasix tool; an open-source peptide-centric tool that can be used to predict automatically and in a large-scale fashion in silico the proteases involved in the generation of proteolytic cleavage fragments (peptides)
methodsThe PxO re-uses parts of the Protein Ontology, the three Gene Ontology sub-ontologies, the Chemical Entities of Biological Interest Ontology, the Sequence Ontology and bespoke extensions to the PxO in support of a series of roles: 1. To describe the known proteases and their target cleaveage sites. 2. To enable the description of proteolytic cleaveage fragments as the outputs of observed and predicted proteolysis. 3. To use knowledge about the function, species and cellular location of a protease and protein substrate to support the prioritisation of proteases in observed and predicted proteolysis.
resultsThe PxO is designed to describe the biological underpinnings of the generation of peptides. The peptide-centric PxO seeks to support the Proteasix tool by separating domain knowledge from the operational knowledge used in protease prediction by Proteasix and to support the confirmation of its analyses and results. AVAILABILITY: The Proteasix Ontology may be found at: http://bioportal.bioontology.org/ontologies/PXO . This ontology is free and open for use by everyone.
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