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Machine learning with biomedical ontologies

A paper on using biomedical ontologies in machine learning methods.

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Machine learning with biomedical ontologies

By Maxat Kulmanov, Fatima Zohra Smaili, Xin Gao, Robert HoehndorfbioRxiv (Cold Spring Harbor Laboratory)
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The authors provide an overview of methods that combine ontologies and machine learning. They outline how semantic similarity measures and ontology embeddings can exploit background knowledge in biomedical ontologies, and how ontologies can improve machine learning models by providing constraints.

The methods and experiments are available as executable notebooks.

Abstract

The authors provide an overview of methods that combine ontologies and machine learning. They outline how semantic similarity measures and ontology embeddings can exploit background knowledge in biomedical ontologies, and how ontologies can improve machine learning models by providing constraints. The methods and experiments are available as executable notebooks.

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machine learningbiomedical ontologiessemantic similarity measuresontology embeddingsOntology & TaxonomySemantic InteroperabilityKnowledge GraphsAI Agents
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